Glycine dehydrogenase (decarboxylating), the P-protein of the mitochondrial glycine cleavage system (glycine decarboxylase complex) of Saccharomyces cerevisiae (EC 1.4.4.2). Using pyridoxal 5'-phosphate, Gcv2 decarboxylates glycine and transfers the remaining aminomethyl group to the lipoyl arm of the H-protein Gcv3, which then passes it to the T-protein Gcv1; the reduced lipoamide is reoxidised by Lpd1. GCV2 (gsd2) is needed to convert glycine to serine and to use glycine as sole nitrogen source, and its expression is specifically induced by glycine.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0004375 glycine dehydrogenase (decarboxylating) activity | IBA GO_REF:0000033 | ACCEPT | Summary: PAINT IBA (PTN000206531) for glycine dehydrogenase (decarboxylating), the P-protein activity; Gcv2 (SGD:S000004801) is itself an experimental leaf. Supporting Evidence: PMID:8830251 The Saccharomyces cerevisiae GCV2 gene, encoding the P-protein has been cloned by complementation of the gsd2 mutation which prevents cells converting glycine to serine or using glycine as the sole nitrogen source PMID:320197 was correlated with a lack of glycine decarboxylase activity |
| GO:0004375 glycine dehydrogenase (decarboxylating) activity | IDA PMID:320197 "Active" one-carbon generation in Saccharomyces cerevisiae. | ACCEPT | Summary: Ogur et al. 1977 correlated a mutation giving a one-carbon requirement with lack of glycine decarboxylase activity. The abstract does not name the gene; SGD curators (who read the full text) attached this IDA to GCV2, the P-protein that catalyses this decarboxylation. Deferred to the curator. Supporting Evidence: PMID:320197 was correlated with a lack of glycine decarboxylase activity |
| GO:0004375 glycine dehydrogenase (decarboxylating) activity | IDA PMID:8830251 Specific induction by glycine of the gene for the P-subunit ... | ACCEPT | Summary: Sinclair et al. cloned GCV2 as the P-protein gene and measured GDC activity in glycine-grown cells. Supporting Evidence: PMID:8830251 The Saccharomyces cerevisiae GCV2 gene, encoding the P-protein has been cloned by complementation of the gsd2 mutation which prevents cells converting glycine to serine or using glycine as the sole nitrogen source PMID:8830251 The levels of P- and L-protein transcripts and GDC activity were also elevated in cells grown in the presence of glycine |
| GO:0004375 glycine dehydrogenase (decarboxylating) activity | IEA GO_REF:0000120 | ACCEPT | Summary: Combined IEA (InterPro GcvP IPR003437/IPR020581, RHEA:24304, EC 1.4.4.2); correct for the P-protein. Supporting Evidence: PMID:8830251 The Saccharomyces cerevisiae GCV2 gene, encoding the P-protein has been cloned by complementation of the gsd2 mutation which prevents cells converting glycine to serine or using glycine as the sole nitrogen source |
| GO:0004375 glycine dehydrogenase (decarboxylating) activity | RCA GO_REF:0000123 | ACCEPT | Summary: YeastPathways RCA (GLYCLEAV-PWY) assigning Gcv2 to the glycine decarboxylation step (EC 1.4.4.2); correct. Supporting Evidence: PMID:8830251 The Saccharomyces cerevisiae GCV2 gene, encoding the P-protein has been cloned by complementation of the gsd2 mutation which prevents cells converting glycine to serine or using glycine as the sole nitrogen source |
| GO:0005739 mitochondrion | HDA PMID:14576278 The proteome of Saccharomyces cerevisiae mitochondria. | ACCEPT | Summary: Gcv2 found in the purified mitochondrial proteome. Supporting Evidence: PMID:14576278 The proteins of highly pure yeast mitochondria were separated by several independent methods and analyzed by tandem MS |
| GO:0005739 mitochondrion | HDA PMID:16823961 Toward the complete yeast mitochondrial proteome: multidimen... | ACCEPT | Summary: Gcv2 found in the PROMITO mitochondrial proteome. Supporting Evidence: PMID:16823961 A total of 851 different proteins (PROMITO dataset) were identified by use of multidimensional LC-MS/MS, 1D-SDS-PAGE combined with nano-LC-MS/MS and 2D-PAGE with subsequent MALDI-mass fingerprinting. |
| GO:0005739 mitochondrion | HDA PMID:24769239 Quantitative variations of the mitochondrial proteome and ph... | ACCEPT | Summary: Gcv2 quantified in the mitochondrial proteome across carbon sources. Supporting Evidence: PMID:24769239 The yeast Saccharomyces cerevisiae is a facultative aerobe able to adapt its metabolism according to the carbon substrate |
| GO:0005739 mitochondrion | IBA GO_REF:0000033 | ACCEPT | Summary: PAINT IBA for mitochondrial location of GcvP; consistent with yeast proteomics. Supporting Evidence: PMID:14576278 The proteins of highly pure yeast mitochondria were separated by several independent methods and analyzed by tandem MS |
| GO:0005739 mitochondrion | IEA GO_REF:0000044 | ACCEPT | Summary: UniProt SubCell mapping (mitochondrion, by similarity); confirmed by proteomics. Supporting Evidence: PMID:14576278 The proteins of highly pure yeast mitochondria were separated by several independent methods and analyzed by tandem MS |
| GO:0005739 mitochondrion | NAS PMID:8830251 Specific induction by glycine of the gene for the P-subunit ... | ACCEPT | Summary: Author statement (GCV2 cloning paper) that P-protein is a GDC component; GDC is mitochondrial. Supporting Evidence: PMID:8830251 The glycine decarboxylase complex (GDC) is composed of four subunits referred to as H-, L-, P-, and T-proteins PMID:14576278 The proteins of highly pure yeast mitochondria were separated by several independent methods and analyzed by tandem MS |
