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Protein

Serine hydroxymethyltransferase

Gene

glyA

Organism
Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)
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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei47 – 471Pyridoxal phosphateUniRule annotation
Binding sitei67 – 671Pyridoxal phosphateUniRule annotation
Binding sitei69 – 691SubstrateUniRule annotation
Binding sitei76 – 761SubstrateUniRule annotation
Binding sitei77 – 771Pyridoxal phosphateUniRule annotation
Binding sitei111 – 1111Pyridoxal phosphateUniRule annotation
Binding sitei133 – 1331Substrate; via carbonyl oxygenUniRule annotation
Binding sitei188 – 1881Pyridoxal phosphateUniRule annotation
Binding sitei216 – 2161Pyridoxal phosphateUniRule annotation
Binding sitei241 – 2411Pyridoxal phosphateUniRule annotation
Binding sitei248 – 2481Pyridoxal phosphateUniRule annotation
Binding sitei274 – 2741Pyridoxal phosphate; via amide nitrogen and carbonyl oxygenUniRule annotation
Binding sitei374 – 3741Pyridoxal phosphateUniRule annotation

GO - Molecular functioni

  1. glycine hydroxymethyltransferase activity Source: UniProtKB-HAMAP
  2. pyridoxal phosphate binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. glycine biosynthetic process from serine Source: UniProtKB-HAMAP
  2. tetrahydrofolate interconversion Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Amino-acid biosynthesis, One-carbon metabolism

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

BioCyciBMEL224914:GCJ0-1229-MONOMER.
BMEL224914:GCJ0-1230-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:BMEI1192/BMEI1191
OrganismiBrucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)
Taxonomic identifieri224914 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBrucellaceaeBrucella
ProteomesiUP000000419 Componenti: Chromosome I

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 438438Serine hydroxymethyltransferasePRO_0000113545Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei242 – 2421N6-(pyridoxal phosphate)lysineUniRule annotation

Proteomic databases

PRIDEiQ8YGG7.

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliQ8YGG7.
SMRiQ8YGG7. Positions 24-428.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni137 – 1393Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the SHMT family.UniRule annotation

Phylogenomic databases

KOiK00600.
OMAiAAWANVQ.
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.

Q8YGG7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSQANAATKA SSDVFFNASL EDIDPEIFGA IRNELGRQRH EIELIASENI
60 70 80 90 100
VSRAVLEAQG SILTNKYAEG YPGKRYYGGC QYVDVVEELA IERAKKLFGA
110 120 130 140 150
EFANVQPNSG SQMNQAVFLA LLQPGDTFMG LDLNSGGHLT HGSPVNMSGK
160 170 180 190 200
WFNVVSYGVR KDDHLLDMDE VARLARENKP KLILAGGTAY SRIWDWKRFR
210 220 230 240 250
EIADEVGACL MVDMAHIAGL VAGGQHPSPV PHAHVCTTTT HKSLRGPRGG
260 270 280 290 300
MILTNDADIA KKINSAVFPG LQGGPLMHVI AGKAVAFAEA LKPEFKLYAK
310 320 330 340 350
NVVDNARALA EELKSHGLDI VSGGTDNHLM LVDLRPKNAT GKRAEAALGR
360 370 380 390 400
ANITCNKNGI PFDPEKPFVA SGVRLGTPAG TTRGFGVAEF KEIGSLIAEV
410 420 430
LDGLKVANSD EGNAAVEQAV KEKVIALTGR FPMYGYQG
Length:438
Mass (Da):46,995
Last modified:November 6, 2003 - v2
Checksum:iEE95968DB1AD762F
GO

Sequence cautioni

The sequence AAL52372.1 differs from that shown. Reason: Frameshift at position 187. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE008917 Genomic DNA. Translation: AAL52373.1. Frameshift.
AE008917 Genomic DNA. Translation: AAL52372.1. Frameshift.
PIRiAB3401.
AI3400.
RefSeqiNP_540108.1. NC_003317.1.
NP_540109.1. NC_003317.1.

Genome annotation databases

EnsemblBacteriaiAAL52372; AAL52372; BMEI1191.
AAL52373; AAL52373; BMEI1192.
KEGGibme:BMEI1191.
bme:BMEI1192.
PATRICi17852683. VBIBruMel92729_1333.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE008917 Genomic DNA. Translation: AAL52373.1. Frameshift.
AE008917 Genomic DNA. Translation: AAL52372.1. Frameshift.
PIRiAB3401.
AI3400.
RefSeqiNP_540108.1. NC_003317.1.
NP_540109.1. NC_003317.1.

3D structure databases

ProteinModelPortaliQ8YGG7.
SMRiQ8YGG7. Positions 24-428.
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiQ8YGG7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAL52372; AAL52372; BMEI1191.
AAL52373; AAL52373; BMEI1192.
KEGGibme:BMEI1191.
bme:BMEI1192.
PATRICi17852683. VBIBruMel92729_1333.

Phylogenomic databases

KOiK00600.
OMAiAAWANVQ.
OrthoDBiEOG6Z0QB2.

Enzyme and pathway databases

UniPathwayiUPA00193.
UPA00288; UER01023.
BioCyciBMEL224914:GCJ0-1229-MONOMER.
BMEL224914:GCJ0-1230-MONOMER.

Miscellaneous databases

PROiQ8YGG7.

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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 16M / ATCC 23456 / NCTC 10094.

Entry informationi

Entry nameiGLYA_BRUME
AccessioniPrimary (citable) accession number: Q8YGG7
Secondary accession number(s): Q8YGG8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 6, 2003
Last sequence update: November 6, 2003
Last modified: March 31, 2015
This is version 84 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. Brucella melitensis
    Brucella melitensis (strain 16M): entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. 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.