AGK encodes a mitochondrial acylglycerol kinase with dual roles in lipid metabolism and mitochondrial protein import. Its catalytic activity phosphorylates monoacylglycerol and diacylglycerol to generate lysophosphatidic acid and phosphatidic acid. Independently of lipid kinase activity, AGK is a metazoan TIM22 complex subunit at the mitochondrial inner membrane/intermembrane-space interface, where it supports import and assembly of carrier-type multipass inner-membrane proteins. Biallelic AGK variants cause Sengers syndrome, linking defects in mitochondrial lipid metabolism and TIM22-dependent protein biogenesis to congenital cataracts, cardiomyopathy, skeletal myopathy, and lactic acidosis.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
|
GO:0001729
ceramide kinase activity
|
IBA
GO_REF:0000033 |
REMOVE |
Summary: Direct human evidence does not support ceramide kinase activity for AGK.
Reason: The strongest accessible human enzymology detected AGK activity toward monoacylglycerols and diacylglycerols, while explicitly reporting no significant ceramide or sphingosine phosphorylation. The ceramide kinase annotation is therefore not supported for native human AGK.
Supporting Evidence:
PMID:15939762
Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
PMID:16269826
No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
|
|
GO:0004143
ATP-dependent diacylglycerol kinase activity
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Phylogenetic propagation of ATP-dependent diacylglycerol kinase activity is supported by direct human enzymology.
Reason: AGK directly phosphorylates diacylglycerol to phosphatidic acid in the human study and UniProt records EC 2.7.1.107 for this activity.
Supporting Evidence:
PMID:15939762
AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
file:human/AGK/AGK-uniprot.txt
Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
|
|
GO:0005739
mitochondrion
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Mitochondrial active localization is consistent with direct localization and TIM22-complex evidence.
Reason: The core AGK functions occur in mitochondria: the original lipid-kinase paper localized AGK to mitochondria and later TIM22 studies place AGK at the mitochondrial inner membrane/intermembrane-space face.
Supporting Evidence:
PMID:15939762
Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
file:human/AGK/AGK-uniprot.txt
Mitochondrion inner membrane
|
|
GO:0005886
plasma membrane
|
IBA
GO_REF:0000033 |
REMOVE |
Summary: Plasma-membrane activity is not supported for native human AGK.
Reason: The accessible AGK literature supports mitochondrial localization. The ceramide-kinase paper instead describes HsCERK plasma-membrane localization and distinguishes it from the multiple lipid kinase, so propagation of plasma membrane activity to AGK is unsafe.
Supporting Evidence:
PMID:15939762
Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
PMID:16269826
No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
|
|
GO:0046513
ceramide biosynthetic process
|
IBA
GO_REF:0000033 |
REMOVE |
Summary: Ceramide biosynthetic process is not supported for human AGK.
Reason: Human AGK is better supported as an acylglycerol kinase and TIM22 subunit. The accessible enzymology does not support ceramide phosphorylation, so a ceramide biosynthesis process annotation overstates the evidence.
Supporting Evidence:
PMID:15939762
Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
PMID:16269826
No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
|
|
GO:0047620
acylglycerol kinase activity
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Acylglycerol kinase activity is a core AGK molecular function.
Reason: This is the defining lipid-kinase activity of AGK and is directly supported by the human JCB study.
Supporting Evidence:
PMID:15939762
AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
file:human/AGK/AGK-uniprot.txt
Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
|
|
GO:0046512
sphingosine biosynthetic process
|
IBA
GO_REF:0000033 |
REMOVE |
Summary: Sphingosine biosynthetic process is not supported for human AGK.
Reason: AGK was identified while searching for sphingosine-kinase relatives, but the direct study reported no significant sphingosine phosphorylation. There is no basis here for a sphingosine biosynthesis process annotation.
Supporting Evidence:
PMID:15939762
Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
PMID:16269826
No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
|
|
GO:0001729
ceramide kinase activity
|
IEA
GO_REF:0000120 |
REMOVE |
Summary: Automated ceramide kinase activity is contradicted by accessible human evidence.
Reason: The IEA transfer appears to follow orthology/Rhea logic, but direct human evidence and the ceramide-kinase follow-up do not support ceramide kinase activity for native AGK.
Supporting Evidence:
PMID:15939762
Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
PMID:16269826
No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
|
|
GO:0004143
ATP-dependent diacylglycerol kinase activity
|
IEA
GO_REF:0000120 |
ACCEPT |
Summary: Automated diacylglycerol kinase activity is supported by direct human evidence.
Reason: The IEA call is consistent with the human biochemical characterization and UniProt catalytic-activity record.
Supporting Evidence:
PMID:15939762
AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
file:human/AGK/AGK-uniprot.txt
Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
|
|
GO:0005743
mitochondrial inner membrane
|
IEA
GO_REF:0000044 |
ACCEPT |
Summary: Mitochondrial inner-membrane localization is well supported.
Reason: Multiple direct AGK/TIM22 studies and UniProt place AGK at the mitochondrial inner membrane.
Supporting Evidence:
PMID:15939762
Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
file:human/AGK/AGK-uniprot.txt
Mitochondrion inner membrane
PMID:28712724
TIM22 complex in the mitochondrial inner membrane
|
|
GO:0005758
mitochondrial intermembrane space
|
IEA
GO_REF:0000044 |
ACCEPT |
Summary: Mitochondrial intermembrane-space localization is well supported.
Reason: UniProt and the TIM22 literature place AGK in the intermembrane-space side of the inner membrane, matching this localization annotation.
Supporting Evidence:
file:human/AGK/AGK-uniprot.txt
Mitochondrion intermembrane space
file:human/AGK/AGK-uniprot.txt
Localizes in the mitochondrion intermembrane space, where it associates with the inner membrane
|
|
GO:0016301
kinase activity
|
IEA
GO_REF:0000002 |
MODIFY |
Summary: Generic kinase activity is correct but too broad for AGK.
Reason: AGK is a lipid kinase, and the existing review contains the more informative acylglycerol and diacylglycerol kinase terms. The generic kinase term should be replaced by these specific activities.
Proposed replacements:
acylglycerol kinase activity
ATP-dependent diacylglycerol kinase activity
Supporting Evidence:
PMID:15939762
AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
file:human/AGK/AGK-uniprot.txt
Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
|
|
GO:0047620
acylglycerol kinase activity
|
IEA
GO_REF:0000120 |
ACCEPT |
Summary: Automated acylglycerol kinase activity is supported by direct human evidence.
Reason: This IEA agrees with the experimentally characterized AGK activity.
Supporting Evidence:
PMID:15939762
AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
file:human/AGK/AGK-uniprot.txt
Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
|
|
GO:0005515
protein binding
|
IPI
PMID:28514442 Architecture of the human interactome defines protein commun... |
MARK AS OVER ANNOTATED |
Summary: The HCCS interaction row is a generic protein-binding annotation from a proteome-scale interactome dataset.
Reason: The paper is useful as an interaction resource, but generic protein binding is discouraged and does not define AGK molecular function. AGK-specific core functions are lipid kinase activity and TIM22 complex participation.
Supporting Evidence:
PMID:28514442
BioPlex 2.0 contains more than 29,000 previously unknown co-associations
|
|
GO:0005515
protein binding
|
IPI
PMID:32814053 Interactome Mapping Provides a Network of Neurodegenerative ... |
MARK AS OVER ANNOTATED |
Summary: The HTT interaction row is a generic protein-binding annotation from a neurodegeneration interactome map.
Reason: This high-throughput interaction context does not establish an AGK-specific molecular function. It should not be retained as a core GO MF annotation.
Supporting Evidence:
PMID:32814053
This network reveals interconnectivity across diseases and links many known ND-causing proteins
|
|
GO:0005515
protein binding
|
IPI
PMID:33961781 Dual proteome-scale networks reveal cell-specific remodeling... |
MARK AS OVER ANNOTATED |
Summary: The HCCS interaction row is a generic protein-binding annotation from BioPlex-style AP-MS.
Reason: The evidence supports a broad interaction network resource, not a distinctive AGK function. Generic protein binding should not be treated as core.
Supporting Evidence:
PMID:33961781
Through affinity-purification mass spectrometry, we have created two proteome-scale, cell-line-specific interaction networks
|
|
GO:0005515
protein binding
|
IPI
PMID:37009826 LINC00493-encoded microprotein SMIM26 exerts anti-metastatic... |
MARK AS OVER ANNOTATED |
Summary: The SMIM26 interaction is biologically interesting but generic protein binding is not an informative AGK molecular function.
Reason: PMID:37009826 supports a cancer-context SMIM26-AGK interaction, but native AGK curation should focus on lipid kinase and TIM22 import-complex functions rather than a generic binding term.
Supporting Evidence:
PMID:37009826
SMIM26, but not LINC00493, suppresses ccRCC growth and metastatic lung colonization by interacting with acylglycerol kinase (AGK)
|
|
GO:0001727
lipid kinase activity
|
IEA
GO_REF:0000107 |
MODIFY |
Summary: Lipid kinase activity is true but less specific than the supported AGK activities.
Reason: The annotation should be refined to acylglycerol kinase and ATP-dependent diacylglycerol kinase activity, which are directly supported for human AGK.
Proposed replacements:
acylglycerol kinase activity
ATP-dependent diacylglycerol kinase activity
Supporting Evidence:
PMID:15939762
AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
file:human/AGK/AGK-uniprot.txt
Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
|
|
GO:0016020
membrane
|
IEA
GO_REF:0000120 |
MODIFY |
Summary: Generic membrane localization is correct but too broad for AGK.
Reason: AGK is specifically supported at the mitochondrial inner membrane and intermembrane-space side of that membrane. The broad membrane term loses the biologically important mitochondrial context.
Proposed replacements:
mitochondrial inner membrane
mitochondrial intermembrane space
Supporting Evidence:
PMID:15939762
Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
file:human/AGK/AGK-uniprot.txt
Mitochondrion inner membrane
file:human/AGK/AGK-uniprot.txt
Mitochondrion intermembrane space
file:human/AGK/AGK-uniprot.txt
Localizes in the mitochondrion intermembrane space, where it associates with the inner membrane
|
|
GO:0046486
glycerolipid metabolic process
|
IEA
GO_REF:0000041 |
ACCEPT |
Summary: Glycerolipid metabolic process is a supported non-PN process context for AGK lipid kinase activity.
Reason: AGK phosphorylates monoacylglycerol and diacylglycerol to generate glycerolipid phosphate products, so this broad process annotation is directionally correct.
Supporting Evidence:
PMID:15939762
AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
file:human/AGK/AGK-uniprot.txt
Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
|
|
GO:0005743
mitochondrial inner membrane
|
IDA
PMID:32901109 Cryo-EM structure of the human mitochondrial translocase TIM... |
ACCEPT |
Summary: The TIM22 cryo-EM/ComplexPortal row supports mitochondrial inner-membrane localization.
Reason: The human TIM22 structure includes AGK as part of the mitochondrial inner-membrane translocase complex, matching this localization.
Supporting Evidence:
PMID:32901109
Cryo-EM structure of the human mitochondrial translocase TIM22 complex
|
|
GO:0042721
TIM22 mitochondrial import inner membrane insertion complex
|
IPI
PMID:32901109 Cryo-EM structure of the human mitochondrial translocase TIM... |
ACCEPT |
Summary: AGK is a supported TIM22 complex subunit.
Reason: This is the main PN-relevant AGK role and is supported by independent TIM22 studies plus structural/ComplexPortal curation.
Supporting Evidence:
PMID:32901109
Cryo-EM structure of the human mitochondrial translocase TIM22 complex
PMID:28712724
we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
PMID:28712724
AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
PMID:28712726
we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
PMID:28712726
AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
|
|
GO:0045039
protein insertion into mitochondrial inner membrane
|
IDA
PMID:32901109 Cryo-EM structure of the human mitochondrial translocase TIM... |
ACCEPT |
Summary: AGK participates in protein insertion into the mitochondrial inner membrane through TIM22.
Reason: The specific inner-membrane insertion process is more appropriate than the broad PN protein-transport candidate because AGK functions in the TIM22 carrier-import route.
Supporting Evidence:
file:human/AGK/AGK-notes.md
The strongest PN-relevant role is the TIM22 import-complex role, not a generic protein-transport assertion.
PMID:28712726
we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
PMID:28712726
AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
|
|
GO:0005739
mitochondrion
|
IDA
GO_REF:0000052 |
ACCEPT |
Summary: HPA mitochondrial localization is consistent with AGK biology.
Reason: Independent localization and TIM22 data support AGK as a mitochondrial protein.
