Protein Info for PGA1_c11870 in Phaeobacter inhibens DSM 17395

Annotation: serine hydroxymethyltransferase GlyA

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

• PF00464: SHMT
  • amino acids 16 to 393 (378 residues), 567.4 bits, E=1.3e-174
• PF01041: DegT_DnrJ_EryC1
  • amino acids 151 to 268 (118 residues), 26.4 bits, E=4.1e-10

Best Hits

Swiss-Prot: 92% identical to GLYA_RUEST: Serine hydroxymethyltransferase (glyA) from Ruegeria sp. (strain TM1040)

KEGG orthology group: K00600, glycine hydroxymethyltransferase [EC: 2.1.2.1] (inferred from 92% identity to sit:TM1040_1579)

MetaCyc: 73% identical to serine hydroxymethyltransferase subunit (Hyphomicrobium methylovorum GM2)
Glycine hydroxymethyltransferase. [EC: 2.1.2.1]

Predicted SEED Role

"Serine hydroxymethyltransferase (EC 2.1.2.1)" in subsystem Folate Biosynthesis or Glycine Biosynthesis or Glycine and Serine Utilization or LMPTP YwlE cluster or Photorespiration (oxidative C2 cycle) or Serine-glyoxylate cycle or Serine Biosynthesis (EC 2.1.2.1)

MetaCyc Pathways

• folate transformations III (E. coli) (9/9 steps found)
• folate transformations II (plants) (10/11 steps found)
• folate polyglutamylation (5/5 steps found)
• glycine betaine degradation I (7/8 steps found)
• superpathway of L-serine and glycine biosynthesis I (4/4 steps found)
• dTMP de novo biosynthesis (mitochondrial) (3/3 steps found)
• glycine degradation (3/3 steps found)
• photorespiration I (7/9 steps found)
• photorespiration III (7/9 steps found)
• glycine biosynthesis I (1/1 steps found)
• photorespiration II (7/10 steps found)
• folate transformations I (9/13 steps found)
• glycine betaine degradation II (mammalian) (2/4 steps found)
• glycine betaine degradation III (4/7 steps found)
• formaldehyde assimilation I (serine pathway) (8/13 steps found)
• purine nucleobases degradation II (anaerobic) (15/24 steps found)

KEGG Metabolic Maps

• Cyanoamino acid metabolism
• Glycine, serine and threonine metabolism
• Methane metabolism
• One carbon pool by folate

Isozymes

Compare fitness of predicted isozymes for: 2.1.2.1

Use Curated BLAST to search for 2.1.2.1

Sequence Analysis Tools

See I7EYC3 at UniProt or InterPro

Protein Sequence (432 amino acids)

>PGA1_c11870 serine hydroxymethyltransferase GlyA (Phaeobacter inhibens DSM 17395)
MTVTTSRDPGFFTQSLAERDPELFGSITDELGRQRDEIELIASENIVSAAVMEAQGTVLT
NKYAEGYPGRRYYGGCQYVDVAENLAIDRAKKLFDCEFANVQPNSGSQANQGVFQALIKP
GDTILGMDLASGGHLTHGARPNQSGKWFNAVHYGVREEDCLIDYDQIEALAVEHQPKLII
AGGSAIPRVIDFARFREIADKVGAYLHVDMAHFAGLVAAGEHPSPFPHAHVATTTTHKTL
RGPRGGMILTNDADIAKKVNSAIFPGIQGGPLMHVIAAKAVAFGEALRPEFKDYQKQVRA
NAVALSDQLIKGGLDIVTGGTDTHVMLVDLRPKGVTGNIVDKALGRAHITTNKNGIPFDP
EKPTVTSGIRLGTPAGTTRGFGEAEFREIADLIIEVVDGLAANGEDGNATVEASVREKVA
ALCARFPLYPNH