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Q07MT9 (GLYA_RHOP5) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 56. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
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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:RPE_2808
OrganismRhodopseudomonas palustris (strain BisA53) [Complete proteome] [HAMAP]
Taxonomic identifier316055 [NCBI]
Taxonomic lineageBacteria › Proteobacteria › Alphaproteobacteria › Rhizobiales › Bradyrhizobiaceae › Rhodopseudomonas ›

Protein attributes

Sequence length433 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.

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.

Subcellular location

Cytoplasm By similarity.

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: 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: HAMAP

pyridoxal phosphate binding

Inferred from electronic annotation. Source: HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 433433Serine hydroxymethyltransferase HAMAP-Rule MF_00051
PRO_0000369949

Regions

Region136 – 1383Substrate binding By similarity

Sites

Binding site461Pyridoxal phosphate By similarity
Binding site661Pyridoxal phosphate By similarity
Binding site681Substrate By similarity
Binding site751Substrate By similarity
Binding site761Pyridoxal phosphate By similarity
Binding site1101Pyridoxal phosphate By similarity
Binding site1321Substrate; via carbonyl oxygen By similarity
Binding site1871Pyridoxal phosphate By similarity
Binding site2151Pyridoxal phosphate By similarity
Binding site2401Pyridoxal phosphate By similarity
Binding site2471Pyridoxal phosphate By similarity
Binding site2731Pyridoxal phosphate; via amide nitrogen and carbonyl oxygen By similarity
Binding site3731Pyridoxal phosphate By similarity

Amino acid modifications

Modified residue2411N6-(pyridoxal phosphate)lysine By similarity

Sequences

Sequence LengthMass (Da)Tools
Q07MT9 [UniParc].

Last modified October 31, 2006. Version 1.
Checksum: ED49606E9B29DDF3

FASTA43346,178
        10         20         30         40         50         60 
MSTSAKTQSA PDQFFSASLA EADPEIAAAI AGELGRQRHE IELIASENIV SRAVLEAQGS 

        70         80         90        100        110        120 
VMTNKYAEGY PGHRYYGGCE FVDVAENLAI DRAKKLFGAG FANVQPNSGS QMNQAVFLAL 

       130        140        150        160        170        180 
LQPGDTFMGL DLAAGGHLTH GATVNMSGKW FKPVHYTVRR EDGIIDMDEV AKIAEANKPK 

       190        200        210        220        230        240 
LIIAGGSAYS RAWDFKRFRE IADSVGAYFM VDMAHFAGLV AGGVHASPVP HAHVCTTTTH 

       250        260        270        280        290        300 
KSLRGPRGGL ILCNDEALAK KFNSAIFPGL QGGPLMHVIA AKAVAFKEAL QPDFKVYAKN 

       310        320        330        340        350        360 
VVENAKALAE TLRGHGFDIV SGGTDNHLML VDLRPKALKG NVSEKALVRA GITCNKNGIP 

       370        380        390        400        410        420 
FDPEKPFVTS GIRLGTPAAT TRGFGVAEFQ QVGGMIAEVL NAIAQSSDGQ APLVEAAIRQ 

       430 
RVKELTDRFP IYS

« Hide

References

[1]"Complete sequence of Rhodopseudomonas palustris BisA53."
US DOE Joint Genome Institute
Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Dalin E., Tice H., Pitluck S., Chain P., Malfatti S., Shin M., Vergez L., Schmutz J., Larimer F., Land M. expand/collapse author list , Hauser L., Pelletier D.A., Kyrpides N., Kim E., Harwood C.S., Oda Y., Richardson P.
Submitted (SEP-2006) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: BisA53.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CP000463 Genomic DNA. Translation: ABJ06745.1.
RefSeqYP_781725.1. NC_008435.1.

3D structure databases

ProteinModelPortalQ07MT9.
SMRQ07MT9. Positions 19-427.
ModBaseSearch...

Protein-protein interaction databases

STRING316055.RPE_2808.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABJ06745; ABJ06745; RPE_2808.
GeneID4360491.
KEGGrpe:RPE_2808.
PATRIC23260206. VBIRhoPal93214_2843.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0112.
HOGENOMHOG000239404.
KOK00600.
OMALETHPAM.
ProtClustDBPRK00011.

Enzyme and pathway databases

BioCycRPAL316055:GHR9-2864-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. PyrdxlP-dep_Trfase_major. 1 hit.
PROSITEPS00096. SHMT. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameGLYA_RHOP5
AccessionPrimary (citable) accession number: Q07MT9
Entry history
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: October 31, 2006
Last modified: May 1, 2013
This is version 56 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

PATHWAY comments

Index of metabolic and biosynthesis pathways

SIMILARITY comments

Index of protein domains and families

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