Supporting Evidence:
PMID:15939762
Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
file:human/AGK/AGK-uniprot.txt
Mitochondrion inner membrane
|
|
GO:0005741
mitochondrial outer membrane
|
TAS
Reactome:R-HSA-5696074 |
MODIFY |
Summary: Mitochondrial outer membrane is likely the wrong mitochondrial membrane compartment for native AGK.
Reason: Reactome captures AGK lipid-kinase chemistry, but direct AGK/TIM22 evidence places native AGK at the inner membrane/intermembrane-space face rather than the mitochondrial outer membrane.
Proposed replacements:
mitochondrial inner membrane
mitochondrial intermembrane space
Supporting Evidence:
PMID:15939762
Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
file:human/AGK/AGK-uniprot.txt
Mitochondrion inner membrane
file:human/AGK/AGK-uniprot.txt
Mitochondrion intermembrane space
file:human/AGK/AGK-uniprot.txt
Localizes in the mitochondrion intermembrane space, where it associates with the inner membrane
|
|
GO:0001729
ceramide kinase activity
|
ISS
GO_REF:0000024 |
REMOVE |
Summary: Orthology-based ceramide kinase activity is not supported for native human AGK.
Reason: The accessible human evidence does not support AGK as a ceramide kinase and instead directly supports acylglycerol/diacylglycerol kinase activity.
Supporting Evidence:
PMID:15939762
Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
PMID:16269826
No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
|
|
GO:0005739
mitochondrion
|
HTP
PMID:34800366 Quantitative high-confidence human mitochondrial proteome an... |
ACCEPT |
Summary: High-throughput mitochondrial proteome evidence is consistent with AGK localization.
Reason: This HTP localization agrees with direct AGK and TIM22 complex evidence.
Supporting Evidence:
PMID:34800366
We defined a human mitochondrial high-confidence proteome
|
|
GO:0005829
cytosol
|
TAS
Reactome:R-HSA-6802927 |
REMOVE |
Summary: This Reactome cytosol row reflects BRAF/RAF fusion biology, not native AGK.
Reason: The seeded Reactome event is titled for BRAF and RAF fusion mutant dimers. It should not be propagated to native AGK localization, which is mitochondrial.
Supporting Evidence:
file:human/AGK/AGK-notes.md
Several Reactome-derived cytosol rows in the seeded GOA are attached to BRAF/RAF fusion events rather than native AGK biology.
|
|
GO:0005829
cytosol
|
TAS
Reactome:R-HSA-6802932 |
REMOVE |
Summary: This Reactome cytosol row reflects BRAF/RAF fusion biology, not native AGK.
Reason: The seeded Reactome event is titled for dissociation of a BRAF/RAF fusion complex. It should not be used as native AGK cytosol evidence.
Supporting Evidence:
file:human/AGK/AGK-notes.md
Several Reactome-derived cytosol rows in the seeded GOA are attached to BRAF/RAF fusion events rather than native AGK biology.
|
|
GO:0005829
cytosol
|
TAS
Reactome:R-HSA-6802933 |
REMOVE |
Summary: This Reactome cytosol row reflects BRAF/RAF fusion biology, not native AGK.
Reason: The seeded Reactome event is titled for p-BRAF and RAF fusion dimers phosphorylating MAP2Ks, not for native AGK function or localization.
Supporting Evidence:
file:human/AGK/AGK-notes.md
Several Reactome-derived cytosol rows in the seeded GOA are attached to BRAF/RAF fusion events rather than native AGK biology.
|
|
GO:0005829
cytosol
|
TAS
Reactome:R-HSA-6802934 |
REMOVE |
Summary: This Reactome cytosol row reflects BRAF/RAF fusion biology, not native AGK.
Reason: The seeded Reactome event is titled for p-BRAF and RAF fusion dimers binding MAP2Ks and MAPKs, not for native AGK function or localization.
Supporting Evidence:
file:human/AGK/AGK-notes.md
Several Reactome-derived cytosol rows in the seeded GOA are attached to BRAF/RAF fusion events rather than native AGK biology.
|
|
GO:0005829
cytosol
|
TAS
Reactome:R-HSA-6802935 |
REMOVE |
Summary: This Reactome cytosol row reflects BRAF/RAF fusion biology, not native AGK.
Reason: The seeded Reactome event is titled for MAPKs phosphorylated downstream of BRAF and RAF fusion dimers, not for native AGK function or localization.
Supporting Evidence:
file:human/AGK/AGK-notes.md
Several Reactome-derived cytosol rows in the seeded GOA are attached to BRAF/RAF fusion events rather than native AGK biology.
|
|
GO:0004143
ATP-dependent diacylglycerol kinase activity
|
IDA
PMID:15939762 A novel acylglycerol kinase that produces lysophosphatidic a... |
ACCEPT |
Summary: Direct human evidence supports ATP-dependent diacylglycerol kinase activity.
Reason: PMID:15939762 directly characterized AGK phosphorylation of diacylglycerol to phosphatidic acid.
Supporting Evidence:
PMID:15939762
AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
file:human/AGK/AGK-uniprot.txt
Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
|
|
GO:0031966
mitochondrial membrane
|
IDA
PMID:15939762 A novel acylglycerol kinase that produces lysophosphatidic a... |
ACCEPT |
Summary: Direct human evidence supports mitochondrial membrane localization.
Reason: PMID:15939762 localized AGK to mitochondria and subcellular fractions enriched for mitochondrial AGK activity.
Supporting Evidence:
PMID:15939762
Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
file:human/AGK/AGK-uniprot.txt
Mitochondrion inner membrane
|
|
GO:0047620
acylglycerol kinase activity
|
IDA
PMID:15939762 A novel acylglycerol kinase that produces lysophosphatidic a... |
ACCEPT |
Summary: Direct human evidence supports acylglycerol kinase activity.
Reason: PMID:15939762 directly characterized AGK phosphorylation of monoacylglycerol to LPA.
Supporting Evidence:
PMID:15939762
AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
file:human/AGK/AGK-uniprot.txt
Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
|
|
GO:0031966
mitochondrial membrane
|
IDA
PMID:16269826 Further characterization of mammalian ceramide kinase: subst... |
ACCEPT |
Summary: PMID:16269826 supports mitochondrial localization context but not ceramide kinase activity.
Reason: The paper distinguishes HsCERK from the recently described multiple lipid kinase and notes that the latter kinase is mitochondrial. For AGK, this supports mitochondrial membrane localization while arguing against ceramide kinase transfer.
Supporting Evidence:
PMID:16269826
The latter kinase is localized in the mitochondria
|
|
GO:0005743
mitochondrial inner membrane
|
IDA
PMID:28712724 Acylglycerol Kinase Mutated in Sengers Syndrome Is a Subunit... |
ACCEPT |
Summary: PMID:28712724 supports AGK mitochondrial inner-membrane localization.
Reason: This paper identifies AGK as a TIM22 complex constituent at the mitochondrial inner membrane.
Supporting Evidence:
PMID:28712724
we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
PMID:28712724
AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
|
|
GO:0005743
mitochondrial inner membrane
|
IDA
PMID:28712726 Sengers Syndrome-Associated Mitochondrial Acylglycerol Kinas... |
ACCEPT |
Summary: PMID:28712726 supports AGK mitochondrial inner-membrane localization.
Reason: This paper identifies AGK as a human TIM22 protein import complex subunit.
Supporting Evidence:
PMID:28712726
we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
PMID:28712726
AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
|
|
GO:0005758
mitochondrial intermembrane space
|
IDA
PMID:28712724 Acylglycerol Kinase Mutated in Sengers Syndrome Is a Subunit... |
ACCEPT |
Summary: PMID:28712724 supports AGK intermembrane-space/inner-membrane association.
Reason: The TIM22 study places AGK at the mitochondrial inner membrane/intermembrane-space side of the complex.
Supporting Evidence:
PMID:28712724
we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
PMID:28712724
AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
file:human/AGK/AGK-uniprot.txt
Mitochondrion intermembrane space
file:human/AGK/AGK-uniprot.txt
Localizes in the mitochondrion intermembrane space, where it associates with the inner membrane
|
|
GO:0005758
mitochondrial intermembrane space
|
IDA
PMID:28712726 Sengers Syndrome-Associated Mitochondrial Acylglycerol Kinas... |
ACCEPT |
Summary: PMID:28712726 supports AGK intermembrane-space/inner-membrane association.
Reason: The human TIM22 study supports AGK as a mitochondrial import-complex subunit at the inner membrane.
Supporting Evidence:
PMID:28712726
we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
PMID:28712726
AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
file:human/AGK/AGK-uniprot.txt
Mitochondrion intermembrane space
file:human/AGK/AGK-uniprot.txt
Localizes in the mitochondrion intermembrane space, where it associates with the inner membrane
|
|
GO:0042721
TIM22 mitochondrial import inner membrane insertion complex
|
IDA
PMID:28712724 Acylglycerol Kinase Mutated in Sengers Syndrome Is a Subunit... |
ACCEPT |
Summary: PMID:28712724 directly supports AGK as part of the TIM22 complex.
Reason: AGK assembles with TIMM22 and TIMM29 and supports import of multi-spanning membrane proteins.
Supporting Evidence:
PMID:28712724
we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
PMID:28712724
AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
|
|
GO:0042721
TIM22 mitochondrial import inner membrane insertion complex
|
IDA
PMID:28712726 Sengers Syndrome-Associated Mitochondrial Acylglycerol Kinas... |
ACCEPT |
Summary: PMID:28712726 directly supports AGK as part of the human TIM22 complex.
Reason: AGK maintains TIM22 complex integrity and facilitates carrier import and assembly.
Supporting Evidence:
PMID:28712726
we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
PMID:28712726
AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
|
|
GO:0045039
protein insertion into mitochondrial inner membrane
|
IDA
PMID:28712724 Acylglycerol Kinase Mutated in Sengers Syndrome Is a Subunit... |
ACCEPT |
Summary: PMID:28712724 supports AGK involvement in protein insertion into the mitochondrial inner membrane.
Reason: The paper ties AGK-containing TIM22 to import of multi-spanning inner-membrane proteins, matching this process annotation.
Supporting Evidence:
PMID:28712724
we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
PMID:28712724
AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
|
|
GO:0045039
protein insertion into mitochondrial inner membrane
|
IDA
PMID:28712726 Sengers Syndrome-Associated Mitochondrial Acylglycerol Kinas... |
ACCEPT |
Summary: PMID:28712726 supports AGK involvement in protein insertion into the mitochondrial inner membrane.
Reason: The paper directly links AGK to TIM22-dependent import and assembly of mitochondrial carrier proteins.
Supporting Evidence:
PMID:28712726
we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
PMID:28712726
AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
|
Q: Does native human AGK have physiologically relevant ceramide kinase activity under any mitochondrial membrane context, or are current ceramide-related annotations orthology/context artifacts?
Suggested experts: Bektas M, Van Veldhoven PP, Stojanovski D
Q: Which AGK surfaces mediate TIM22 complex stabilization independently of the catalytic site, and how do Sengers syndrome variants separate lipid-kinase and import-complex defects?
Suggested experts: Langer T, Ryan MT, Stojanovski D
Q: To what extent does AGK-dependent TIM22 import of sideroflexins (SFXNs) and the resulting one-carbon metabolism defect contribute to Sengers syndrome pathophysiology relative to SLC25/ANT carrier import loss?
Suggested experts: Stojanovski D, Stroud DA
Experiment: Purify or reconstitute human AGK in mitochondrial membrane-like liposomes and compare phosphorylation of monoacylglycerol, diacylglycerol, ceramide, and sphingosine using matched substrate presentation and kinase-dead AGK controls.
Hypothesis: Human AGK does not catalyze physiologically meaningful ceramide phosphorylation in native mitochondrial membranes.
Type: enzyme reconstitution
Experiment: Use endogenous AGK knockout cells rescued with catalytic-site, TIM22-interface, and Sengers syndrome variants, then assay lipid products, TIM22 complex stability, and import/assembly of carrier substrates such as SLC25A4.
Hypothesis: AGK has separable catalytic and TIM22-stabilizing surfaces.
Type: structure-guided rescue and import assay
Experiment: In AGK knockout cells, quantify steady-state SFXN protein levels and TIM22-dependent SFXN import, and test whether serine-restricted proliferation defects are rescued by formate supplementation or by re-expression of kinase-dead AGK.
Hypothesis: AGK loss impairs sideroflexin biogenesis and one-carbon metabolism via the TIM22 import pathway.
Type: import assay with metabolic rescue
The research report should be a detailed narrative explaining the function, biological processes, and localization of the gene product. Citations should be given for all claims.
You should prioritize authoritative reviews and primary scientific literature when conducting research. You can supplement
this with annotations you find in gene/protein databases, but these can be outdated or inaccurate.
We are specifically interested in the primary function of the gene - for enzymes, what reaction is catalyzed, and what is the substrate specificity? For transporters, what is the substrate? For structural proteins or adapters, what is the broader structural role? For signaling molecules, what is the role in the pathway.
We are interested in where in or outside the cell the gene product carries out its function.
We are also interested in the signaling or biochemical pathways in which the gene functions. We are less interested in broad pleiotropic effects, except where these elucidate the precise role.
Include evidence where possible. We are interested in both experimental evidence as well as inference from structure, evolution, or bioinformatic analysis. Precise studies should be prioritized over high-throughput, where available.
The literature retrieved unambiguously matches the UniProt-described human mitochondrial acylglycerol kinase AGK (also called MuLK/MULK) and consistently places it in mitochondria and in the TIM22 inner-membrane protein import pathway, matching the provided identity constraints (human; lipid kinase; mitochondrial; AGK family). Experimental work establishes AGK as a mitochondrial protein, a lipid kinase producing phosphatidic acid (PA) and lysophosphatidic acid (LPA) from acylglycerols, and a structural subunit of the TIM22 carrier translocase. (vukotic2017acylglycerolkinasemutated pages 1-4, vukotic2017acylglycerolkinasemutated pages 4-6, jackson2021thetim22complex pages 1-2)
AGK is a multisubstrate lipid kinase that phosphorylates:
- Diacylglycerol (DAG) → phosphatidic acid (PA)
- Monoacylglycerol (MAG) → lysophosphatidic acid (LPA)
This substrate/product mapping is explicitly described in mitochondrial/TIM22-focused cell biology studies and in patient-focused biochemical genetics reports. (jackson2021thetim22complex pages 1-2, siriwardena2013mitochondrialcitratesynthase pages 8-8)
A conserved catalytic motif is functionally validated: the G126E mutation in the conserved GDG motif abolishes lipid phosphorylation, demonstrating that lipid phosphorylation is an intrinsic AGK enzymatic activity (not merely correlative). (vukotic2017acylglycerolkinasemutated pages 4-6)
PA is a central precursor lipid for synthesis of other mitochondrial phospholipids (notably including cardiolipin through downstream steps). A 2023 expert review of mitochondrial phospholipid metabolism positions AGK-mediated phosphorylation of DAG to PA in the inner mitochondrial membrane (IMM) as a specific intramitochondrial PA-generating route. (joshi2023mitochondrialphospholipidmetabolism pages 3-4)
A central current concept is that AGK has separable roles:
1) Kinase-dependent role in lipid homeostasis that affects mitochondrial membrane architecture (e.g., cristae morphology) and stress responses.
2) Kinase-independent role as a structural subunit required for the assembly/stability and function of the TIM22 protein import machinery.
This functional separation is demonstrated by complementation experiments in which a kinase-dead AGK (G126E) can restore TIM22 complex integrity and carrier import, while kinase activity is required for other mitochondrial structural phenotypes (cristae/apoptotic resistance). (vukotic2017acylglycerolkinasemutated pages 9-11, vukotic2017acylglycerolkinasemutated pages 4-6)
Experimental fractionation and protease-protection assays indicate AGK is:
- Exclusively mitochondrial in cell fractionation.
- Exposed to the intermembrane space (IMS): protected from protease in intact mitochondria but accessible after osmotic swelling that disrupts the outer membrane.
- Associated with the inner membrane without predicted transmembrane segments, consistent with peripheral association (rather than a classical integral multi-pass membrane protein). (vukotic2017acylglycerolkinasemutated pages 4-6)
A figure-based confirmation is available in the Vukotic et al. study showing (i) co-migration of AGK with TIM22 components in native complexes and (ii) protease-protection behavior consistent with IMS localization. (vukotic2017acylglycerolkinasemutated media 2f6e1bf4)
AGK is a bona fide TIM22 complex subunit in human mitochondria:
- AGK co-purifies and co-migrates with TIMM22 and TIMM29.
- AGK is present in a ~400 kDa TIM22 complex.
- Loss of AGK impairs TIM22 assembly, with TIMM22 shifting to a smaller complex (~90 kDa) and TIMM29 largely in ~60 kDa species.
- AGK supports import/biogenesis of inner-membrane carrier proteins including ANT1/ANT3 (adenine nucleotide translocases) and SLC25A24; import of ANT1 is significantly impaired when AGK is absent.
- Import/assembly role is kinase-independent, because kinase-dead AGK can restore TIM22 complex integrity and ANT1 levels. (vukotic2017acylglycerolkinasemutated pages 9-11, vukotic2017acylglycerolkinasemutated pages 4-6, vukotic2017acylglycerolkinasemutated pages 6-7)
Beyond canonical SLC25 carriers, AGK/TIM22 also supports import of sideroflexins (SFXNs), linking AGK dysfunction to impaired mitochondrial one-carbon metabolism (serine dependence and formate-rescuable proliferation defects in cell models). (jackson2021thetim22complex pages 1-2)
Catalytically active AGK is required for cristae maintenance and apoptotic resistance in cell models; catalytically inactive AGK phenocopies knockout for these aspects. This supports a model in which AGK-derived PA/LPA (and/or downstream phospholipid remodeling) contributes to maintaining inner-membrane architecture and robustness under stress. (vukotic2017acylglycerolkinasemutated pages 9-11)
A 2023 authoritative review in Journal of Cell Science synthesizes mitochondrial phospholipid pathways and explicitly identifies AGK-mediated DAG phosphorylation to PA in the IMM as one of the pathways producing intramitochondrial PA for downstream phospholipid synthesis. This reflects consolidation of AGK into the “core map” of mitochondrial lipid metabolism (even though much of the primary enzymology predates 2023). (joshi2023mitochondrialphospholipidmetabolism pages 3-4)
A 2024 thesis-level synthesis discusses recent cryo-EM work on the human TIM22 complex and notes that AGK’s precise structural role/localization within the resolved model remains to be determined, underscoring that high-resolution structural understanding of AGK within TIM22 is still incomplete. (valpadashi2024structuralandfunctional pages 53-53)
A 2024 review of cataract genetics notes that AGK germline variants were first reported in Sengers syndrome, reinforcing AGK’s established role in syndromic congenital cataract phenotypes in current clinical genetics frameworks. (shiels2024 paper retrieved; evidence in this run is limited to bibliographic/contextual mention) (vukotic2017acylglycerolkinasemutated pages 1-4)
Limitations on 2023–2024 Sengers-focused reviews in this run. A 2023 mini-review specifically on “Sengers syndrome and AGK-related disorders” was identified by search but was not retrievable here; therefore, this report’s 2023–2024 disease-specific statistics are limited to the accessible sources above and to older (but foundational) case series. (gong2026casereportsengers pages 5-6, gong2026casereportsengers pages 6-6)
AGK is a clinically relevant gene for molecular diagnosis of Sengers syndrome and related syndromic congenital cataract/cardiomyopathy presentations. Foundational clinical sequencing work screened 13 individuals with congenital cataracts and cardiomyopathy and found 12 predicted loss-of-function AGK alleles in 10 affected individuals, establishing AGK as causal. (mayr2012lackofthe pages 2-4)
An important practical implementation is copy-number variant (CNV) analysis in addition to SNV/indel calling: later clinical reports emphasize that larger deletions/rearrangements can be missed by standard exome pipelines and that CNV interrogation can resolve ambiguous cases; one report notes >30 pathogenic AGK variants overall and that large rearrangements appear rare in publications. (gong2026casereportsengers pages 5-6)
Patient-derived cell assays are used to support pathogenicity of splicing/other variants, including readouts such as oxygen consumption rate (OCR) and OXPHOS complex activities; for example, a novel splice variant case showed reduced OCR metrics and decreased complex I/V activities. (barbosagouveia2021characterizationofa pages 1-2)
No AGK-targeted clinical trials were retrieved in this run. Real-world management described in case literature remains largely supportive, including cardiomyopathy management, cataract surgery when feasible, dietary modifications to limit fasting, and “mitochondrial cocktail” antioxidant supplementation (vitamins, riboflavin, carnitine, etc.). (mayr2012lackofthe pages 4-5, siriwardena2013mitochondrialcitratesynthase pages 2-3)
Outside Sengers syndrome, an experimental therapeutic concept in hematology is targeting AGK–JAK2 interaction: cell-permeable peptides containing a JAK2 JH2-domain sequence increased AGK–JAK2 binding and accelerated proplatelet formation in model systems, proposed as a strategy for thrombocytopenia/thrombocythemia (preclinical concept, not a clinical trial). (jiang2020theroleof pages 5-6)
1) AGK as a node linking lipid metabolism to protein import and membrane architecture. Mechanistic cell biology evidence supports AGK as a dual-function protein: a lipid kinase producing PA/LPA and a TIM22 subunit required for carrier biogenesis; kinase-independent TIM22 assembly versus kinase-dependent cristae integrity suggests two mechanistically distinct but physiologically coupled roles that may both contribute to disease. (vukotic2017acylglycerolkinasemutated pages 9-11, vukotic2017acylglycerolkinasemutated pages 1-4)
2) AGK in canonical mitochondrial lipid maps. The 2023 mitochondrial phospholipid metabolism review’s explicit placement of AGK in IMM PA biosynthesis reflects field-level consolidation of AGK as a bona fide mitochondrial lipid metabolic enzyme (not solely a signaling enzyme). (joshi2023mitochondrialphospholipidmetabolism pages 3-4)
3) Open questions in structural biology. The 2024 TIM22 structural synthesis emphasizes that high-resolution placement/role of AGK in TIM22 remains unresolved in available structural models, highlighting an active research frontier. (valpadashi2024structuralandfunctional pages 53-53)
Examples of quantitative clinical/biochemical readouts include:
- Plasma lactate 7.3 mmol/L (normal 0.5–2.2) in an index infant. (mayr2012lackofthe pages 1-2)
- Lactic acidosis ranging ~4 to 15 mmol/L during stress/fasting and lactate:pyruvate ratio 68:1 in a case series. (siriwardena2013mitochondrialcitratesynthase pages 2-3)
- Enzyme activity measurements in muscle mitochondria showing deficits (units/g protein), e.g. Complex I 23 (normal 28–76) and oligomycin-sensitive ATPase (Complex V) 60 (normal 86–257), plus markedly reduced substrate oxidation rates (e.g., [1-14C]pyruvate+malate+ADP 34 vs 263–900). (mayr2012lackofthe pages 4-5)
- Fibroblast complex I activity reduced to 43% and 54% of controls in two patients in one report. (siriwardena2013mitochondrialcitratesynthase pages 8-8)
Primary biochemical function. AGK is an ATP-dependent lipid kinase that phosphorylates MAG and DAG to generate LPA and PA, respectively. (jackson2021thetim22complex pages 1-2, siriwardena2013mitochondrialcitratesynthase pages 8-8)
Primary cellular site of action. AGK is a mitochondrial protein with IMS exposure/peripheral association with the IMM and functions as a subunit of the human TIM22 carrier translocase. (vukotic2017acylglycerolkinasemutated pages 4-6, vukotic2017acylglycerolkinasemutated media 2f6e1bf4)
