Pyridoxal-phosphate-dependent serine hydroxymethyltransferase 2 - Colwellia psychrerythraea (strain 34H / ATCC BAA-681)

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Q481S6 (GLYA2_COLP3) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 43. History...

Clusters with 100%, 90%, 50% identity |

Documents (2) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Pyridoxal-phosphate-dependent serine hydroxymethyltransferase 2
Short name=SHMT 2
Short name=Serine methylase 2
EC=2.1.2.1

Gene names

Name:	glyA2
Ordered Locus Names:	CPS_2477

Organism

Colwellia psychrerythraea (strain 34H / ATCC BAA-681) (Vibrio psychroerythus) [Complete proteome] [HAMAP]

Taxonomic identifier

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Alteromonadales › Colwelliaceae › Colwellia

Protein attributes

Sequence length	417 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate serving as the one-carbon carrier By similarity.
Catalytic activity	5,10-methylenetetrahydrofolate + glycine + H₂O = tetrahydrofolate + L-serine. HAMAP MF_00051
Cofactor	Pyridoxal phosphate By similarity. HAMAP MF_00051
Pathway	One-carbon metabolism; tetrahydrofolate interconversion. HAMAP MF_00051 Amino-acid biosynthesis; glycine biosynthesis; glycine from L-serine: step 1/1.
Subunit structure	Homodimer By similarity.
Subcellular location	Cytoplasm By similarity HAMAP MF_00051.
Sequence similarities	Belongs to the SHMT family.

Ontologies

Keywords
Biological process	Amino-acid biosynthesis One-carbon metabolism
Cellular component	Cytoplasm
Ligand	Pyridoxal phosphate
Molecular function	Transferase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	L-serine metabolic process Inferred from electronic annotation. Source: InterPro glycine metabolic process Inferred from electronic annotation. Source: InterPro one-carbon metabolic process Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	glycine hydroxymethyltransferase activity Inferred from electronic annotation. Source: EC pyridoxal phosphate binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

417

Pyridoxal-phosphate-dependent serine hydroxymethyltransferase 2

PRO_0000234968

Regions

Region

3

Substrate binding By similarity

Sites

Binding site

1

Pyridoxal phosphate By similarity

Binding site

1

Pyridoxal phosphate By similarity

Binding site

1

Substrate By similarity

Binding site

1

Substrate binding By similarity

Binding site

1

Pyridoxal phosphate By similarity

Binding site

1

Pyridoxal phosphate By similarity

Binding site

1

Substrate By similarity

Binding site

1

Pyridoxal phosphate By similarity

Binding site

1

Pyridoxal phosphate By similarity

Binding site

1

Pyridoxal phosphate By similarity

Binding site

1

Pyridoxal phosphate By similarity

Binding site

1

Pyridoxal phosphate; via amide nitrogen and carbonyl oxygen By similarity

Binding site

1

Pyridoxal phosphate By similarity

Amino acid modifications

Modified residue

1

N6-(pyridoxal phosphate)lysine By similarity

Sequences

Sequence

Length

Mass (Da)

Tools

Q481S6 [UniParc].

Last modified September 13, 2005. Version 1.
Checksum: 492CADB4737489D5
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417

45,458

        10         20         30         40         50         60 
MFYKNDQIAG FDDSIWQAME QEDKRQQDHV ELIASENYTS ARVMQAQGSQ LTNKYAEGYP 

        70         80         90        100        110        120 
GKRYYGGCEH VDVIEQLAID RAKELFGADY ANVQPHSGSQ ANAAVFMALL KPGETVLGMS 

       130        140        150        160        170        180 
LAHGGHLTHG SKVSFSGKIY NAVQYGLNEA TGEIDYEEVE RLAKEHQPKM IIAGFSAYSR 

       190        200        210        220        230        240 
VVDWQRFRDI ADSIGAWLFV DMAHVAGLVA AGLYPNPVPI ADVVTTTTHK TLRGPRGGLI 

       250        260        270        280        290        300 
LAKQNDELAK KLNSAVFPAG QGGPLMHVIA AKAICFKEAL GEGYVEYQQQ VIDNAREMAK 

       310        320        330        340        350        360 
TFQTRGYNVV SGGTDNHLFL LDLIDKGITG KDADAALGRA NITVNKNSVP NDPQSPFVTS 

       370        380        390        400        410 
GLRIGTPAIT SRGFGLEEAA ALTGWICDVL DDISNEQVID DVRSKVLDLC EKNPVYR

References

[1]

"The psychrophilic lifestyle as revealed by the genome sequence of Colwellia psychrerythraea 34H through genomic and proteomic analyses."
Methe B.A., Nelson K.E., Deming J.W., Momen B., Melamud E., Zhang X., Moult J., Madupu R., Nelson W.C., Dodson R.J., Brinkac L.M., Daugherty S.C., Durkin A.S., DeBoy R.T., Kolonay J.F., Sullivan S.A., Zhou L., Davidsen T.M.

expand/collapse author list

Fraser C.M.
Proc. Natl. Acad. Sci. U.S.A. 102:10913-10918(2005) [PubMed: 16043709] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: 34H / ATCC BAA-681.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000083 Genomic DNA. Translation: AAZ25763.1.
RefSeq	YP_269193.1. NC_003910.7.
3D structure databases
ProteinModelPortal	Q481S6.
SMR	Q481S6. Positions 1-416.
ModBase	Search...
Protein-protein interaction databases
STRING	Q481S6.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	3520009.
GenomeReviews	Gene locus CPS_2477 in contig CP000083_GR.
KEGG	cps:CPS_2477.
NMPDR	fig\|167879.3.peg.2411.
PATRIC	21468023. VBIColPsy94388_2245.
TIGR	CPS_2477.
Phylogenomic databases
eggNOG	COG0112.
HOGENOM	HBG301263.
ProtClustDB	PRK00011.
Enzyme and pathway databases
BioCyc	CPSY167879:CPS_2477-MONOMER.
Family and domain databases
HAMAP	MF_00051. SHMT. [Tree]
InterPro	IPR015424. PyrdxlP-dep_Trfase_major_dom. IPR015421. PyrdxlP-dep_Trfase_major_sub1. IPR015422. PyrdxlP-dep_Trfase_major_sub2. IPR001085. Ser_HO-MeTrfase. IPR019798. Ser_HO-MeTrfase_PLP_BS. [Graphical view]
Gene3D	G3DSA:3.40.640.10. PyrdxlP-dep_Trfase_major_sub1. 1 hit. G3DSA:3.90.1150.10. PyrdxlP-dep_Trfase_major_sub2. 1 hit.
KO	K00600.
PANTHER	PTHR11680. Gly_HO-Metrfase. 1 hit.
Pfam	PF00464. SHMT. 1 hit. [Graphical view]
PIRSF	PIRSF000412. SHMT. 1 hit.
SUPFAM	SSF53383. PyrdxlP-dep_Trfase_major. 1 hit.
PROSITE	PS00096. SHMT. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

GLYA2_COLP3

Accession

Primary (citable) accession number: Q481S6

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 16, 2006
Last sequence update:	September 13, 2005
Last modified:	January 25, 2012
This is version 43 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic 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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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents