Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Serine hydroxymethyltransferase

Gene

glyA

Organism
Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

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 (By similarity).By similarity

Catalytic activityi

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

Cofactori

Pathwayi: tetrahydrofolate interconversion

This protein is involved in the pathway tetrahydrofolate interconversion, which is part of One-carbon metabolism.
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.
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 phosphateBy similarity
Binding sitei55 – 551Pyridoxal phosphateBy similarity
Binding sitei57 – 571SubstrateBy similarity
Binding sitei64 – 641SubstrateBy similarity
Binding sitei65 – 651Pyridoxal phosphateBy similarity
Binding sitei99 – 991Pyridoxal phosphateBy similarity
Binding sitei121 – 1211Substrate; via carbonyl oxygenBy similarity
Binding sitei175 – 1751Pyridoxal phosphateBy similarity
Binding sitei203 – 2031Pyridoxal phosphateBy similarity
Binding sitei228 – 2281Pyridoxal phosphateBy similarity
Binding sitei235 – 2351Pyridoxal phosphateBy similarity
Binding sitei263 – 2631Pyridoxal phosphate; via amide nitrogen and carbonyl oxygenBy similarity
Binding sitei363 – 3631Pyridoxal phosphateBy similarity

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

BioCyciSENT99287:GCTI-2569-MONOMER.
UniPathwayiUPA00193.
UPA00288; UER01023.

Names & Taxonomyi

Protein namesi
Recommended name:
Serine hydroxymethyltransferase (EC:2.1.2.1)
Short name:
SHMT
Short name:
Serine methylase
Gene namesi
Name:glyA
Ordered Locus Names:STM2555
OrganismiSalmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Taxonomic identifieri99287 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella
Proteomesi
  • UP000001014 Componenti: Chromosome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 417417Serine hydroxymethyltransferasePRO_0000113658Add
BLAST

Amino acid modifications

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

Proteomic databases

PaxDbiP0A2E1.
PRIDEiP0A2E1.

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

STRINGi99287.STM2555.

Structurei

Secondary structure

1
417
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni3 – 53Combined sources
Helixi8 – 114Combined sources
Helixi13 – 2816Combined sources
Beta strandi29 – 313Combined sources
Helixi41 – 477Combined sources
Helixi50 – 534Combined sources
Helixi72 – 8615Combined sources
Beta strandi89 – 924Combined sources
Helixi98 – 10912Combined sources
Beta strandi115 – 1217Combined sources
Helixi136 – 1394Combined sources
Beta strandi140 – 1478Combined sources
Helixi155 – 16511Combined sources
Beta strandi168 – 1725Combined sources
Helixi183 – 19210Combined sources
Beta strandi196 – 2005Combined sources
Turni202 – 2043Combined sources
Helixi205 – 2095Combined sources
Turni217 – 2193Combined sources
Beta strandi220 – 2289Combined sources
Helixi229 – 2313Combined sources
Beta strandi237 – 2437Combined sources
Helixi246 – 25510Combined sources
Helixi266 – 27813Combined sources
Helixi282 – 30423Combined sources
Helixi310 – 3123Combined sources
Beta strandi315 – 3228Combined sources
Helixi324 – 3263Combined sources
Helixi330 – 33910Combined sources
Beta strandi345 – 3473Combined sources
Turni356 – 3583Combined sources
Beta strandi360 – 3656Combined sources
Helixi367 – 3715Combined sources
Helixi376 – 39116Combined sources
Turni392 – 3943Combined sources
Helixi396 – 41217Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3GBXX-ray1.80A/B1-417[»]
ProteinModelPortaliP0A2E1.
SMRiP0A2E1. Positions 1-417.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0A2E1.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni125 – 1273Substrate bindingBy similarity
Regioni355 – 3573Substrate bindingBy similarity

Sequence similaritiesi

Belongs to the SHMT family.Curated

Phylogenomic databases

eggNOGiENOG4105C65. Bacteria.
COG0112. LUCA.
HOGENOMiHOG000239403.
KOiK00600.
OMAiAAWANVQ.
PhylomeDBiP0A2E1.