Primary pathway roles. AGK contributes to (i) mitochondrial PA production relevant to downstream phospholipid synthesis (including pathways leading to cardiolipin) and (ii) TIM22-dependent insertion/biogenesis of multipass inner-membrane proteins (SLC25 carriers; ANT; SFXNs). (joshi2023mitochondrialphospholipidmetabolism pages 3-4, vukotic2017acylglycerolkinasemutated pages 6-7, jackson2021thetim22complex pages 1-2)
Disease mechanism relevance. Biallelic loss-of-function AGK causes Sengers syndrome; mechanistic links include destabilization of TIM22 and impaired carrier import as well as kinase-dependent mitochondrial membrane/cristae defects. (mayr2012lackofthe pages 1-2, vukotic2017acylglycerolkinasemutated pages 9-11)
| Aspect | Key findings | Best supporting sources (with year) | URL/DOI |
|---|---|---|---|
| Enzyme activity | Human AGK is the verified mitochondrial acylglycerol kinase (also called MuLK/MULK), a multi-substrate lipid kinase; a conserved GDG-motif mutation (G126E) abolishes lipid phosphorylation, supporting direct catalytic activity (vukotic2017acylglycerolkinasemutated pages 4-6, vukotic2017acylglycerolkinasemutated pages 1-4) | Vukotic et al., 2017; Mayr et al., 2012 | https://doi.org/10.1016/j.molcel.2017.06.013 ; https://doi.org/10.1016/j.ajhg.2011.12.005 |
| Substrates/products | AGK phosphorylates monoacylglycerol (MAG) to lysophosphatidic acid (LPA) and diacylglycerol (DAG) to phosphatidic acid (PA); 2023 review places AGK as an intramitochondrial PA-generating route in the inner mitochondrial membrane (jackson2021thetim22complex pages 1-2, siriwardena2013mitochondrialcitratesynthase pages 8-8, joshi2023mitochondrialphospholipidmetabolism pages 3-4) | Jackson et al., 2021; Siriwardena et al., 2013; Joshi et al., 2023 | https://doi.org/10.1091/mbc.e20-06-0390 ; https://doi.org/10.1016/j.ymgme.2012.11.282 ; https://doi.org/10.1242/jcs.260857 |
| Localization/topology | AGK is exclusively mitochondrial by fractionation; protease-protection assays indicate an intermembrane-space (IMS) localization associated with the inner membrane without predicted transmembrane spans (vukotic2017acylglycerolkinasemutated pages 4-6, vukotic2017acylglycerolkinasemutated media 2f6e1bf4) | Vukotic et al., 2017 | https://doi.org/10.1016/j.molcel.2017.06.013 |
| TIM22 role | AGK is a bona fide subunit of the human TIM22 translocase; AGK, TIMM22, and TIMM29 co-migrate in a ~400 kDa complex, and AGK loss disrupts assembly so TIMM22 shifts to ~90 kDa and TIMM29 mainly to ~60 kDa species (vukotic2017acylglycerolkinasemutated pages 4-6, vukotic2017acylglycerolkinasemutated pages 6-7, vukotic2017acylglycerolkinasemutated media 2f6e1bf4) | Vukotic et al., 2017 | https://doi.org/10.1016/j.molcel.2017.06.013 |
| TIM22 substrate import | AGK supports import/accumulation of carrier proteins including ANT1, ANT3, and SLC25A24; ANT1 import is significantly impaired but not abolished in AGK-null mitochondria; rescue by kinase-dead G126E shows the import role is kinase-independent (vukotic2017acylglycerolkinasemutated pages 9-11, vukotic2017acylglycerolkinasemutated pages 6-7) | Vukotic et al., 2017 | https://doi.org/10.1016/j.molcel.2017.06.013 |
| Expanded pathway role | AGK/TIM22 is also required for import of sideroflexins (SFXNs), identifying a novel TIM22 substrate class and linking AGK deficiency to impaired mitochondrial one-carbon metabolism and serine dependence (jackson2021thetim22complex pages 1-2) | Jackson et al., 2021 | https://doi.org/10.1091/mbc.e20-06-0390 |
| Lipid metabolism pathway context | PA generated by AGK in the IMM is positioned upstream of other mitochondrial phospholipids, including cardiolipin biosynthesis; expert reviews interpret AGK as linking mitochondrial phospholipid homeostasis with OXPHOS function (vukotic2017acylglycerolkinasemutated pages 1-4, joshi2023mitochondrialphospholipidmetabolism pages 3-4) | Vukotic et al., 2017; Joshi et al., 2023 | https://doi.org/10.1016/j.molcel.2017.06.013 ; https://doi.org/10.1242/jcs.260857 |
| Structure/cristae and apoptosis | AGK’s kinase activity is dispensable for TIM22 assembly but required for mitochondrial cristae maintenance and apoptotic resistance; catalytically inactive AGK behaves like knockout for cristae/apoptosis phenotypes (vukotic2017acylglycerolkinasemutated pages 9-11) | Vukotic et al., 2017 | https://doi.org/10.1016/j.molcel.2017.06.013 |
| Disease association | Biallelic loss-of-function AGK variants cause Sengers syndrome, classically featuring congenital cataracts, hypertrophic cardiomyopathy, skeletal myopathy/exercise intolerance, and lactic acidosis; AGK is the established disease gene in Open Targets and primary genetics studies (mayr2012lackofthe pages 1-2, mayr2012lackofthe pages 2-4, OpenTargets Search: Sengers syndrome,cardiomyopathy,cataract,mitochondrial disease,cancer-AGK) | Mayr et al., 2012; Open Targets | https://doi.org/10.1016/j.ajhg.2011.12.005 ; https://platform.opentargets.org |
| Variant spectrum / cohort data | In one foundational cohort, AGK sequencing in 13 individuals with congenital cataracts and cardiomyopathy identified 12 predicted loss-of-function alleles in 10 affected individuals; historical summary in the same report noted ~40 individuals described overall by 2012 (mayr2012lackofthe pages 2-4, mayr2012lackofthe pages 1-2) | Mayr et al., 2012 | https://doi.org/10.1016/j.ajhg.2011.12.005 |
| Quantitative mitochondrial protein loss | In patient muscle, AGK protein can be nearly absent/negligible, with mitochondrial immunogold labeling reduced from 37.9±4.6 particles/μm² in control to 14.5±4.9 and 18.9±6.9 particles/μm² in two AGK-deficient patients (siriwardena2013mitochondrialcitratesynthase pages 8-8) | Siriwardena et al., 2013 | https://doi.org/10.1016/j.ymgme.2012.11.282 |
| Quantitative bioenergetic defects | Patient fibroblasts showed decreased complex I activity to 43% and 54% of control in two cases, with high lactate/pyruvate ratios; another index case had plasma lactate 7.3 mmol/L (normal 0.5–2.2 mmol/L) (siriwardena2013mitochondrialcitratesynthase pages 8-8, mayr2012lackofthe pages 1-2) | Siriwardena et al., 2013; Mayr et al., 2012 | https://doi.org/10.1016/j.ymgme.2012.11.282 ; https://doi.org/10.1016/j.ajhg.2011.12.005 |
| Severe neonatal phenotype | A 2021 functionally characterized splice variant (c.518+1G>A) caused fatal neonatal Sengers syndrome with congenital cataracts, dilated cardiomyopathy, hyperlactacidemia, death at 20 h, plus reduced OCR and decreased OXPHOS complexes I and V in fibroblasts (barbosagouveia2021characterizationofa pages 1-2, barbosagouveia2021characterizationofa pages 5-6) | Barbosa-Gouveia et al., 2021 | https://doi.org/10.3390/ijms222413484 |
| Clinical heterogeneity | AGK disease ranges from lethal neonatal/infantile disease to milder forms, including reports of isolated congenital cataract without major cardiomyopathy in some families, indicating variable expressivity despite shared mitochondrial mechanism (mayr2012lackofthe pages 1-2, siriwardena2013mitochondrialcitratesynthase pages 8-10) | Mayr et al., 2012; Siriwardena et al., 2013 | https://doi.org/10.1016/j.ajhg.2011.12.005 ; https://doi.org/10.1016/j.ymgme.2012.11.282 |
Table: This table summarizes the experimentally supported functions, localization, pathway roles, and disease relevance of human AGK (UniProt Q53H12). It emphasizes quantitative findings and the strongest supporting sources for functional annotation.
References
(vukotic2017acylglycerolkinasemutated pages 1-4): Milena Vukotic, Hendrik Nolte, Tim König, Shotaro Saita, Maria Ananjew, Marcus Krüger, Takashi Tatsuta, and Thomas Langer. Acylglycerol kinase mutated in sengers syndrome is a subunit of the tim22 protein translocase in mitochondria. Molecular cell, 67 3:471-483.e7, Aug 2017. URL: https://doi.org/10.1016/j.molcel.2017.06.013, doi:10.1016/j.molcel.2017.06.013. This article has 154 citations and is from a highest quality peer-reviewed journal.
(vukotic2017acylglycerolkinasemutated pages 4-6): Milena Vukotic, Hendrik Nolte, Tim König, Shotaro Saita, Maria Ananjew, Marcus Krüger, Takashi Tatsuta, and Thomas Langer. Acylglycerol kinase mutated in sengers syndrome is a subunit of the tim22 protein translocase in mitochondria. Molecular cell, 67 3:471-483.e7, Aug 2017. URL: https://doi.org/10.1016/j.molcel.2017.06.013, doi:10.1016/j.molcel.2017.06.013. This article has 154 citations and is from a highest quality peer-reviewed journal.
(jackson2021thetim22complex pages 1-2): Thomas D. Jackson, Daniella H. Hock, Kenji M. Fujihara, Catherine S. Palmer, Ann E. Frazier, Yau C. Low, Yilin Kang, Ching-Seng Ang, Nicholas J. Clemons, David R. Thorburn, David A. Stroud, and Diana Stojanovski. The tim22 complex mediates the import of sideroflexins and is required for efficient mitochondrial one-carbon metabolism. Molecular Biology of the Cell, 32:475-491, Mar 2021. URL: https://doi.org/10.1091/mbc.e20-06-0390, doi:10.1091/mbc.e20-06-0390. This article has 43 citations and is from a domain leading peer-reviewed journal.
(siriwardena2013mitochondrialcitratesynthase pages 8-8): Komudi Siriwardena, Nevena MacKay, Valeriy Levandovskiy, Susan Blaser, Julian Raiman, Paul F. Kantor, Cameron Ackerley, Brian H. Robinson, Andreas Schulze, and Jessie M. Cameron. Mitochondrial citrate synthase crystals: novel finding in sengers syndrome caused by acylglycerol kinase (agk) mutations. Molecular genetics and metabolism, 108 1:40-50, Jan 2013. URL: https://doi.org/10.1016/j.ymgme.2012.11.282, doi:10.1016/j.ymgme.2012.11.282. This article has 46 citations and is from a peer-reviewed journal.
(joshi2023mitochondrialphospholipidmetabolism pages 3-4): Alaumy Joshi, Travis H. Richard, and Vishal M. Gohil. Mitochondrial phospholipid metabolism in health and disease. Journal of cell science, Sep 2023. URL: https://doi.org/10.1242/jcs.260857, doi:10.1242/jcs.260857. This article has 32 citations and is from a domain leading peer-reviewed journal.
(vukotic2017acylglycerolkinasemutated pages 9-11): Milena Vukotic, Hendrik Nolte, Tim König, Shotaro Saita, Maria Ananjew, Marcus Krüger, Takashi Tatsuta, and Thomas Langer. Acylglycerol kinase mutated in sengers syndrome is a subunit of the tim22 protein translocase in mitochondria. Molecular cell, 67 3:471-483.e7, Aug 2017. URL: https://doi.org/10.1016/j.molcel.2017.06.013, doi:10.1016/j.molcel.2017.06.013. This article has 154 citations and is from a highest quality peer-reviewed journal.
(vukotic2017acylglycerolkinasemutated media 2f6e1bf4): Milena Vukotic, Hendrik Nolte, Tim König, Shotaro Saita, Maria Ananjew, Marcus Krüger, Takashi Tatsuta, and Thomas Langer. Acylglycerol kinase mutated in sengers syndrome is a subunit of the tim22 protein translocase in mitochondria. Molecular cell, 67 3:471-483.e7, Aug 2017. URL: https://doi.org/10.1016/j.molcel.2017.06.013, doi:10.1016/j.molcel.2017.06.013. This article has 154 citations and is from a highest quality peer-reviewed journal.
(vukotic2017acylglycerolkinasemutated pages 6-7): Milena Vukotic, Hendrik Nolte, Tim König, Shotaro Saita, Maria Ananjew, Marcus Krüger, Takashi Tatsuta, and Thomas Langer. Acylglycerol kinase mutated in sengers syndrome is a subunit of the tim22 protein translocase in mitochondria. Molecular cell, 67 3:471-483.e7, Aug 2017. URL: https://doi.org/10.1016/j.molcel.2017.06.013, doi:10.1016/j.molcel.2017.06.013. This article has 154 citations and is from a highest quality peer-reviewed journal.
(valpadashi2024structuralandfunctional pages 53-53): Anusha Valpadashi. Structural and functional characterization of TIM22 complex in the inner mitochondrial membarne. PhD thesis, University Goettingen Repository, 2024. URL: https://doi.org/10.53846/goediss-10678, doi:10.53846/goediss-10678.
(gong2026casereportsengers pages 5-6): Xingwang Gong, Yue Liu, and Hui Liang. Case report: sengers syndrome caused by a novel 7.6 kb agk deletion misdiagnosed as isolated congenital cataract. Frontiers in Pediatrics, Jan 2026. URL: https://doi.org/10.3389/fped.2026.1714952, doi:10.3389/fped.2026.1714952. This article has 0 citations.