| GO:0005829 cytosol | RCA GO_REF:0000123 | REMOVE | Summary: YeastPathways RCA (GLYCLEAV-PWY) asserts activity in the cytosol, which is the default compartment used by the YeastPathways-to-GO-CAM conversion. The glycine cleavage system of S. cerevisiae is mitochondrial; Gcv2 carries a mitochondrial presequence and is found in purified mitochondria. There is no evidence for a cytosolic glycine cleavage activity. Reason: Default-compartment artefact of the YeastPathways conversion; Gcv2 is mitochondrial. Supporting Evidence: PMID:14576278 The proteins of highly pure yeast mitochondria were separated by several independent methods and analyzed by tandem MS |
| GO:0005960 glycine cleavage complex | NAS PMID:7498764 Genetics of the synthesis of serine from glycine and the uti... | ACCEPT | Summary: NAS from Sinclair & Dawes; Gcv2 is the P-protein of the GDC. Supporting Evidence: PMID:8830251 The glycine decarboxylase complex (GDC) is composed of four subunits referred to as H-, L-, P-, and T-proteins PMID:7498764 can convert glycine to serine via the reaction catalyzed by the glycine decarboxylase multienzyme complex (GDC) |
| GO:0006544 glycine metabolic process | IEA GO_REF:0000002 | MODIFY | Summary: True but broad parent of the glycine cleavage process. Reason: Correct but general: glycine metabolic process is an ancestor of GO:0019464 glycine decarboxylation via glycine cleavage system, which this gene already carries and which is the process the gene product directly performs a step of. MODIFY to that descendant; applied the same way to every P-, H-, T- and L-protein review in the glycine cleavage system module. Proposed replacements: glycine decarboxylation via glycine cleavage system Supporting Evidence: PMID:8830251 The Saccharomyces cerevisiae GCV2 gene, encoding the P-protein has been cloned by complementation of the gsd2 mutation which prevents cells converting glycine to serine or using glycine as the sole nitrogen source |
| GO:0006546 glycine catabolic process | IEA GO_REF:0000002 | MODIFY | Summary: True but broad parent of the glycine cleavage process. Reason: Correct but general: glycine catabolic process is an ancestor of GO:0019464 glycine decarboxylation via glycine cleavage system, which this gene already carries and which is the process the gene product directly performs a step of. MODIFY to that descendant; applied the same way to every P-, H-, T- and L-protein review in the glycine cleavage system module. Proposed replacements: glycine decarboxylation via glycine cleavage system Supporting Evidence: PMID:8830251 The Saccharomyces cerevisiae GCV2 gene, encoding the P-protein has been cloned by complementation of the gsd2 mutation which prevents cells converting glycine to serine or using glycine as the sole nitrogen source |
| GO:0006546 glycine catabolic process | NAS PMID:7498764 Genetics of the synthesis of serine from glycine and the uti... | MODIFY | Summary: True but broad parent of the glycine cleavage process. Reason: Correct but general: glycine catabolic process is an ancestor of GO:0019464 glycine decarboxylation via glycine cleavage system, which this gene already carries and which is the process the gene product directly performs a step of. MODIFY to that descendant; applied the same way to every P-, H-, T- and L-protein review in the glycine cleavage system module. Proposed replacements: glycine decarboxylation via glycine cleavage system Supporting Evidence: PMID:8830251 The Saccharomyces cerevisiae GCV2 gene, encoding the P-protein has been cloned by complementation of the gsd2 mutation which prevents cells converting glycine to serine or using glycine as the sole nitrogen source |
| GO:0006730 one-carbon metabolic process | IGI PMID:10871621 Regulation of the balance of one-carbon metabolism in Saccha... | ACCEPT | Summary: Piper et al. (IGI with SHM2): GCS supplies mitochondrial one-carbon units; Gcv2 is the glycine-decarboxylating entry enzyme of that flux. Supporting Evidence: PMID:10871621 particularly those encoding the unique components of the glycine decarboxylase complex (GCV1, GCV2, and GCV3) PMID:10871621 one-carbon units generated from glycine in mitochondria are more directed to purine biosynthesis |
| GO:0019464 glycine decarboxylation via glycine cleavage system | IBA GO_REF:0000033 | ACCEPT | Summary: PAINT IBA for glycine decarboxylation via the glycine cleavage system; correct. Supporting Evidence: PMID:8830251 The Saccharomyces cerevisiae GCV2 gene, encoding the P-protein has been cloned by complementation of the gsd2 mutation which prevents cells converting glycine to serine or using glycine as the sole nitrogen source |
| GO:0019464 glycine decarboxylation via glycine cleavage system | IMP PMID:8830251 Specific induction by glycine of the gene for the P-subunit ... | ACCEPT | Summary: gsd2 mutants cannot convert glycine to serine; GCV2 complementation and GDC activity measurements. Supporting Evidence: PMID:8830251 The Saccharomyces cerevisiae GCV2 gene, encoding the P-protein has been cloned by complementation of the gsd2 mutation which prevents cells converting glycine to serine or using glycine as the sole nitrogen source PMID:8830251 The levels of P- and L-protein transcripts and GDC activity were also elevated in cells grown in the presence of glycine |
| GO:0019464 glycine decarboxylation via glycine cleavage system | RCA GO_REF:0000123 | ACCEPT | Summary: YeastPathways RCA (GLYCLEAV-PWY); correct. Supporting Evidence: PMID:8830251 The Saccharomyces cerevisiae GCV2 gene, encoding the P-protein has been cloned by complementation of the gsd2 mutation which prevents cells converting glycine to serine or using glycine as the sole nitrogen source |
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