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Protein

Serine hydroxymethyltransferase

Gene

glyA

Organism
Neisseria meningitidis serogroup B (strain MC58)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. Also exhibits THF-independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism.UniRule annotation

Catalytic activityi

5,10-methylenetetrahydrofolate + glycine + H2O = tetrahydrofolate + L-serine.UniRule annotation

Cofactori

pyridoxal 5'-phosphateUniRule annotation

Pathwayi: tetrahydrofolate interconversion

This protein is involved in the pathway tetrahydrofolate interconversion, which is part of One-carbon metabolism.UniRule annotation
View all proteins of this organism that are known to be involved in the pathway tetrahydrofolate interconversion and in One-carbon metabolism.

Pathwayi: glycine biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes glycine from L-serine.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Serine hydroxymethyltransferase (glyA)
This subpathway is part of the pathway glycine biosynthesis, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes glycine from L-serine, the pathway glycine biosynthesis and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei35Pyridoxal phosphateUniRule annotation1
Binding sitei55Pyridoxal phosphateUniRule annotation1
Binding sitei57SubstrateUniRule annotation1
Binding sitei64SubstrateUniRule annotation1
Binding sitei65Pyridoxal phosphateUniRule annotation1
Binding sitei99Pyridoxal phosphateUniRule annotation1
Binding sitei121Substrate; via carbonyl oxygenUniRule annotation1
Binding sitei175Pyridoxal phosphateUniRule annotation1
Binding sitei203Pyridoxal phosphateUniRule annotation1
Binding sitei228Pyridoxal phosphateUniRule annotation1
Binding sitei235Pyridoxal phosphateUniRule annotation1
Binding sitei261Pyridoxal phosphate; via amide nitrogen and carbonyl oxygenUniRule annotation1
Binding sitei361Pyridoxal phosphateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionTransferase
Biological processAmino-acid biosynthesis, One-carbon metabolism
LigandPyridoxal phosphate

Enzyme and pathway databases

BioCyciNMEN122586:G1G1B-1027-MONOMER
UniPathwayiUPA00193
UPA00288; UER01023

Names & Taxonomyi

Protein namesi
Recommended name:
Serine hydroxymethyltransferaseUniRule annotation (EC:2.1.2.1UniRule annotation)
Short name:
SHMTUniRule annotation
Short name:
Serine methylaseUniRule annotation
Gene namesi
Name:glyAUniRule annotation
Ordered Locus Names:NMB1055
OrganismiNeisseria meningitidis serogroup B (strain MC58)
Taxonomic identifieri122586 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaNeisserialesNeisseriaceaeNeisseria
Proteomesi
  • UP000000425 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001136231 – 416Serine hydroxymethyltransferaseAdd BLAST416

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei229N6-(pyridoxal phosphate)lysineUniRule annotation1

Proteomic databases

PaxDbiP56990

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi122586.NMB1055

Structurei

3D structure databases

ProteinModelPortaliP56990
SMRiP56990
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni125 – 127Substrate bindingUniRule annotation3

Sequence similaritiesi

Belongs to the SHMT family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C65 Bacteria
COG0112 LUCA
HOGENOMiHOG000239404
KOiK00600
OMAiRYNDFIV
OrthoDBiPOG091H02WA

Family and domain databases

CDDicd00378 SHMT, 1 hit
Gene3Di3.40.640.10, 1 hit
3.90.1150.10, 2 hits
HAMAPiMF_00051 SHMT, 1 hit
InterProiView protein in InterPro
IPR015424 PyrdxlP-dep_Trfase
IPR015422 PyrdxlP-dep_Trfase_dom1
IPR015421 PyrdxlP-dep_Trfase_major
IPR001085 Ser_HO-MeTrfase
IPR019798 Ser_HO-MeTrfase_PLP_BS
PIRSFiPIRSF000412 SHMT, 1 hit
SUPFAMiSSF53383 SSF53383, 1 hit
PROSITEiView protein in PROSITE
PS00096 SHMT, 1 hit

Sequencei

Sequence statusi: Complete.

P56990-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFSKSVTLAQ YDPDLAAAIA QEDQRQQDHV ELIASENYVS CAVMDAQGSQ
60 70 80 90 100
LTNKYAEGYP GKRYYGGCEY VDIVEQLAID RVKELFGAAY ANVQPHSGSQ
110 120 130 140 150
ANQAVYASVL KPGDTILGMS LAHGGHLTHG ASVNISGKLY NAVTYGLDEN
160 170 180 190 200
EVLDYAEVER LALEHKPKMI VAGASAYALQ IDWAKFREIA DKVGAYLFVD
210 220 230 240 250
MAHYAGLVAG GEYPNPVPFC DFVTTTTHKT LRGPRGGVIL CRDNTHEKAL
260 270 280 290 300
NSSIFPSLQG GPLMHVIAAK AVAFKEALQP EFKQYAKQVK INAAAMAEEL
310 320 330 340 350
VKRGLRIVSG RTESHVFLVD LQPMKITGKA AEAALGKAHI TVNKNAIPND
360 370 380 390 400
PEKPFVTSGI RIGSAAMTTR GFNEADARVL ANLVADVLSN PEDEANLAKV
410
RKQVTALCNK YPVYGA
Length:416
Mass (Da):44,916
Last modified:December 1, 2000 - v1
Checksum:i393E4BBF7825921C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE002098 Genomic DNA Translation: AAF41452.1
PIRiB81126
RefSeqiNP_274089.1, NC_003112.2
WP_002225269.1, NC_003112.2

Genome annotation databases

EnsemblBacteriaiAAF41452; AAF41452; NMB1055
GeneIDi903374
KEGGinme:NMB1055
PATRICifig|122586.8.peg.1342

Similar proteinsi

Entry informationi

Entry nameiGLYA_NEIMB
AccessioniPrimary (citable) accession number: P56990
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: December 1, 2000
Last modified: March 28, 2018
This is version 109 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

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