(gong2026casereportsengers pages 6-6): Xingwang Gong, Yue Liu, and Hui Liang. Case report: sengers syndrome caused by a novel 7.6 kb agk deletion misdiagnosed as isolated congenital cataract. Frontiers in Pediatrics, Jan 2026. URL: https://doi.org/10.3389/fped.2026.1714952, doi:10.3389/fped.2026.1714952. This article has 0 citations.
(mayr2012lackofthe pages 2-4): Johannes A. Mayr, Tobias B. Haack, Elisabeth Graf, Franz A. Zimmermann, Thomas Wieland, Birgit Haberberger, Andrea Superti-Furga, Janbernd Kirschner, Beat Steinmann, Matthias R. Baumgartner, Isabella Moroni, Eleonora Lamantea, Massimo Zeviani, Richard J. Rodenburg, Jan Smeitink, Tim M. Strom, Thomas Meitinger, Wolfgang Sperl, and Holger Prokisch. Lack of the mitochondrial protein acylglycerol kinase causes sengers syndrome. American journal of human genetics, 90 2:314-20, Feb 2012. URL: https://doi.org/10.1016/j.ajhg.2011.12.005, doi:10.1016/j.ajhg.2011.12.005. This article has 261 citations and is from a highest quality peer-reviewed journal.
(barbosagouveia2021characterizationofa pages 1-2): Sofia Barbosa-Gouveia, Maria E. Vázquez-Mosquera, Emiliano Gonzalez-Vioque, Álvaro Hermida-Ameijeiras, Laura L. Valverde, Judith Armstrong-Moron, Maria del Carmen Fons-Estupiña, Liesbeth T. Wintjes, Antonia Kappen, Richard J. Rodenburg, and Maria L. Couce. Characterization of a novel splicing variant in acylglycerol kinase (agk) associated with fatal sengers syndrome. International Journal of Molecular Sciences, 22:13484, Dec 2021. URL: https://doi.org/10.3390/ijms222413484, doi:10.3390/ijms222413484. This article has 13 citations.
(mayr2012lackofthe pages 4-5): Johannes A. Mayr, Tobias B. Haack, Elisabeth Graf, Franz A. Zimmermann, Thomas Wieland, Birgit Haberberger, Andrea Superti-Furga, Janbernd Kirschner, Beat Steinmann, Matthias R. Baumgartner, Isabella Moroni, Eleonora Lamantea, Massimo Zeviani, Richard J. Rodenburg, Jan Smeitink, Tim M. Strom, Thomas Meitinger, Wolfgang Sperl, and Holger Prokisch. Lack of the mitochondrial protein acylglycerol kinase causes sengers syndrome. American journal of human genetics, 90 2:314-20, Feb 2012. URL: https://doi.org/10.1016/j.ajhg.2011.12.005, doi:10.1016/j.ajhg.2011.12.005. This article has 261 citations and is from a highest quality peer-reviewed journal.
(siriwardena2013mitochondrialcitratesynthase pages 2-3): Komudi Siriwardena, Nevena MacKay, Valeriy Levandovskiy, Susan Blaser, Julian Raiman, Paul F. Kantor, Cameron Ackerley, Brian H. Robinson, Andreas Schulze, and Jessie M. Cameron. Mitochondrial citrate synthase crystals: novel finding in sengers syndrome caused by acylglycerol kinase (agk) mutations. Molecular genetics and metabolism, 108 1:40-50, Jan 2013. URL: https://doi.org/10.1016/j.ymgme.2012.11.282, doi:10.1016/j.ymgme.2012.11.282. This article has 46 citations and is from a peer-reviewed journal.
(jiang2020theroleof pages 5-6): Haojie Jiang, Zhuo Yu, Nan Ding, Mina Yang, Lin Zhang, Xuemei Fan, Yuan Zhou, Qiang Zou, Jian Hou, Junke Zheng, Lei Zhang, Yanyan Xu, and Junling Liu. The role of agk in thrombocytopoiesis and possible therapeutic strategies. Blood, 136:119-129, Jul 2020. URL: https://doi.org/10.1182/blood.2019003851, doi:10.1182/blood.2019003851. This article has 42 citations and is from a highest quality peer-reviewed journal.
(mayr2012lackofthe pages 1-2): Johannes A. Mayr, Tobias B. Haack, Elisabeth Graf, Franz A. Zimmermann, Thomas Wieland, Birgit Haberberger, Andrea Superti-Furga, Janbernd Kirschner, Beat Steinmann, Matthias R. Baumgartner, Isabella Moroni, Eleonora Lamantea, Massimo Zeviani, Richard J. Rodenburg, Jan Smeitink, Tim M. Strom, Thomas Meitinger, Wolfgang Sperl, and Holger Prokisch. Lack of the mitochondrial protein acylglycerol kinase causes sengers syndrome. American journal of human genetics, 90 2:314-20, Feb 2012. URL: https://doi.org/10.1016/j.ajhg.2011.12.005, doi:10.1016/j.ajhg.2011.12.005. This article has 261 citations and is from a highest quality peer-reviewed journal.
(OpenTargets Search: Sengers syndrome,cardiomyopathy,cataract,mitochondrial disease,cancer-AGK): Open Targets Query (Sengers syndrome,cardiomyopathy,cataract,mitochondrial disease,cancer-AGK, 6 results). Buniello, A. et al. (2025). Open Targets Platform: facilitating therapeutic hypotheses building in drug discovery. Nucleic Acids Research.
(barbosagouveia2021characterizationofa pages 5-6): Sofia Barbosa-Gouveia, Maria E. Vázquez-Mosquera, Emiliano Gonzalez-Vioque, Álvaro Hermida-Ameijeiras, Laura L. Valverde, Judith Armstrong-Moron, Maria del Carmen Fons-Estupiña, Liesbeth T. Wintjes, Antonia Kappen, Richard J. Rodenburg, and Maria L. Couce. Characterization of a novel splicing variant in acylglycerol kinase (agk) associated with fatal sengers syndrome. International Journal of Molecular Sciences, 22:13484, Dec 2021. URL: https://doi.org/10.3390/ijms222413484, doi:10.3390/ijms222413484. This article has 13 citations.
(siriwardena2013mitochondrialcitratesynthase pages 8-10): Komudi Siriwardena, Nevena MacKay, Valeriy Levandovskiy, Susan Blaser, Julian Raiman, Paul F. Kantor, Cameron Ackerley, Brian H. Robinson, Andreas Schulze, and Jessie M. Cameron. Mitochondrial citrate synthase crystals: novel finding in sengers syndrome caused by acylglycerol kinase (agk) mutations. Molecular genetics and metabolism, 108 1:40-50, Jan 2013. URL: https://doi.org/10.1016/j.ymgme.2012.11.282, doi:10.1016/j.ymgme.2012.11.282. This article has 46 citations and is from a peer-reviewed journal.
Deep research provenance: just deep-research-falcon human AGK --fallback perplexity-lite was attempted for this review. Falcon timed out after 600 seconds, then the configured perplexity-lite fallback failed with an API quota error. No provider deep-research file was produced, so this review uses cached publications, UniProt, GOA, and PN project reports directly.
AGK has two separable core activities. It is a mitochondrial lipid kinase that phosphorylates monoacylglycerol and diacylglycerol to produce lysophosphatidic acid and phosphatidic acid PMID:15939762. It is also a kinase-independent TIM22 complex subunit required for carrier-protein import into the mitochondrial inner membrane PMID:28712726.
The direct human lipid-kinase paper does not support sphingosine or ceramide kinase activity as a robust AGK function. It reports significant phosphorylation only for monoacylglycerols and diacylglycerols, not ceramide or sphingosine PMID:15939762. A second ceramide-kinase paper also cautions that no evidence was found for ceramide phosphorylation by the multiple lipid kinase PMID:16269826.
The strongest PN-relevant role is the TIM22 import-complex role, not a generic protein-transport assertion. The PN projection reports AGK -> GO:0042721 TIM22 mitochondrial import inner membrane insertion complex as already in GOA exactly, and separately proposes broad GO:0015031 protein transport from the parent mitochondrial protein-transport class. Because AGK already has the narrower TIM22 complex and protein insertion into mitochondrial inner membrane annotations, adding generic protein transport would reduce specificity rather than improve the review [file:projects/PROTEOSTASIS/reports/pn_projection/pn_projected_annotations.tsv "AGK"; "GO:0015031"; "new_to_goa"; "GO:0042721"; "already_in_goa_exact"].
Several Reactome-derived cytosol rows in the seeded GOA are attached to BRAF/RAF fusion events rather than native AGK biology. They should be removed for AGK because the native protein is experimentally supported as mitochondrial inner-membrane/intermembrane-space associated, and the Reactome event titles in the seeded review refer to BRAF or RAF fusion mutant dimers rather than AGK function.
Generic protein binding rows are treated as over-annotations. The SMIM26 interaction is biologically interesting in renal-cell carcinoma context, but it is not a core molecular function for AGK and should not displace the better-supported lipid kinase and TIM22 complex roles PMID:37009826.
A Falcon deep-research run completed for AGK (the earlier 2026-06-03 attempt had timed out). The report largely CONFIRMS the existing review; below is a synthesis of KEY findings, flagged CONFIRMS / NEW / PROVISIONAL with provenance. PMIDs resolved via PubMed (DOI->PMID) where possible; Jiang 2020 (Blood) and Vukotic 2017 (Mol Cell) PMIDs could not be reliably resolved in this run and are cited by DOI only (not used to alter annotations).
NEW (substrate class / pathway): The TIM22 complex (with AGK) imports sideroflexins (SFXN proteins) as a novel TIM22 substrate class, beyond the canonical SLC25 carriers; AGK loss perturbs SFXN biogenesis and reduces serine-independent proliferation, linking AGK deficiency to impaired mitochondrial one-carbon metabolism [PMID:33476211 Jackson 2021 "we observed down-regulation of SFXN proteins... and show that they represent a novel class of TIM22 complex substrate"; "dysregulation of one-carbon metabolism is a molecular feature in the biology of Sengers syndrome"]. This extends the import role beyond the SLC25/ANT carriers in the existing review.
NEW (pathway context): A 2023 expert review of mitochondrial phospholipid metabolism positions AGK-mediated DAG->PA phosphorylation in the inner mitochondrial membrane as an intramitochondrial PA-generating route, with PA feeding downstream phospholipid synthesis including cardiolipin [PMID:37655851 Joshi 2023, "Mitochondrial phospholipid metabolism in health and disease"]. This situates AGK's lipid-kinase product (PA) upstream of cardiolipin biogenesis; the existing review captures glycerolipid metabolism but not this downstream phospholipid-homeostasis link. PROVISIONAL as a direct AGK->cardiolipin causal claim (review-level synthesis, not direct AGK enzymology).
CONFIRMS (mechanism): Vukotic et al. 2017 (Mol Cell; DOI:10.1016/j.molcel.2017.06.013 — the same study underlying the already-cited PMID:28712724/28712726 cluster) showed the G126E mutation in the conserved GDG catalytic motif abolishes lipid phosphorylation, and that kinase-dead AGK still restores TIM22 complex integrity and ANT1 import — directly supporting the separable kinase-independent import role already in the review. Kinase activity is instead required for cristae maintenance and apoptotic resistance [Vukotic 2017, DOI:10.1016/j.molcel.2017.06.013]. Reinforces existing ACCEPT calls on TIM22/import and the kinase-independent reason text.
CONFIRMS (disease genetics): Mayr et al. 2012 established biallelic loss-of-function AGK as causal for Sengers syndrome (congenital cataracts, hypertrophic cardiomyopathy, skeletal myopathy, lactic acidosis), with AGK loss reducing the adenine nucleotide translocator in the inner membrane in muscle [PMID:22284826 "Lack of the mitochondrial protein acylglycerol kinase causes Sengers syndrome"; "loss of AGK led to a decrease of the adenine nucleotide translocator in the inner mitochondrial membrane in muscle"]. This is the foundational genetics paper already referenced as an additional_reference_id but not previously in the references list; now added.
NEW / PROVISIONAL (non-mitochondrial context): An AGK-JAK2 interaction has been proposed to promote proplatelet formation / thrombopoiesis, with cell-permeable JAK2 JH2-domain peptides increasing AGK-JAK2 binding (preclinical concept) [Jiang 2020, Blood 136:119, DOI:10.1182/blood.2019003851]. PMID unresolved in this run; kept in notes only, not used to add annotations. This is outside the core mitochondrial lipid-kinase/TIM22 roles and may reflect a cytosolic/signaling moonlighting context.
CONFIRMS (localization/topology): Protease-protection and fractionation place AGK exclusively in mitochondria, exposed to the intermembrane space and peripherally associated with the inner membrane without predicted transmembrane segments — consistent with the existing IMM/IMS annotations and the MODIFY of the Reactome outer-membrane row.
Mitochondrial proteostasis|Protein transport|Inner membrane import|TIMM22 complex ; PN-node mapping: type (TIMM22) mapped GO:0042721 TIM22 complex (already_in_goa_exact); group (inner-membrane import) context_only too_broad GO:0044743; class (Protein transport) mapped GO:0015031 protein transport (new_to_goa); branch no_mapping.too_broad_to_propagate, consistent with this.4.3.11, inner-membrane import is a group that covers TIM22, TIM17/23, PAM-associated matrix import, and related inner-membrane sorting routes. The source is useful context for mitochondrial protein import, but protein insertion into mitochondrial inner membrane is too specific for all descendants because reviewed TIM23/PAM components include matrix-import motor and gatekeeper roles. Propagation should come from narrower child nodes such as TIM22 complex, TIM23 complex, or OXA1L-mediated insertion.This file is generated from the current PROTEOSTASIS phase-1 dossier and local gene-review artifacts. Edit the source review, PN mapping, or dossier rather than this generated note when correcting the underlying curation.
id: Q53H12
gene_symbol: AGK
product_type: PROTEIN
status: COMPLETE
taxon:
id: NCBITaxon:9606
label: Homo sapiens
description: AGK encodes a mitochondrial acylglycerol kinase with dual roles in lipid metabolism and mitochondrial protein import. Its catalytic activity phosphorylates monoacylglycerol and diacylglycerol to generate lysophosphatidic acid and phosphatidic acid. Independently of lipid kinase activity, AGK is a metazoan TIM22 complex subunit at the mitochondrial inner membrane/intermembrane-space interface, where it supports import and assembly of carrier-type multipass inner-membrane proteins. Biallelic AGK variants cause Sengers syndrome, linking defects in mitochondrial lipid metabolism and TIM22-dependent protein biogenesis to congenital cataracts, cardiomyopathy, skeletal myopathy, and lactic acidosis.
alternative_products:
- name: '1'
id: Q53H12-1
- name: '2'
id: Q53H12-2
sequence_note: VSP_020925, VSP_020926
existing_annotations:
- term:
id: GO:0001729
label: ceramide kinase activity
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: enables
review:
summary: Direct human evidence does not support ceramide kinase activity for AGK.
action: REMOVE
reason: The strongest accessible human enzymology detected AGK activity toward monoacylglycerols and diacylglycerols, while explicitly reporting no significant ceramide or sphingosine phosphorylation. The ceramide kinase annotation is therefore not supported for native human AGK.
additional_reference_ids:
- PMID:15939762
- PMID:16269826
supported_by:
- reference_id: PMID:15939762
supporting_text: Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
- reference_id: PMID:16269826
supporting_text: No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
- term:
id: GO:0004143
label: ATP-dependent diacylglycerol kinase activity
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: enables
review:
summary: Phylogenetic propagation of ATP-dependent diacylglycerol kinase activity is supported by direct human enzymology.
action: ACCEPT
reason: AGK directly phosphorylates diacylglycerol to phosphatidic acid in the human study and UniProt records EC 2.7.1.107 for this activity.
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:15939762
supporting_text: AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
- term:
id: GO:0005739
label: mitochondrion
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: is_active_in
review:
summary: Mitochondrial active localization is consistent with direct localization and TIM22-complex evidence.
action: ACCEPT
reason: 'The core AGK functions occur in mitochondria: the original lipid-kinase paper localized AGK to mitochondria and later TIM22 studies place AGK at the mitochondrial inner membrane/intermembrane-space face.'
additional_reference_ids:
- PMID:15939762
- PMID:28712724
- PMID:28712726
supported_by:
- reference_id: PMID:15939762
supporting_text: Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Mitochondrion inner membrane
- term:
id: GO:0005886
label: plasma membrane
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: is_active_in
review:
summary: Plasma-membrane activity is not supported for native human AGK.
action: REMOVE
reason: The accessible AGK literature supports mitochondrial localization. The ceramide-kinase paper instead describes HsCERK plasma-membrane localization and distinguishes it from the multiple lipid kinase, so propagation of plasma membrane activity to AGK is unsafe.
additional_reference_ids:
- PMID:15939762
- PMID:16269826
supported_by:
- reference_id: PMID:15939762
supporting_text: Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
- reference_id: PMID:16269826
supporting_text: No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
- term:
id: GO:0046513
label: ceramide biosynthetic process
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: involved_in
review:
summary: Ceramide biosynthetic process is not supported for human AGK.
action: REMOVE
reason: Human AGK is better supported as an acylglycerol kinase and TIM22 subunit. The accessible enzymology does not support ceramide phosphorylation, so a ceramide biosynthesis process annotation overstates the evidence.
additional_reference_ids:
- PMID:15939762
- PMID:16269826
supported_by:
- reference_id: PMID:15939762
supporting_text: Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
- reference_id: PMID:16269826
supporting_text: No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
- term:
id: GO:0047620
label: acylglycerol kinase activity
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: enables
review:
summary: Acylglycerol kinase activity is a core AGK molecular function.
action: ACCEPT
reason: This is the defining lipid-kinase activity of AGK and is directly supported by the human JCB study.
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:15939762
supporting_text: AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
- term:
id: GO:0046512
label: sphingosine biosynthetic process
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: involved_in
review:
summary: Sphingosine biosynthetic process is not supported for human AGK.
action: REMOVE
reason: AGK was identified while searching for sphingosine-kinase relatives, but the direct study reported no significant sphingosine phosphorylation. There is no basis here for a sphingosine biosynthesis process annotation.
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:15939762
supporting_text: Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
- reference_id: PMID:16269826
supporting_text: No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
- term:
id: GO:0001729
label: ceramide kinase activity
evidence_type: IEA
original_reference_id: GO_REF:0000120
qualifier: enables
review:
summary: Automated ceramide kinase activity is contradicted by accessible human evidence.
action: REMOVE
reason: The IEA transfer appears to follow orthology/Rhea logic, but direct human evidence and the ceramide-kinase follow-up do not support ceramide kinase activity for native AGK.
additional_reference_ids:
- PMID:15939762
- PMID:16269826
supported_by:
- reference_id: PMID:15939762
supporting_text: Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
- reference_id: PMID:16269826
supporting_text: No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
- term:
id: GO:0004143
label: ATP-dependent diacylglycerol kinase activity
evidence_type: IEA
original_reference_id: GO_REF:0000120
qualifier: enables
review:
summary: Automated diacylglycerol kinase activity is supported by direct human evidence.
action: ACCEPT
reason: The IEA call is consistent with the human biochemical characterization and UniProt catalytic-activity record.
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:15939762
supporting_text: AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
- term:
id: GO:0005743
label: mitochondrial inner membrane
evidence_type: IEA
original_reference_id: GO_REF:0000044
qualifier: located_in
review:
summary: Mitochondrial inner-membrane localization is well supported.
action: ACCEPT
reason: Multiple direct AGK/TIM22 studies and UniProt place AGK at the mitochondrial inner membrane.
additional_reference_ids:
- PMID:15939762
- PMID:28712724
- PMID:28712726
supported_by:
- reference_id: PMID:15939762
supporting_text: Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Mitochondrion inner membrane
- reference_id: PMID:28712724
supporting_text: TIM22 complex in the mitochondrial inner membrane
- term:
id: GO:0005758
label: mitochondrial intermembrane space
evidence_type: IEA
original_reference_id: GO_REF:0000044
qualifier: located_in
review:
summary: Mitochondrial intermembrane-space localization is well supported.
action: ACCEPT
reason: UniProt and the TIM22 literature place AGK in the intermembrane-space side of the inner membrane, matching this localization annotation.
additional_reference_ids:
- PMID:28712724
- PMID:28712726
supported_by:
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Mitochondrion intermembrane space
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Localizes in the mitochondrion intermembrane space, where it associates with the inner membrane
- term:
id: GO:0016301
label: kinase activity
evidence_type: IEA
original_reference_id: GO_REF:0000002
qualifier: enables
review:
summary: Generic kinase activity is correct but too broad for AGK.
action: MODIFY
reason: AGK is a lipid kinase, and the existing review contains the more informative acylglycerol and diacylglycerol kinase terms. The generic kinase term should be replaced by these specific activities.
proposed_replacement_terms:
- id: GO:0047620
label: acylglycerol kinase activity
- id: GO:0004143
label: ATP-dependent diacylglycerol kinase activity
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:15939762
supporting_text: AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
- term:
id: GO:0047620
label: acylglycerol kinase activity
evidence_type: IEA
original_reference_id: GO_REF:0000120
qualifier: enables
review:
summary: Automated acylglycerol kinase activity is supported by direct human evidence.
action: ACCEPT
reason: This IEA agrees with the experimentally characterized AGK activity.
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:15939762
supporting_text: AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:28514442
qualifier: enables
review:
summary: The HCCS interaction row is a generic protein-binding annotation from a proteome-scale interactome dataset.
action: MARK_AS_OVER_ANNOTATED
reason: The paper is useful as an interaction resource, but generic protein binding is discouraged and does not define AGK molecular function. AGK-specific core functions are lipid kinase activity and TIM22 complex participation.
supported_by:
- reference_id: PMID:28514442
supporting_text: BioPlex 2.0 contains more than 29,000 previously unknown co-associations
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:32814053
qualifier: enables
review:
summary: The HTT interaction row is a generic protein-binding annotation from a neurodegeneration interactome map.
action: MARK_AS_OVER_ANNOTATED
reason: This high-throughput interaction context does not establish an AGK-specific molecular function. It should not be retained as a core GO MF annotation.
supported_by:
- reference_id: PMID:32814053
supporting_text: This network reveals interconnectivity across diseases and links many known ND-causing proteins
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:33961781
qualifier: enables
review:
summary: The HCCS interaction row is a generic protein-binding annotation from BioPlex-style AP-MS.
action: MARK_AS_OVER_ANNOTATED
reason: The evidence supports a broad interaction network resource, not a distinctive AGK function. Generic protein binding should not be treated as core.
supported_by:
- reference_id: PMID:33961781
supporting_text: Through affinity-purification mass spectrometry, we have created two proteome-scale, cell-line-specific interaction networks
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:37009826
qualifier: enables
review:
summary: The SMIM26 interaction is biologically interesting but generic protein binding is not an informative AGK molecular function.
action: MARK_AS_OVER_ANNOTATED
reason: PMID:37009826 supports a cancer-context SMIM26-AGK interaction, but native AGK curation should focus on lipid kinase and TIM22 import-complex functions rather than a generic binding term.
supported_by:
- reference_id: PMID:37009826
supporting_text: SMIM26, but not LINC00493, suppresses ccRCC growth and metastatic lung colonization by interacting with acylglycerol kinase (AGK)
- term:
id: GO:0001727
label: lipid kinase activity
evidence_type: IEA
original_reference_id: GO_REF:0000107
qualifier: enables
review:
summary: Lipid kinase activity is true but less specific than the supported AGK activities.
action: MODIFY
reason: The annotation should be refined to acylglycerol kinase and ATP-dependent diacylglycerol kinase activity, which are directly supported for human AGK.
proposed_replacement_terms:
- id: GO:0047620
label: acylglycerol kinase activity
- id: GO:0004143
label: ATP-dependent diacylglycerol kinase activity
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:15939762
supporting_text: AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
- term:
id: GO:0016020
label: membrane
evidence_type: IEA
original_reference_id: GO_REF:0000120
qualifier: located_in
review:
summary: Generic membrane localization is correct but too broad for AGK.
action: MODIFY
reason: AGK is specifically supported at the mitochondrial inner membrane and intermembrane-space side of that membrane. The broad membrane term loses the biologically important mitochondrial context.
proposed_replacement_terms:
- id: GO:0005743
label: mitochondrial inner membrane
- id: GO:0005758
label: mitochondrial intermembrane space
additional_reference_ids:
- PMID:15939762
- PMID:28712724
- PMID:28712726
supported_by:
- reference_id: PMID:15939762
supporting_text: Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Mitochondrion inner membrane
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Mitochondrion intermembrane space
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Localizes in the mitochondrion intermembrane space, where it associates with the inner membrane
- term:
id: GO:0046486
label: glycerolipid metabolic process
evidence_type: IEA
original_reference_id: GO_REF:0000041
qualifier: involved_in
review:
summary: Glycerolipid metabolic process is a supported non-PN process context for AGK lipid kinase activity.
action: ACCEPT
reason: AGK phosphorylates monoacylglycerol and diacylglycerol to generate glycerolipid phosphate products, so this broad process annotation is directionally correct.