Family and domain databases

CDDicd00378. SHMT. 1 hit.
Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
HAMAPiMF_00051. SHMT. 1 hit.
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.

P0A2E1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLKREMNIAD YDAELWQAME QEKVRQEEHI ELIASENYTS PRVMQAQGSQ
60 70 80 90 100
LTNKYAEGYP GKRYYGGCEY VDVVEQLAID RAKELFGADY ANVQPHSGSQ
110 120 130 140 150
ANFAVYTALL QPGDTVLGMN LAQGGHLTHG SPVNFSGKLY NIVPYGIDES
160 170 180 190 200
GKIDYDEMAK LAKEHKPKMI IGGFSAYSGV VDWAKMREIA DSIGAYLFVD
210 220 230 240 250
MAHVAGLIAA GVYPNPVPHA HVVTTTTHKT LAGPRGGLIL AKGGDEELYK
260 270 280 290 300
KLNSAVFPSA QGGPLMHVIA GKAVALKEAM EPEFKVYQQQ VAKNAKAMVE
310 320 330 340 350
VFLNRGYKVV SGGTENHLFL LDLVDKNLTG KEADAALGRA NITVNKNSVP
360 370 380 390 400
NDPKSPFVTS GIRIGSPAVT RRGFKEAEVK ELAGWMCDVL DNINDEATIE
410
RVKAKVLDIC ARFPVYA
Length:417
Mass (Da):45,455
Last modified:March 15, 2005 - v1
Checksum:i3AA2E7EAF302042C
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti161 – 1611L → S in CAA33808 (PubMed:2134182).Curated
Sequence conflicti193 – 1931I → Y in AAA27135 (PubMed:6325301).Curated
Sequence conflicti275 – 2751A → G in CAA33808 (PubMed:2134182).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15816 Genomic DNA. Translation: CAA33808.1.
AE006468 Genomic DNA. Translation: AAL21449.1.
K01616 Genomic DNA. Translation: AAA27135.1.
PIRiB48427.
RefSeqiNP_461490.1. NC_003197.1.
WP_000919178.1. NC_003197.1.

Genome annotation databases

EnsemblBacteriaiAAL21449; AAL21449; STM2555.
GeneIDi1254077.
KEGGistm:STM2555.
PATRICi32383745. VBISalEnt20916_2695.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15816 Genomic DNA. Translation: CAA33808.1.
AE006468 Genomic DNA. Translation: AAL21449.1.
K01616 Genomic DNA. Translation: AAA27135.1.
PIRiB48427.
RefSeqiNP_461490.1. NC_003197.1.
WP_000919178.1. NC_003197.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3GBXX-ray1.80A/B1-417[»]
ProteinModelPortaliP0A2E1.
SMRiP0A2E1. Positions 1-417.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi99287.STM2555.

Proteomic databases

PaxDbiP0A2E1.
PRIDEiP0A2E1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAL21449; AAL21449; STM2555.
GeneIDi1254077.
KEGGistm:STM2555.
PATRICi32383745. VBISalEnt20916_2695.

Phylogenomic databases

eggNOGiENOG4105C65. Bacteria.
COG0112. LUCA.
HOGENOMiHOG000239403.
KOiK00600.
OMAiAAWANVQ.
PhylomeDBiP0A2E1.

Enzyme and pathway databases

UniPathwayiUPA00193.
UPA00288; UER01023.
BioCyciSENT99287:GCTI-2569-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP0A2E1.

Family and domain databases

CDDicd00378. SHMT. 1 hit.
Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
HAMAPiMF_00051. SHMT. 1 hit.
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...

Entry informationi

Entry nameiGLYA_SALTY
AccessioniPrimary (citable) accession number: P0A2E1
Secondary accession number(s): P06192
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 1, 1988
Last sequence update: March 15, 2005
Last modified: September 7, 2016
This is version 82 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

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 one 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.