Annotation inferences using phylogenetic trees
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Source of the single PANTHER phylogenetically-inferred (IBA) annotation for NDUFA13, propagating respiratory chain complex I membership (GO:0045271, part_of) from characterised orthologues of the GRIM-19/NDUFA13 accessory subunit family. The mitochondrion and mitochondrial inner membrane localizations come from other sources (GO_REF:0000120, GO_REF:0000052 and the experimental references), not from this IBA.
Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular Location vocabulary mapping, accompanied by conservative changes to GO terms applied by UniProt
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Basis for exactly one NDUFA13 annotation - located_in GO:0005634 nucleus (IEA) - produced by mapping the UniProtKB Q9P0J0 Nucleus subcellular location statement (UniProtKB-SubCell:SL-0191) to GO. It is a vocabulary mapping of an existing UniProt statement rather than independent evidence, and it duplicates the EXP nucleus annotation from PMID:12628925. The mitochondrial inner membrane IEA comes from GO_REF:0000120, not from this reference.
Gene Ontology annotation based on curation of immunofluorescence data
Combined Automated Annotation using Multiple IEA Methods
Identification of GRIM-19, a novel cell death-regulatory gene induced by the interferon-beta and retinoic acid combination, using a genetic approach.
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GRIM-19 (NDUFA13) was discovered in an antisense knock-out screen as a gene required for interferon-beta plus retinoic acid-induced tumour cell death.
"Here we report the isolation of a novel GRIM gene, GRIM-19."
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Antisense knock-down of GRIM-19 confers resistance to IFN/RA-induced death and overexpression enhances it, establishing the pro-death moonlighting role.
"Antisense expression of GRIM-19 confers a strong resistance against IFN/RA-induced death by reducing the intracellular levels of GRIM-19 protein."
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The discovery paper reported GRIM-19 as primarily nuclear and IFN/RA-inducible; later work localised the bulk of the protein to mitochondria, so this nuclear assignment should be read as a minor pool.
"GRIM-19 is primarily a nuclear protein whose expression is induced by the IFN/RA combination."
The subunit composition of the human NADH dehydrogenase obtained by rapid one-step immunopurification.
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NDUFA13/GRIM-19 was identified by mass spectrometry among the polypeptides of immunopurified human Complex I, primary evidence for Complex I membership.
"These polypeptides include the GRIM-19 protein, which is claimed to be involved in apoptosis"
GRIM-19, a death-regulatory gene product, suppresses Stat3 activity via functional interaction.
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An independent yeast two-hybrid screen identified GRIM-19 as a STAT3-specific interactor that does not bind STAT1 or STAT5a.
"The interaction is specific for Stat3, but not for Stat1 and Stat5a."
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GRIM-19 represses STAT3 transcriptional activity and target gene expression and suppresses growth of STAT3-driven cells.
"GRIM-19 represses Stat3 transcriptional activity and its target gene expression, and also suppresses cell growth in Src-transformed cells and a Stat3-expressing cell line."
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GRIM-19 co-localises with mitochondrial markers, and sequestration of STAT3 with GRIM-19 blocks EGF-stimulated STAT3 nuclear translocation.
"GRIM-19 itself co-localizes with mitochondrial markers, and forms aggregates at the perinulear region with co-expressed Stat3, which inhibits Stat3 nuclear translocation stimulated by epidermal growth factor (EGF)."
The cell death regulator GRIM-19 is an inhibitor of signal transducer and activator of transcription 3.
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GRIM-19 binds STAT3 and inhibits STAT3-driven transcription without blocking STAT3 activation or DNA binding, defining a transcriptional co-repressor mode of action rather than a kinase/phosphatase activity.
"GRIM-19 inhibits transcription driven by activation of STAT3, but not STAT1. It neither inhibits the ligand-induced activation of STAT3 nor blocks its ability to bind to DNA."
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The STAT3 transactivation domain, particularly Ser727, is required for GRIM-19 binding, and GRIM-19 does not bind other STATs - establishing specificity.
"Mutational analysis indicates that the transactivation domain of STAT3, especially residue S727, is required for GRIM-19 binding."
GW112, a novel antiapoptotic protein that promotes tumor growth.
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OLFM4/GW112 associates with GRIM-19 and attenuates GRIM-19-mediated IFN-beta/retinoic acid apoptosis, a regulatory input onto the GRIM-19 cell-death function.
"We show here that GW112 is associated with GRIM-19, a protein known to be involved in regulating cellular apoptosis."
GRIM-19, a cell death regulatory protein, is essential for assembly and function of mitochondrial complex I.
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Germline deletion of GRIM-19 in mice is lethal at embryonic day 9.5 and produces abnormal mitochondrial structure and distribution.
"Homologous deletion of GRIM-19 causes embryonic lethality at embryonic day 9.5."
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GRIM-19 is present in native mitochondrial Complex I and its primary localisation is mitochondrial, not nuclear.
