Protein Info for GFF817 in Sphingobium sp. HT1-2
Annotation: D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95)
These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.
Protein Families and Features
Best Hits
Swiss-Prot: 46% identical to SERA_BACSU: D-3-phosphoglycerate dehydrogenase (serA) from Bacillus subtilis (strain 168)
KEGG orthology group: K00058, D-3-phosphoglycerate dehydrogenase [EC: 1.1.1.95] (inferred from 93% identity to sjp:SJA_C1-01840)MetaCyc: 44% identical to glycerate dehydrogenase (Synechocystis sp. PCC 6803)
Glycerate dehydrogenase. [EC: 1.1.1.29]
Predicted SEED Role
"D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95)" in subsystem Glycine and Serine Utilization or Pyridoxin (Vitamin B6) Biosynthesis or Serine Biosynthesis (EC 1.1.1.95)
MetaCyc Pathways
- superpathway of sulfate assimilation and cysteine biosynthesis (9/9 steps found)
- superpathway of L-serine and glycine biosynthesis I (4/4 steps found)
- L-serine biosynthesis I (3/3 steps found)
- L-cysteine biosynthesis IX (Trichomonas vaginalis) (2/3 steps found)
- photorespiration I (5/9 steps found)
- photorespiration III (5/9 steps found)
- photorespiration II (5/10 steps found)
KEGG Metabolic Maps
Isozymes
Compare fitness of predicted isozymes for: 1.1.1.95
Use Curated BLAST to search for 1.1.1.29 or 1.1.1.95
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
Compare to protein structures
Predict protein localization: PSORTb (Gram-negative bacteria)
Predict transmembrane helices and signal peptides: Phobius
Check the current SEED with FIGfam search
Find homologs in fast.genomics or the ENIGMA genome browser
Find the best match in UniProt
Protein Sequence (526 amino acids)
>GFF817 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) (Sphingobium sp. HT1-2) MPKVLISDKMDPRAAAIFRERGVEVDVITGQTPEELAAMIGAYDGLAIRSSTKVTKAILD AATNLKVIGRAGIGVDNVDIPAASAQGVIVMNTPFGNSITTAEHAIALMFALARQIPEAN AQTQQGLWPKNGFMGVEVTGKTLGLIGAGNIGSIVASRALGLKMKVVAFDPFLTPERAVE MGVEKADLDTLLAKADFITLHTPLTDQTRNILSKENLAKTKKGVRIVNCARGGLIDEAAL KEALDSGHVAGAALDVFQTEPAKESPLFGTPNFICTPHLGASTDEAQVNVALQVAEQLSD YLLDGGITNALNVPSLSAEEAPKLKPYMALAEKLGSLIGQLEGDAITGVAVEVEGHAAEL NQKPITAAVLAGLMRVYSDTVNMVNAPFLAKERGLDVREVRHDREGDYQTLVRVTVSTEA GDKSVAGTLFGHAQPRLVELFGIKVEADLDGHMLYIVNQDAPGFIGRLGSKLGESDVNIG TFHLGRRNQGGEAVLLLSVDGTVTEPLRWAICNLAGVKQVKLLRFA