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:15939762
supporting_text: AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
- term:
id: GO:0005743
label: mitochondrial inner membrane
evidence_type: IDA
original_reference_id: PMID:32901109
qualifier: located_in
review:
summary: The TIM22 cryo-EM/ComplexPortal row supports mitochondrial inner-membrane localization.
action: ACCEPT
reason: The human TIM22 structure includes AGK as part of the mitochondrial inner-membrane translocase complex, matching this localization.
additional_reference_ids:
- PMID:28712724
- PMID:28712726
supported_by:
- reference_id: PMID:32901109
supporting_text: Cryo-EM structure of the human mitochondrial translocase TIM22 complex
- term:
id: GO:0042721
label: TIM22 mitochondrial import inner membrane insertion complex
evidence_type: IPI
original_reference_id: PMID:32901109
qualifier: part_of
review:
summary: AGK is a supported TIM22 complex subunit.
action: ACCEPT
reason: This is the main PN-relevant AGK role and is supported by independent TIM22 studies plus structural/ComplexPortal curation.
additional_reference_ids:
- PMID:28712724
- PMID:28712726
supported_by:
- reference_id: PMID:32901109
supporting_text: Cryo-EM structure of the human mitochondrial translocase TIM22 complex
- reference_id: PMID:28712724
supporting_text: we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
- reference_id: PMID:28712724
supporting_text: AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
- reference_id: PMID:28712726
supporting_text: we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
- reference_id: PMID:28712726
supporting_text: AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
- term:
id: GO:0045039
label: protein insertion into mitochondrial inner membrane
evidence_type: IDA
original_reference_id: PMID:32901109
qualifier: involved_in
review:
summary: AGK participates in protein insertion into the mitochondrial inner membrane through TIM22.
action: ACCEPT
reason: The specific inner-membrane insertion process is more appropriate than the broad PN protein-transport candidate because AGK functions in the TIM22 carrier-import route.
additional_reference_ids:
- PMID:28712724
- PMID:28712726
- file:projects/PROTEOSTASIS/reports/pn_projection/pn_projected_annotations.tsv
supported_by:
- reference_id: file:human/AGK/AGK-notes.md
supporting_text: The strongest PN-relevant role is the TIM22 import-complex role, not a generic protein-transport assertion.
- reference_id: PMID:28712726
supporting_text: we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
- reference_id: PMID:28712726
supporting_text: AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
- term:
id: GO:0005739
label: mitochondrion
evidence_type: IDA
original_reference_id: GO_REF:0000052
qualifier: located_in
review:
summary: HPA mitochondrial localization is consistent with AGK biology.
action: ACCEPT
reason: Independent localization and TIM22 data support AGK as a mitochondrial protein.
additional_reference_ids:
- PMID:15939762
- PMID:28712724
- PMID:28712726
supported_by:
- reference_id: PMID:15939762
supporting_text: Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Mitochondrion inner membrane
- term:
id: GO:0005741
label: mitochondrial outer membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-5696074
qualifier: located_in
review:
summary: Mitochondrial outer membrane is likely the wrong mitochondrial membrane compartment for native AGK.
action: MODIFY
reason: Reactome captures AGK lipid-kinase chemistry, but direct AGK/TIM22 evidence places native AGK at the inner membrane/intermembrane-space face rather than the mitochondrial outer membrane.
proposed_replacement_terms:
- id: GO:0005743
label: mitochondrial inner membrane
- id: GO:0005758
label: mitochondrial intermembrane space
additional_reference_ids:
- PMID:15939762
- PMID:28712724
- PMID:28712726
supported_by:
- reference_id: PMID:15939762
supporting_text: Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Mitochondrion inner membrane
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Mitochondrion intermembrane space
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Localizes in the mitochondrion intermembrane space, where it associates with the inner membrane
- term:
id: GO:0001729
label: ceramide kinase activity
evidence_type: ISS
original_reference_id: GO_REF:0000024
qualifier: enables
review:
summary: Orthology-based ceramide kinase activity is not supported for native human AGK.
action: REMOVE
reason: The accessible human evidence does not support AGK as a ceramide kinase and instead directly supports acylglycerol/diacylglycerol kinase activity.
additional_reference_ids:
- PMID:15939762
- PMID:16269826
supported_by:
- reference_id: PMID:15939762
supporting_text: Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
- reference_id: PMID:16269826
supporting_text: No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
- term:
id: GO:0005739
label: mitochondrion
evidence_type: HTP
original_reference_id: PMID:34800366
qualifier: located_in
review:
summary: High-throughput mitochondrial proteome evidence is consistent with AGK localization.
action: ACCEPT
reason: This HTP localization agrees with direct AGK and TIM22 complex evidence.
additional_reference_ids:
- PMID:15939762
- PMID:28712724
- PMID:28712726
supported_by:
- reference_id: PMID:34800366
supporting_text: We defined a human mitochondrial high-confidence proteome
- term:
id: GO:0005829
label: cytosol
evidence_type: TAS
original_reference_id: Reactome:R-HSA-6802927
qualifier: located_in
review:
summary: This Reactome cytosol row reflects BRAF/RAF fusion biology, not native AGK.
action: REMOVE
reason: The seeded Reactome event is titled for BRAF and RAF fusion mutant dimers. It should not be propagated to native AGK localization, which is mitochondrial.
supported_by:
- reference_id: file:human/AGK/AGK-notes.md
supporting_text: Several Reactome-derived cytosol rows in the seeded GOA are attached to BRAF/RAF fusion events rather than native AGK biology.
- term:
id: GO:0005829
label: cytosol
evidence_type: TAS
original_reference_id: Reactome:R-HSA-6802932
qualifier: located_in
review:
summary: This Reactome cytosol row reflects BRAF/RAF fusion biology, not native AGK.
action: REMOVE
reason: The seeded Reactome event is titled for dissociation of a BRAF/RAF fusion complex. It should not be used as native AGK cytosol evidence.
supported_by:
- reference_id: file:human/AGK/AGK-notes.md
supporting_text: Several Reactome-derived cytosol rows in the seeded GOA are attached to BRAF/RAF fusion events rather than native AGK biology.
- term:
id: GO:0005829
label: cytosol
evidence_type: TAS
original_reference_id: Reactome:R-HSA-6802933
qualifier: located_in
review:
summary: This Reactome cytosol row reflects BRAF/RAF fusion biology, not native AGK.
action: REMOVE
reason: The seeded Reactome event is titled for p-BRAF and RAF fusion dimers phosphorylating MAP2Ks, not for native AGK function or localization.
supported_by:
- reference_id: file:human/AGK/AGK-notes.md
supporting_text: Several Reactome-derived cytosol rows in the seeded GOA are attached to BRAF/RAF fusion events rather than native AGK biology.
- term:
id: GO:0005829
label: cytosol
evidence_type: TAS
original_reference_id: Reactome:R-HSA-6802934
qualifier: located_in
review:
summary: This Reactome cytosol row reflects BRAF/RAF fusion biology, not native AGK.
action: REMOVE
reason: The seeded Reactome event is titled for p-BRAF and RAF fusion dimers binding MAP2Ks and MAPKs, not for native AGK function or localization.
supported_by:
- reference_id: file:human/AGK/AGK-notes.md
supporting_text: Several Reactome-derived cytosol rows in the seeded GOA are attached to BRAF/RAF fusion events rather than native AGK biology.
- term:
id: GO:0005829
label: cytosol
evidence_type: TAS
original_reference_id: Reactome:R-HSA-6802935
qualifier: located_in
review:
summary: This Reactome cytosol row reflects BRAF/RAF fusion biology, not native AGK.
action: REMOVE
reason: The seeded Reactome event is titled for MAPKs phosphorylated downstream of BRAF and RAF fusion dimers, not for native AGK function or localization.
supported_by:
- reference_id: file:human/AGK/AGK-notes.md
supporting_text: Several Reactome-derived cytosol rows in the seeded GOA are attached to BRAF/RAF fusion events rather than native AGK biology.
- term:
id: GO:0004143
label: ATP-dependent diacylglycerol kinase activity
evidence_type: IDA
original_reference_id: PMID:15939762
qualifier: enables
review:
summary: Direct human evidence supports ATP-dependent diacylglycerol kinase activity.
action: ACCEPT
reason: PMID:15939762 directly characterized AGK phosphorylation of diacylglycerol to phosphatidic acid.
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:15939762
supporting_text: AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
- term:
id: GO:0031966
label: mitochondrial membrane
evidence_type: IDA
original_reference_id: PMID:15939762
qualifier: located_in
review:
summary: Direct human evidence supports mitochondrial membrane localization.
action: ACCEPT
reason: PMID:15939762 localized AGK to mitochondria and subcellular fractions enriched for mitochondrial AGK activity.
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:15939762
supporting_text: Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Mitochondrion inner membrane
- term:
id: GO:0047620
label: acylglycerol kinase activity
evidence_type: IDA
original_reference_id: PMID:15939762
qualifier: enables
review:
summary: Direct human evidence supports acylglycerol kinase activity.
action: ACCEPT
reason: PMID:15939762 directly characterized AGK phosphorylation of monoacylglycerol to LPA.
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:15939762
supporting_text: AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
- term:
id: GO:0031966
label: mitochondrial membrane
evidence_type: IDA
original_reference_id: PMID:16269826
qualifier: located_in
review:
summary: PMID:16269826 supports mitochondrial localization context but not ceramide kinase activity.
action: ACCEPT
reason: The paper distinguishes HsCERK from the recently described multiple lipid kinase and notes that the latter kinase is mitochondrial. For AGK, this supports mitochondrial membrane localization while arguing against ceramide kinase transfer.
additional_reference_ids:
- PMID:15939762
supported_by:
- reference_id: PMID:16269826
supporting_text: The latter kinase is localized in the mitochondria
- term:
id: GO:0005743
label: mitochondrial inner membrane
evidence_type: IDA
original_reference_id: PMID:28712724
qualifier: located_in
review:
summary: PMID:28712724 supports AGK mitochondrial inner-membrane localization.
action: ACCEPT
reason: This paper identifies AGK as a TIM22 complex constituent at the mitochondrial inner membrane.
supported_by:
- reference_id: PMID:28712724
supporting_text: we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
- reference_id: PMID:28712724
supporting_text: AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
- term:
id: GO:0005743
label: mitochondrial inner membrane
evidence_type: IDA
original_reference_id: PMID:28712726
qualifier: located_in
review:
summary: PMID:28712726 supports AGK mitochondrial inner-membrane localization.
action: ACCEPT
reason: This paper identifies AGK as a human TIM22 protein import complex subunit.
supported_by:
- reference_id: PMID:28712726
supporting_text: we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
- reference_id: PMID:28712726
supporting_text: AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
- term:
id: GO:0005758
label: mitochondrial intermembrane space
evidence_type: IDA
original_reference_id: PMID:28712724
qualifier: located_in
review:
summary: PMID:28712724 supports AGK intermembrane-space/inner-membrane association.
action: ACCEPT
reason: The TIM22 study places AGK at the mitochondrial inner membrane/intermembrane-space side of the complex.
supported_by:
- reference_id: PMID:28712724
supporting_text: we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
- reference_id: PMID:28712724
supporting_text: AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Mitochondrion intermembrane space
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Localizes in the mitochondrion intermembrane space, where it associates with the inner membrane
- term:
id: GO:0005758
label: mitochondrial intermembrane space
evidence_type: IDA
original_reference_id: PMID:28712726
qualifier: located_in
review:
summary: PMID:28712726 supports AGK intermembrane-space/inner-membrane association.
action: ACCEPT
reason: The human TIM22 study supports AGK as a mitochondrial import-complex subunit at the inner membrane.
supported_by:
- reference_id: PMID:28712726
supporting_text: we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
- reference_id: PMID:28712726
supporting_text: AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Mitochondrion intermembrane space
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Localizes in the mitochondrion intermembrane space, where it associates with the inner membrane
- term:
id: GO:0042721
label: TIM22 mitochondrial import inner membrane insertion complex
evidence_type: IDA
original_reference_id: PMID:28712724
qualifier: part_of
review:
summary: PMID:28712724 directly supports AGK as part of the TIM22 complex.
action: ACCEPT
reason: AGK assembles with TIMM22 and TIMM29 and supports import of multi-spanning membrane proteins.
