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Q2KA25 (GLYA_RHIEC) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 57. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Serine hydroxymethyltransferase

Short name=SHMT
Short name=Serine methylase
EC=2.1.2.1
Gene names
Name:glyA
Ordered Locus Names:RHE_CH01508
OrganismRhizobium etli (strain CFN 42 / ATCC 51251) [Complete proteome] [HAMAP]
Taxonomic identifier347834 [NCBI]
Taxonomic lineageBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupRhizobium

Protein attributes

Sequence length432 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

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. HAMAP-Rule MF_00051

Catalytic activity

5,10-methylenetetrahydrofolate + glycine + H2O = tetrahydrofolate + L-serine. HAMAP-Rule MF_00051

Cofactor

Pyridoxal phosphate By similarity. HAMAP-Rule MF_00051

Pathway

One-carbon metabolism; tetrahydrofolate interconversion. HAMAP-Rule MF_00051

Amino-acid biosynthesis; glycine biosynthesis; glycine from L-serine: step 1/1. HAMAP-Rule MF_00051

Subunit structure

Homodimer By similarity. HAMAP-Rule MF_00051

Subcellular location

Cytoplasm By similarity HAMAP-Rule MF_00051.

Sequence similarities

Belongs to the SHMT family.

Ontologies

Keywords
   Biological processAmino-acid biosynthesis
One-carbon metabolism
   Cellular componentCytoplasm
   LigandPyridoxal phosphate
   Molecular functionTransferase
   Technical termComplete proteome
Gene Ontology (GO)
   Biological_processglycine biosynthetic process from serine

Inferred from electronic annotation. Source: UniProtKB-HAMAP

tetrahydrofolate interconversion

Inferred from electronic annotation. Source: UniProtKB-UniPathway

   Cellular_componentcytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_functionglycine hydroxymethyltransferase activity

Inferred from electronic annotation. Source: UniProtKB-HAMAP

pyridoxal phosphate binding

Inferred from electronic annotation. Source: UniProtKB-HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 432432Serine hydroxymethyltransferase HAMAP-Rule MF_00051
PRO_1000006303

Regions

Region131 – 1333Substrate binding By similarity

Sites

Binding site411Pyridoxal phosphate By similarity
Binding site611Pyridoxal phosphate By similarity
Binding site631Substrate By similarity
Binding site701Substrate By similarity
Binding site711Pyridoxal phosphate By similarity
Binding site1051Pyridoxal phosphate By similarity
Binding site1271Substrate; via carbonyl oxygen By similarity
Binding site1821Pyridoxal phosphate By similarity
Binding site2101Pyridoxal phosphate By similarity
Binding site2351Pyridoxal phosphate By similarity
Binding site2421Pyridoxal phosphate By similarity
Binding site2681Pyridoxal phosphate; via amide nitrogen and carbonyl oxygen By similarity
Binding site3681Pyridoxal phosphate By similarity

Amino acid modifications

Modified residue2361N6-(pyridoxal phosphate)lysine By similarity

Sequences

Sequence LengthMass (Da)Tools
Q2KA25 [UniParc].

Last modified March 7, 2006. Version 1.
Checksum: F8CF2FDAD295117D

FASTA43246,598
        10         20         30         40         50         60 
MTNASTESFF NRSLADVDPE IFGAIGKELG RQRHEIELIA SENIVSRAVL EAQGSIMTNK 

        70         80         90        100        110        120 
YAEGYPGKRY YGGCQFVDIA EELAIERAKK LFGVNFANVQ PNSGSQMNQA VFLALLQPGD 

       130        140        150        160        170        180 
TFMGLDLNSG GHLTHGSPVN MSGKWFNVVS YGVREGDNLL DMDEVARKAE EHKPKVIIAG 

       190        200        210        220        230        240 
GTAYSRIWDW KRFREIADSV GAYLMVDMAH IAGLVAGGQH PSPFPHCHVA TTTTHKSLRG 

       250        260        270        280        290        300 
PRGGVILTNE EDLAKKFNSA VFPGLQGGPL MHIIAAKAVA FGEALQPEFK EYAAQIVKNA 

       310        320        330        340        350        360 
RALAETLIAG GLDVVSGGTD NHLMLVDLRK KNATGKRAEA ALGRAYITCN KNGIPFDPEK 

       370        380        390        400        410        420 
PFVTSGVRLG APAGTTRGFK EAEFREIGNL IVEVLDGLKV ANSDDGNAAV EAAVRGKVVN 

       430 
LTDRFPMYDY MG 

« Hide

References

[1]"The partitioned Rhizobium etli genome: genetic and metabolic redundancy in seven interacting replicons."
Gonzalez V., Santamaria R.I., Bustos P., Hernandez-Gonzalez I., Medrano-Soto A., Moreno-Hagelsieb G., Janga S.C., Ramirez M.A., Jimenez-Jacinto V., Collado-Vides J., Davila G.
Proc. Natl. Acad. Sci. U.S.A. 103:3834-3839(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: CFN 42 / ATCC 51251.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000133 Genomic DNA. Translation: ABC90311.1.
RefSeqYP_469038.1. NC_007761.1.

3D structure databases

ProteinModelPortalQ2KA25.
SMRQ2KA25. Positions 12-423.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING347834.RHE_CH01508.

Proteomic databases

PRIDEQ2KA25.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABC90311; ABC90311; RHE_CH01508.
GeneID3890943.
KEGGret:RHE_CH01508.
PATRIC23084429. VBIRhiEtl108884_1886.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0112.
HOGENOMHOG000239404.
KOK00600.
OMACAYVNVQ.
OrthoDBEOG6Z0QB2.

Enzyme and pathway databases

BioCycRETL347834:GJJ0-1517-MONOMER.
UniPathwayUPA00193.
UPA00288; UER01023.

Family and domain databases

Gene3D3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
HAMAPMF_00051. SHMT.
InterProIPR015424. 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]
PANTHERPTHR11680. PTHR11680. 1 hit.
PfamPF00464. SHMT. 1 hit.
[Graphical view]
PIRSFPIRSF000412. SHMT. 1 hit.
SUPFAMSSF53383. SSF53383. 1 hit.
PROSITEPS00096. SHMT. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameGLYA_RHIEC
AccessionPrimary (citable) accession number: Q2KA25
Entry history
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: March 7, 2006
Last modified: May 14, 2014
This is version 57 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways