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Protein

Serine hydroxymethyltransferase

Gene

glyA

Organism
Haemophilus influenzae (strain 86-028NP)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-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

Pathway: 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.

Pathway: 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)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei35 – 351Pyridoxal phosphateUniRule annotation
Binding sitei55 – 551Pyridoxal phosphateUniRule annotation
Binding sitei57 – 571SubstrateUniRule annotation
Binding sitei64 – 641SubstrateUniRule annotation
Binding sitei65 – 651Pyridoxal phosphateUniRule annotation
Binding sitei99 – 991Pyridoxal phosphateUniRule annotation
Binding sitei121 – 1211Substrate; via carbonyl oxygenUniRule annotation
Binding sitei175 – 1751Pyridoxal phosphateUniRule annotation
Binding sitei203 – 2031Pyridoxal phosphateUniRule annotation
Binding sitei228 – 2281Pyridoxal phosphateUniRule annotation
Binding sitei235 – 2351Pyridoxal phosphateUniRule annotation
Binding sitei263 – 2631Pyridoxal phosphate; via amide nitrogen and carbonyl oxygenUniRule annotation
Binding sitei363 – 3631Pyridoxal phosphateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Amino-acid biosynthesis, One-carbon metabolism

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

BioCyciHINF281310:GJ89-1004-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:NTHI1054
OrganismiHaemophilus influenzae (strain 86-028NP)
Taxonomic identifieri281310 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPasteurellalesPasteurellaceaeHaemophilus
ProteomesiUP000002525 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 421421Serine hydroxymethyltransferasePRO_0000113584Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei229 – 2291N6-(pyridoxal phosphate)lysineUniRule annotation

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliQ4QM19.
SMRiQ4QM19. Positions 1-419.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni125 – 1273Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the SHMT family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0112.
HOGENOMiHOG000239404.
KOiK00600.
OMAiCVEFSEN.
OrthoDBiEOG6Z0QB2.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
HAMAPiMF_00051. SHMT.
InterProiIPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR015422. PyrdxlP-dep_Trfase_major_sub2.
IPR001085. Ser_HO-MeTrfase.
IPR019798. Ser_HO-MeTrfase_PLP_BS.
[Graphical view]
PANTHERiPTHR11680. PTHR11680. 1 hit.
PfamiPF00464. SHMT. 1 hit.
[Graphical view]
PIRSFiPIRSF000412. SHMT. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.
PROSITEiPS00096. SHMT. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q4QM19-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFTRNMTIAD YDPVLWQAIQ DENRRQEEHI ELIASENYAS PRVMEAQGSQ
60 70 80 90 100
FTNKYAEGYP GKRYYGGCEY ADIVEQLAID RAKELFGADY VNVQPHSGSQ
110 120 130 140 150
ANAAVYGALI NAGDTILGMD LAHGGHLTHG AKVSFSGKIY NSVLYGITAD
160 170 180 190 200
GLIDYEDVRQ KALECKPKLI VAGFSAYSQV VDWAKMREIA DEVGAYLFVD
210 220 230 240 250
MAHVAGLIAA GLYLNPLPHA HVVTTTTHKT LGGPRGGLIL SSCGDEEIYK
260 270 280 290 300
KLQSSVFPAN QGGPLVHIIA AKAVCFKEAL EPQYKEYQAN VIKNAKAMVE
310 320 330 340 350
VFKQRGYDVV SNGTENHLFL VSFIKQGLTG KAADAALGKA NITVNKNAVP
360 370 380 390 400
NDPQKPFVTS GIRVGTPSVT RRGFNENDVR ELAGWMCDVL DALGKENEEQ
410 420
VIAETKEKVL AICKRLPVYP K
Length:421
Mass (Da):45,992
Last modified:July 19, 2005 - v1
Checksum:iB963B33407C6DE4C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000057 Genomic DNA. Translation: AAX87928.1.
RefSeqiWP_011272264.1. NC_007146.2.
YP_248588.1. NC_007146.2.

Genome annotation databases

EnsemblBacteriaiAAX87928; AAX87928; NTHI1054.
KEGGihit:NTHI1054.
PATRICi20182275. VBIHaeInf100748_0982.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000057 Genomic DNA. Translation: AAX87928.1.
RefSeqiWP_011272264.1. NC_007146.2.
YP_248588.1. NC_007146.2.

3D structure databases

ProteinModelPortaliQ4QM19.
SMRiQ4QM19. Positions 1-419.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAX87928; AAX87928; NTHI1054.
KEGGihit:NTHI1054.
PATRICi20182275. VBIHaeInf100748_0982.

Phylogenomic databases

eggNOGiCOG0112.
HOGENOMiHOG000239404.
KOiK00600.
OMAiCVEFSEN.
OrthoDBiEOG6Z0QB2.

Enzyme and pathway databases

UniPathwayiUPA00193.
UPA00288; UER01023.
BioCyciHINF281310:GJ89-1004-MONOMER.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
HAMAPiMF_00051. SHMT.
InterProiIPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR015422. PyrdxlP-dep_Trfase_major_sub2.
IPR001085. Ser_HO-MeTrfase.
IPR019798. Ser_HO-MeTrfase_PLP_BS.
[Graphical view]
PANTHERiPTHR11680. PTHR11680. 1 hit.
PfamiPF00464. SHMT. 1 hit.
[Graphical view]
PIRSFiPIRSF000412. SHMT. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.
PROSITEiPS00096. SHMT. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Genomic sequence of an otitis media isolate of nontypeable Haemophilus influenzae: comparative study with H. influenzae serotype d, strain KW20."
    Harrison A., Dyer D.W., Gillaspy A., Ray W.C., Mungur R., Carson M.B., Zhong H., Gipson J., Gipson M., Johnson L.S., Lewis L., Bakaletz L.O., Munson R.S. Jr.
    J. Bacteriol. 187:4627-4636(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 86-028NP.

Entry informationi

Entry nameiGLYA_HAEI8
AccessioniPrimary (citable) accession number: Q4QM19
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 7, 2006
Last sequence update: July 19, 2005
Last modified: June 24, 2015
This is version 69 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

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

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.