P40054 · SERA_YEAST
- ProteinD-3-phosphoglycerate dehydrogenase 1
- GeneSER3
- StatusUniProtKB reviewed (Swiss-Prot)
- Amino acids469 (go to sequence)
- Protein existenceEvidence at protein level
- Annotation score5/5
Function
function
Catalyzes the reversible oxidation of 3-phospho-D-glycerate to 3-phosphonooxypyruvate, the first step of the phosphorylated L-serine biosynthesis pathway. Also catalyzes the reversible oxidation of 2-hydroxyglutarate to 2-oxoglutarate.
Miscellaneous
Present with 7670 molecules/cell in log phase SD medium.
Catalytic activity
- (2R)-3-phosphoglycerate + NAD+ = 3-phosphooxypyruvate + H+ + NADH
Kinetics
KM | SUBSTRATE | pH | TEMPERATURE[C] | NOTES | EVIDENCE | |
---|---|---|---|---|---|---|
49 μM | 2-oxoglutarate |
kcat is 0.2 sec-1 for 2-oxoglutarate reduction.
Pathway
Amino-acid biosynthesis; L-serine biosynthesis; L-serine from 3-phospho-D-glycerate: step 1/3.
Features
Showing features for binding site, active site.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Binding site | 208-209 | NAD+ (UniProtKB | ChEBI) | ||||
Sequence: HI | ||||||
Binding site | 228 | NAD+ (UniProtKB | ChEBI) | ||||
Sequence: D | ||||||
Binding site | 285-287 | NAD+ (UniProtKB | ChEBI) | ||||
Sequence: ASR | ||||||
Active site | 287 | |||||
Sequence: R | ||||||
Binding site | 311 | NAD+ (UniProtKB | ChEBI) | ||||
Sequence: D | ||||||
Active site | 316 | |||||
Sequence: E | ||||||
Active site | 347 | Proton donor | ||||
Sequence: H | ||||||
Binding site | 347-350 | NAD+ (UniProtKB | ChEBI) | ||||
Sequence: HIGG |
GO annotations
Aspect | Term | |
---|---|---|
Cellular Component | cytoplasm | |
Molecular Function | alpha-ketoglutarate reductase activity | |
Molecular Function | NAD binding | |
Molecular Function | phosphoglycerate dehydrogenase activity | |
Biological Process | L-serine biosynthetic process | |
Biological Process | serine family amino acid biosynthetic process |
Keywords
- Molecular function
- Biological process
- Ligand
Enzyme and pathway databases
Protein family/group databases
Names & Taxonomy
Protein names
- Recommended nameD-3-phosphoglycerate dehydrogenase 1
- EC number
- Short names3-PGDH 1
- Alternative names
Gene names
Organism names
- Strain
- Taxonomic lineageEukaryota > Fungi > Dikarya > Ascomycota > Saccharomycotina > Saccharomycetes > Saccharomycetales > Saccharomycetaceae > Saccharomyces
Accessions
- Primary accessionP40054
- Secondary accessions
Proteomes
Organism-specific databases
Subcellular Location
UniProt Annotation
GO Annotation
PTM/Processing
Features
Showing features for chain, modified residue.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Chain | PRO_0000076018 | 1-469 | D-3-phosphoglycerate dehydrogenase 1 | |||
Sequence: MTSIDINNLQNTFQQAMNMSGSPGAVCTSPTQSFMNTVPQRLNAVKHPKILKPFSTGDMKILLLENVNQTAITIFEEQGYQVEFYKSSLPEEELIEKIKDVHAIGIRSKTRLTSNVLQHAKNLVCIGCFCIGTNQVDLDYATSRGIAVFNSPFSNSRSVAELVIAEIISLARQLGDRSIELHTGTWNKVAARCWEVRGKTLGIIGYGHIGSQLSVLAEAMGLHVLYYDIVTIMALGTARQVSTLDELLNKSDFVTLHVPATPETEKMLSAPQFAAMKDGAYVINASRGTVVDIPSLIQAVKANKIAGAALDVYPHEPAKNGEGSFNDELNSWTSELVSLPNIILTPHIGGSTEEAQSSIGIEVATALSKYINEGNSVGSVNFPEVALKSLSYDQENTVRVLYIHQNVPGVLKTVNDILSNHNIEKQFSDSNGEIAYLMADISSVDQSDIKDIYEQLNQTSAKISIRLLY | ||||||
Modified residue | 22 | Phosphoserine | ||||
Sequence: S | ||||||
Modified residue | 29 | Phosphoserine | ||||
Sequence: S | ||||||
Modified residue | 33 | Phosphoserine | ||||
Sequence: S |
Keywords
- PTM
Proteomic databases
PTM databases
Interaction
Binary interactions
Type | Entry 1 | Entry 2 | Number of experiments | Intact | |
---|---|---|---|---|---|
BINARY | P40054 | SER33 P40510 | 6 | EBI-16961, EBI-16821 |
Protein-protein interaction databases
Miscellaneous
Structure
Family & Domains
Features
Showing features for domain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Domain | 399-469 | ACT | ||||
Sequence: RVLYIHQNVPGVLKTVNDILSNHNIEKQFSDSNGEIAYLMADISSVDQSDIKDIYEQLNQTSAKISIRLLY |
Sequence similarities
Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.
Phylogenomic databases
Family and domain databases
Sequence
- Sequence statusComplete
- Length469
- Mass (Da)51,193
- Last updated1995-02-01 v1
- ChecksumE1E69070BF41A87C
Keywords
- Technical term
Sequence databases
Nucleotide Sequence | Protein Sequence | Molecule Type | Status | |
---|---|---|---|---|
U18839 EMBL· GenBank· DDBJ | AAB64636.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
BK006939 EMBL· GenBank· DDBJ | DAA07742.1 EMBL· GenBank· DDBJ | Genomic DNA |