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Q7U9J7 (GLYA_SYNPX) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 72. 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:SYNW0259
OrganismSynechococcus sp. (strain WH8102) [Complete proteome] [HAMAP]
Taxonomic identifier84588 [NCBI]
Taxonomic lineageBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus

Protein attributes

Sequence length429 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 – 429429Serine hydroxymethyltransferase HAMAP-Rule MF_00051
PRO_0000113682

Regions

Region130 – 1323Substrate binding By similarity
Region359 – 3613Substrate binding By similarity

Sites

Binding site401Pyridoxal phosphate By similarity
Binding site601Pyridoxal phosphate By similarity
Binding site621Substrate By similarity
Binding site691Substrate By similarity
Binding site701Pyridoxal phosphate By similarity
Binding site1261Substrate; via carbonyl oxygen By similarity
Binding site1811Pyridoxal phosphate By similarity
Binding site2091Pyridoxal phosphate By similarity
Binding site2341Pyridoxal phosphate By similarity
Binding site2411Pyridoxal phosphate By similarity
Binding site2671Pyridoxal phosphate; via amide nitrogen and carbonyl oxygen By similarity
Binding site3671Pyridoxal phosphate By similarity

Amino acid modifications

Modified residue2351N6-(pyridoxal phosphate)lysine By similarity

Sequences

Sequence LengthMass (Da)Tools
Q7U9J7 [UniParc].

Last modified October 1, 2003. Version 1.
Checksum: 8177A683A10E3D6D

FASTA42945,756
        10         20         30         40         50         60 
MSDSTASSIN KGLAAADPAI AALIEKEQQR QETHLELIAS ENFASRAVMD AQGSVLTNKY 

        70         80         90        100        110        120 
AEGLPSKRYY GGCEHVDAIE ELAIERAKEL FGAAWANVQP HSGAQANFAV FLALLQPGDT 

       130        140        150        160        170        180 
IMGLDLSHGG HLTHGSPVNV SGKWFNVVQY GVDRETQRLD MEAIRQLALE HKPKLIVCGF 

       190        200        210        220        230        240 
SAYPRTIDFA AFRAIADEVG AFLLADMAHI AGLVAAGVHP SPVPHCDVVT TTTHKTLRGP 

       250        260        270        280        290        300 
RGGLILCRDA DFAKKFDKAV FPGSQGGPLE HVIAAKAVAF GEALQPAFKT YSQHVVANAA 

       310        320        330        340        350        360 
ALAERLIARG IDVVSGGTDN HVVLLDLRSV GMTGKVADLL VSDVHITANK NTVPFDPESP 

       370        380        390        400        410        420 
FVTSGLRLGT AALTTRGFDA GAFREVADVI ADRLLNPEDD AVQQQCLRRV EALCQRFPLY 


AAARQPALA 

« Hide

References

[1]"The genome of a motile marine Synechococcus."
Palenik B., Brahamsha B., Larimer F.W., Land M.L., Hauser L., Chain P., Lamerdin J.E., Regala W., Allen E.E., McCarren J., Paulsen I.T., Dufresne A., Partensky F., Webb E.A., Waterbury J.
Nature 424:1037-1042(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: WH8102.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
BX569689 Genomic DNA. Translation: CAE06774.1.
RefSeqNP_896354.1. NC_005070.1.

3D structure databases

ProteinModelPortalQ7U9J7.
SMRQ7U9J7. Positions 11-413.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING84588.SYNW0259.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaCAE06774; CAE06774; SYNW0259.
GeneID1730097.
KEGGsyw:SYNW0259.
PATRIC23831899. VBISynSp27240_0262.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0112.
HOGENOMHOG000239404.
KOK00600.
OMAHLMLVDV.
OrthoDBEOG6Z0QB2.

Enzyme and pathway databases

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_SYNPX
AccessionPrimary (citable) accession number: Q7U9J7
Entry history
Integrated into UniProtKB/Swiss-Prot: April 26, 2004
Last sequence update: October 1, 2003
Last modified: May 14, 2014
This is version 72 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