"We reexamined the cellular localization of GRIM-19 in various cell types and found its primary localization in the mitochondria."
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Loss of GRIM-19 destroys Complex I assembly and electron transfer activity, the primary evidence for its core structural/assembly role.
"Finally, we show that elimination of GRIM-19 destroys the assembly and electron transfer activity of complex I and also influences the other complexes in the mitochondrial respiratory chain."
GRIM-19 interacts with nucleotide oligomerization domain 2 and serves as downstream effector of anti-bacterial function in intestinal epithelial cells.
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GRIM-19 interacts with endogenous NOD2 and is required for NF-kappaB activation downstream of muramyl dipeptide sensing, a non-core innate-immunity role.
"We demonstrate that GRIM-19, a protein with homology to the NADPH dehydrogenase complex, interacts with endogenous NOD2 in HT29 cells."
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GRIM-19 is required for NOD2-dependent NF-kappaB activation and restricts pathogen invasion of intestinal epithelial cells.
"GRIM-19 is required for NF-kappaB activation following NOD2-mediated recognition of bacterial muramyl dipeptide."
Coupling mitochondrial respiratory chain to cell death: an essential role of mitochondrial complex I in the interferon-beta and retinoic acid-induced cancer cell death.
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siRNA knockdown of GRIM-19 (and NDUFS3) confers resistance to IFN-beta/RA-induced apoptosis and reduces ROS, linking Complex I subunit function to the cell-death response.
"Knockdown of GRIM-19 (gene associated with retinoid-interferon-induced mortality-19) and NDUFS3 (NADH dehydrogenase (ubiquinone) Fe-S protein 3), two subunits of MRC complex I, by siRNA in two cancer cell lines conferred resistance to IFN-beta/RA-induced apoptosis and reduced ROS production."
Identification of mitochondrial complex I assembly intermediates by tracing tagged NDUFS3 demonstrates the entry point of mitochondrial subunits.
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Complex I assembles stepwise via discrete subcomplexes, demonstrated here by tracing tagged NDUFS3. The cached record does not mention NDUFA13/GRIM-19, so this paper establishes the stepwise-assembly framework only; NDUFA13's entry with the hydrophobic-fraction intermediate is taken from Reactome R-HSA-6799178, which names NDUFA13 explicitly.
"Upon induction, six distinct NDUFS3-GFP-containing subcomplexes gradually appeared on a blue native Western blot also observed in wild type HEK293 mitochondria."
GRIM-19 associates with the serine protease HtrA2 for promoting cell death.
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A yeast two-hybrid screen identified the mitochondrial serine protease HtrA2 as a GRIM-19 binding partner, and the interaction promotes IFN/RA-dependent cell death.
"GRIM-19 physically interacts with HtrA2 and augments cell death in an IFN/all-trans retinoic acid (RA)-dependent manner."
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In the presence of GRIM-19, HtrA2-driven destruction of XIAP is enhanced - the basis for the protease-activator and positive-regulation-of-protein-catabolism annotations.
"In the presence of GRIM-19, the HtrA2-driven destruction of the antiapoptotic protein X-linked inhibitor of apoptosis (XIAP) is augmented."
Huntingtin interacting proteins are genetic modifiers of neurodegeneration.
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Large-scale huntingtin-interactor screen combining yeast two-hybrid and affinity pull-down; an NDUFA13 hit here is a high-throughput dataset entry rather than evidence for a specific molecular function.
"This effort led to the identification of 234 high-confidence Htt-associated proteins, 104 of which were found with the yeast method and 130 with the pull downs."
The import of the transcription factor STAT3 into mitochondria depends on GRIM-19, a component of the electron transport chain.
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GRIM-19 acts as a chaperone that recruits STAT3 into mitochondria, a specific and unusual function for a Complex I accessory subunit.
"In vitro import studies show that the gene associated with retinoid interferon induced cell mortality 19 (GRIM-19), a complex I subunit that acts as a chaperone to recruit STAT3 into mitochondria."
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GRIM-19 additionally promotes integration of STAT3 into Complex I, and this requires STAT3 Ser727.
"In addition, GRIM-19 enhances the integration of STAT3 into complex I. A S727A mutation in STAT3 reduces its import and assembly even in the presence of GRIM-19."
Mutation in NDUFA13/GRIM19 leads to early onset hypotonia, dyskinesia and sensorial deficiencies, and mitochondrial complex I instability.
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The first germline pathogenic NDUFA13 mutation was identified in two sisters with early-onset hypotonia, dyskinesia and optic neuropathy, establishing NDUFA13 as a Complex I deficiency disease gene.
"Here, we describe the first germinal pathogenic mutation in the NDUFA13/GRIM19 gene encoding a CI subunit, in two sisters with early onset hypotonia, dyskinesia and sensorial deficiencies, including a severe optic neuropathy."
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Patient cells show a selective Complex I enzymatic defect with complexes II, III and IV largely spared, indicating a Complex I-specific requirement for NDUFA13.