supported_by:
- reference_id: PMID:28712724
supporting_text: we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
- reference_id: PMID:28712724
supporting_text: AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
- term:
id: GO:0042721
label: TIM22 mitochondrial import inner membrane insertion complex
evidence_type: IDA
original_reference_id: PMID:28712726
qualifier: part_of
review:
summary: PMID:28712726 directly supports AGK as part of the human TIM22 complex.
action: ACCEPT
reason: AGK maintains TIM22 complex integrity and facilitates carrier import and assembly.
supported_by:
- reference_id: PMID:28712726
supporting_text: we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
- reference_id: PMID:28712726
supporting_text: AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
- term:
id: GO:0045039
label: protein insertion into mitochondrial inner membrane
evidence_type: IDA
original_reference_id: PMID:28712724
qualifier: involved_in
review:
summary: PMID:28712724 supports AGK involvement in protein insertion into the mitochondrial inner membrane.
action: ACCEPT
reason: The paper ties AGK-containing TIM22 to import of multi-spanning inner-membrane proteins, matching this process annotation.
supported_by:
- reference_id: PMID:28712724
supporting_text: we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
- reference_id: PMID:28712724
supporting_text: AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
- term:
id: GO:0045039
label: protein insertion into mitochondrial inner membrane
evidence_type: IDA
original_reference_id: PMID:28712726
qualifier: involved_in
review:
summary: PMID:28712726 supports AGK involvement in protein insertion into the mitochondrial inner membrane.
action: ACCEPT
reason: The paper directly links AGK to TIM22-dependent import and assembly of mitochondrial carrier proteins.
supported_by:
- reference_id: PMID:28712726
supporting_text: we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
- reference_id: PMID:28712726
supporting_text: AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
references:
- id: GO_REF:0000002
title: Gene Ontology annotation through association of InterPro records with GO terms
findings: []
- id: GO_REF:0000024
title: Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity
findings: []
- id: GO_REF:0000033
title: Annotation inferences using phylogenetic trees
findings: []
- id: GO_REF:0000041
title: Gene Ontology annotation based on UniPathway vocabulary mapping
findings: []
- id: GO_REF:0000044
title: Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular Location vocabulary mapping, accompanied by conservative changes to GO terms applied by UniProt
findings: []
- id: GO_REF:0000052
title: Gene Ontology annotation based on curation of immunofluorescence data
findings: []
- id: GO_REF:0000107
title: Automatic transfer of experimentally verified manual GO annotation data to orthologs using Ensembl Compara
findings: []
- id: GO_REF:0000120
title: Combined Automated Annotation using Multiple IEA Methods
findings: []
- id: PMID:15939762
title: A novel acylglycerol kinase that produces lysophosphatidic acid modulates cross talk with EGFR in prostate cancer cells.
findings:
- statement: Human AGK phosphorylates monoacylglycerol and diacylglycerol to generate LPA and PA.
supporting_text: AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
- statement: The same study did not support ceramide or sphingosine as AGK substrates.
supporting_text: Significant phosphorylated products were only detected with monoacylglycerols and diacylglycerols as substrates, but not with any other lipid tested, including ceramide and sphingosine
- statement: AGK localizes to mitochondria in microscopy and fractionation assays.
supporting_text: Confocal microscopy and subcellular fractionation suggest that AGK is localized to the mitochondria
- id: PMID:16269826
title: 'Further characterization of mammalian ceramide kinase: substrate delivery and (stereo)specificity, tissue distribution, and subcellular localization studies.'
findings:
- statement: This ceramide kinase study argues against assigning ceramide kinase activity to the multiple lipid kinase now curated as AGK.
supporting_text: No evidence for phosphorylation of ceramide by the recently described multiple lipid kinase was found
- statement: The study notes that the multiple lipid kinase is mitochondrial.
supporting_text: The latter kinase is localized in the mitochondria
- id: PMID:22284826
title: Lack of the mitochondrial protein acylglycerol kinase causes Sengers syndrome.
full_text_unavailable: true
findings:
- statement: Biallelic loss-of-function AGK variants cause Sengers syndrome (congenital cataracts, hypertrophic cardiomyopathy, skeletal myopathy, lactic acidosis), and AGK loss decreases the adenine nucleotide translocator in the inner mitochondrial membrane in muscle.
- id: PMID:28514442
title: Architecture of the human interactome defines protein communities and disease networks.
findings: []
- id: PMID:28712724
title: Acylglycerol Kinase Mutated in Sengers Syndrome Is a Subunit of the TIM22 Protein Translocase in Mitochondria.
findings:
- statement: AGK is a constituent of the TIM22 complex in the mitochondrial inner membrane.
supporting_text: we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
- statement: AGK supports import of a subset of multi-spanning mitochondrial membrane proteins.
supporting_text: AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
- id: PMID:28712726
title: Sengers Syndrome-Associated Mitochondrial Acylglycerol Kinase Is a Subunit of the Human TIM22 Protein Import Complex.
findings:
- statement: AGK is a human TIM22 protein import complex subunit.
supporting_text: we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
- statement: AGK supports TIM22 integrity and carrier-protein import independently of kinase activity.
supporting_text: AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
- id: PMID:32814053
title: Interactome Mapping Provides a Network of Neurodegenerative Disease Proteins and Uncovers Widespread Protein Aggregation in Affected Brains.
findings: []
- id: PMID:33476211
title: The TIM22 complex mediates the import of sideroflexins and is required for efficient mitochondrial one-carbon metabolism.
full_text_unavailable: true
findings:
- statement: AGK-containing TIM22 imports sideroflexin (SFXN) proteins as a novel substrate class beyond SLC25 carriers, and AGK loss impairs SFXN biogenesis, linking AGK deficiency to dysregulated mitochondrial one-carbon metabolism.
- id: PMID:32901109
title: Cryo-EM structure of the human mitochondrial translocase TIM22 complex.
findings:
- statement: Structural/ComplexPortal evidence supports AGK as part of the human TIM22 complex.
supporting_text: Cryo-EM structure of the human mitochondrial translocase TIM22 complex
- id: PMID:33961781
title: Dual proteome-scale networks reveal cell-specific remodeling of the human interactome.
findings: []
- id: PMID:37655851
title: Mitochondrial phospholipid metabolism in health and disease.
full_text_unavailable: true
findings:
- statement: AGK-mediated phosphorylation of diacylglycerol to phosphatidic acid in the inner mitochondrial membrane is an intramitochondrial PA-generating route that feeds downstream phospholipid synthesis, including cardiolipin biogenesis.
- id: PMID:34800366
title: Quantitative high-confidence human mitochondrial proteome and its dynamics in cellular context.
findings:
- statement: High-confidence mitochondrial proteomics supports AGK mitochondrial localization in the broader mitochondrial proteome resource.
supporting_text: We defined a human mitochondrial high-confidence proteome
- id: PMID:37009826
title: LINC00493-encoded microprotein SMIM26 exerts anti-metastatic activity in renal cell carcinoma.
findings:
- statement: SMIM26 interacts with AGK in a renal-cell carcinoma context.
supporting_text: SMIM26, but not LINC00493, suppresses ccRCC growth and metastatic lung colonization by interacting with acylglycerol kinase (AGK)
- id: Reactome:R-HSA-5696074
title: AGK:Mg2+ phosphorylates MAG, DAG
findings: []
- id: Reactome:R-HSA-6802927
title: BRAF and RAF fusion mutant dimers are phosphorylated
findings: []
- id: Reactome:R-HSA-6802932
title: Dissociation of BRAF/RAF fusion complex
findings: []
- id: Reactome:R-HSA-6802933
title: p-BRAF and RAF fusion dimers phosphorylate MAP2Ks
findings: []
- id: Reactome:R-HSA-6802934
title: p-BRAF and RAF fusion dimers bind MAP2Ks and MAPKs
findings: []
- id: Reactome:R-HSA-6802935
title: MAPKs are phosphorylated downstream of BRAF and RAF fusion dimers
findings: []
- id: file:human/AGK/AGK-uniprot.txt
title: UniProt record for human AGK
findings:
- statement: UniProt summarizes AGK lipid kinase and TIM22 complex roles.
supporting_text: Independently of its lipid kinase activity, acts as a component of the TIM22 complex
- id: file:human/AGK/AGK-notes.md
title: Manual AGK Proteostasis PN review notes
findings:
- statement: Manual fallback notes document the failed Falcon/fallback provider run and the conservative PN projection decision.
supporting_text: The strongest PN-relevant role is the TIM22 import-complex role, not a generic protein-transport assertion.
- id: file:projects/PROTEOSTASIS/reports/pn_projection/pn_projected_annotations.tsv
title: Proteostasis PN projected annotations report
findings:
- statement: PN projection reports broad protein transport for AGK as new to GOA while TIM22 complex is already exactly represented.
supporting_text: AGK
aliases:
- MULK
tags:
- proteostasis
core_functions:
- description: Mitochondrial lipid kinase activity that phosphorylates monoacylglycerol and diacylglycerol, producing lysophosphatidic acid and phosphatidic acid in glycerolipid metabolism.
molecular_function:
id: GO:0047620
label: acylglycerol kinase activity
directly_involved_in:
- id: GO:0046486
label: glycerolipid metabolic process
locations:
- id: GO:0031966
label: mitochondrial membrane
supported_by:
- reference_id: PMID:15939762
supporting_text: AGK, that phosphorylates monoacylglycerol and diacylglycerol to form LPA and PA, respectively
- reference_id: file:human/AGK/AGK-uniprot.txt
supporting_text: Lipid kinase that can phosphorylate both monoacylglycerol and diacylglycerol to form lysophosphatidic acid (LPA) and phosphatidic acid (PA), respectively
- description: Kinase-independent contribution to the TIM22 mitochondrial inner-membrane import complex, supporting insertion/import and assembly of carrier-type multipass inner-membrane proteins.
contributes_to_molecular_function:
id: GO:0008320
label: protein transmembrane transporter activity
directly_involved_in:
- id: GO:0045039
label: protein insertion into mitochondrial inner membrane
locations:
- id: GO:0005743
label: mitochondrial inner membrane
- id: GO:0005758
label: mitochondrial intermembrane space
in_complex:
id: GO:0042721
label: TIM22 mitochondrial import inner membrane insertion complex
supported_by:
- reference_id: PMID:28712724
supporting_text: we have identified AGK as a constituent of the TIM22 complex in the mitochondrial inner membrane
- reference_id: PMID:28712724
supporting_text: AGK assembles with TIMM22 and TIMM29 and supports the import of a subset of multi-spanning membrane proteins
- reference_id: PMID:28712726
supporting_text: we identified AGK as a subunit of the mitochondrial TIM22 protein import complex
- reference_id: PMID:28712726
supporting_text: AGK functions in a kinase-independent manner to maintain the integrity of the TIM22 complex, where it facilitates the import and assembly of mitochondrial carrier proteins
proposed_new_terms: []
suggested_questions:
- question: Does native human AGK have physiologically relevant ceramide kinase activity under any mitochondrial membrane context, or are current ceramide-related annotations orthology/context artifacts?
experts:
- Bektas M
- Van Veldhoven PP
- Stojanovski D
- question: Which AGK surfaces mediate TIM22 complex stabilization independently of the catalytic site, and how do Sengers syndrome variants separate lipid-kinase and import-complex defects?
experts:
- Langer T
- Ryan MT
- Stojanovski D
- question: To what extent does AGK-dependent TIM22 import of sideroflexins (SFXNs) and the resulting one-carbon metabolism defect contribute to Sengers syndrome pathophysiology relative to SLC25/ANT carrier import loss?
experts:
- Stojanovski D
- Stroud DA
suggested_experiments:
- hypothesis: Human AGK does not catalyze physiologically meaningful ceramide phosphorylation in native mitochondrial membranes.
description: Purify or reconstitute human AGK in mitochondrial membrane-like liposomes and compare phosphorylation of monoacylglycerol, diacylglycerol, ceramide, and sphingosine using matched substrate presentation and kinase-dead AGK controls.
experiment_type: enzyme reconstitution
- hypothesis: AGK has separable catalytic and TIM22-stabilizing surfaces.
description: Use endogenous AGK knockout cells rescued with catalytic-site, TIM22-interface, and Sengers syndrome variants, then assay lipid products, TIM22 complex stability, and import/assembly of carrier substrates such as SLC25A4.
experiment_type: structure-guided rescue and import assay
- hypothesis: AGK loss impairs sideroflexin biogenesis and one-carbon metabolism via the TIM22 import pathway.
description: In AGK knockout cells, quantify steady-state SFXN protein levels and TIM22-dependent SFXN import, and test whether serine-restricted proliferation defects are rescued by formate supplementation or by re-expression of kinase-dead AGK.
experiment_type: import assay with metabolic rescue