"Biochemical analysis revealed a drastic decrease in CI enzymatic activity in patient muscle biopsies, and reduction of CI-driven respiration in fibroblasts, while the activities of complex II, III and IV were hardly affected."
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Loss of NDUFA13 protein drastically reduces Complex I holoenzyme and supercomplex levels, and silencing NDUFA13 in control cells reproduces this - direct evidence for a stability/assembly role.
"Western blots disclosed that the abundances of NDUFA13 protein, CI holoenzyme and super complexes were drastically reduced in mitochondrial fractions, a situation that was reproduced by silencing NDUFA13 in control cells."
Accessory subunits are integral for assembly and function of human mitochondrial complex I.
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Systematic CRISPR knockout of each human Complex I accessory subunit showed most, including NDUFA13, are strictly required for assembly of a functional complex.
"We show that 25 subunits are strictly required for assembly of a functional complex and 1 subunit is essential for cell viability."
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The 14 core subunits shared with bacteria carry catalysis; the 31 human accessory subunits including NDUFA13 are non-catalytic, supporting a structural rather than enzymatic molecular function.
"Bacterial and human complex I share 14 core subunits that are essential for enzymatic function"
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Loss of one accessory subunit destabilises other subunits of the same structural module, the proteomic signature underlying the assembly role.
"Quantitative proteomic analysis of cell lines revealed that loss of each subunit affects the stability of other subunits residing in the same structural module."
Architecture of Human Mitochondrial Respiratory Megacomplex I(2)III(2)IV(2).
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Cryo-EM of the human respiratory megacomplex assigned individual Complex I subunits, placing NDUFA13 within Complex I in a higher-order supercomplex.
"The structure not only reveals the precise assignment of individual subunits of human CI and CIII, but also enables future in-depth analysis of the electron transport chain as a whole."
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Complex I is present in two copies within a circular megacomplex with dimeric complex III and two copies of complex IV.
"The MCI2III2IV2 forms a circular structure with the dimeric CIII located in the center, where it is surrounded by two copies each of CI and CIV."
Assembly of mammalian oxidative phosphorylation complexes I-V and supercomplexes.
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Review establishing that OXPHOS supernumerary subunits such as NDUFA13 act in assembly, regulation and stability rather than in catalysis.
"The human enzymes comprise core proteins, performing the catalytic activities, and a large number of 'supernumerary' subunits that play essential roles in assembly, regulation and stability."
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Complexes I, III and IV associate into respiratory supercomplexes, the higher-order context relevant to the complex-level respiration annotations.
"it is now well established that complexes I, III and IV interact with each other, forming the so-called respiratory supercomplexes or 'respirasomes'"
Global Interactome Mapping of Mitochondrial Intermembrane Space Proteases Identifies a Novel Function for HTRA2.
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BioID proximity-labelling map of mitochondrial intermembrane space proteases; an NDUFA13-HTRA2 proximity hit here is consistent with the characterised GRIM-19/HtrA2 association but is a high-throughput dataset entry, not a molecular function.
"Here, in vivo proximity-dependent biotinylation (BioID) is used to map the interactomes of seven proteases localized to the mitochondrial intermembrane space (IMS)."
Interactome Mapping Provides a Network of Neurodegenerative Disease Proteins and Uncovers Widespread Protein Aggregation in Affected Brains.
Quantitative high-confidence human mitochondrial proteome and its dynamics in cellular context.
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NDUFA13 is a member of the stringently defined human mitochondrial high-confidence proteome (MitoCoP), corroborating mitochondrial localization at coarse resolution.
"We classified >8,000 proteins in mitochondrial preparations of human cells and defined a mitochondrial high-confidence proteome of >1,100 proteins (MitoCoP)."
Multimodal cell maps as a foundation for structural and functional genomics.
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Multimodal (biophysical interaction plus immunofluorescence) map of human subcellular assemblies in U2OS cells; NDUFA13 entries derived from it are assembly-membership data points rather than evidence for a distinct molecular function.
"Here we construct a global map of human subcellular architecture through joint measurement of biophysical interactions and immunofluorescence images for over 5,100 proteins in U2OS osteosarcoma cells."
Complex I oxidises NADH to NAD+, reduces CoQ to CoQH2
Intermediate 1 binds HP subcomplex to form Intermediate 2
Peripheral arm subunits bind the 815kDa complex to form a 980kDa complex
Intermediate 2 binds MT-ND1:NDUFAF5:NDUFAF6 to form a 315kDa subcomplex
The MCIA complex, NDUFAF2-7 all dissociate from the 980kDa complex, resulting in Complex I
ND4, ND5 bind the 550kDa complex to form the 815kDa complex
The 315kDa subcomplex binds the 370kDa subcomplex to form the 550kDa complex
HTRA2 binds NDUFA13 (GRIM-19)
HTRA2 degrades NDUFA13 (GRIM-19)