Pyridoxal-phosphate-dependent serine hydroxymethyltransferase 2 - Burkholderia pseudomallei

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Q63MV1 (GLYA2_BURPS) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 54. 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:	BPSS0547

Organism

Burkholderia pseudomallei (Pseudomonas pseudomallei)

Taxonomic identifier

Taxonomic lineage

Bacteria › Proteobacteria › Betaproteobacteria › Burkholderiales › Burkholderiaceae › Burkholderia › pseudomallei group

Protein attributes

Sequence length	424 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.
Sequence caution	The sequence CAH38004.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Amino-acid biosynthesis One-carbon metabolism
Cellular component	Cytoplasm
Ligand	Pyridoxal phosphate
Molecular function	Transferase
Technical term	Complete proteome Reference 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

424

Pyridoxal-phosphate-dependent serine hydroxymethyltransferase 2

PRO_0000113553

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

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

Q63MV1 [UniParc].

Last modified March 15, 2005. Version 2.
Checksum: 56789A4FFDDFC41F
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424

45,441

        10         20         30         40         50         60 
MSNANPFFSQ SLAERDASVR GAILKELERQ QSQVELIASE NIVSRAVLDA QGSVLTNKYA 

        70         80         90        100        110        120 
EGYPGKRYYG GCEFADEVEA LAIERVKRLF NAGHANVQPH SGAQANGAVM LALAKPGDTV 

       130        140        150        160        170        180 
LGMSLDAGGH LTHGAKPALS GKWFNALQYG VSRDTMLIDY DQVEALAQQH KPSLIIAGFS 

       190        200        210        220        230        240 
AYPRKLDFAR FRAIADSVGA KLMVDMAHIA GVIAAGRHAN PVEHAHVVTS TTHKTLRGPR 

       250        260        270        280        290        300 
GGFVLTNDEE IAKKINSAVF PGLQGGPLMH VIAGKAVAFG EALTDDFKTY IDRVLANAQA 

       310        320        330        340        350        360 
LGDVLKAGGV DLVTGGTDNH LLLVDLRPKG LKGAQVEQAL ERAGITCNKN GIPFDPEKPT 

       370        380        390        400        410        420 
ITSGIRLGTP AGTTRGFGAA EFREVGRLIL EVFEALRTNP EGDHATEQRV RREIFALCER 


FPIY

References

[1]

"Genomic plasticity of the causative agent of melioidosis, Burkholderia pseudomallei."
Holden M.T.G., Titball R.W., Peacock S.J., Cerdeno-Tarraga A.-M., Atkins T., Crossman L.C., Pitt T., Churcher C., Mungall K.L., Bentley S.D., Sebaihia M., Thomson N.R., Bason N., Beacham I.R., Brooks K., Brown K.A., Brown N.F., Challis G.L.

expand/collapse author list

Parkhill J.
Proc. Natl. Acad. Sci. U.S.A. 101:14240-14245(2004) [PubMed: 15377794] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K96243.

Cross-references

Sequence databases
EMBL GenBank DDBJ	BX571966 Genomic DNA. Translation: CAH38004.1. Different initiation.
RefSeq	YP_110568.1. NC_006351.1.
3D structure databases
ProteinModelPortal	Q63MV1.
SMR	Q63MV1. Positions 12-419.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	3096429.
GenomeReviews	Gene locus BPSS0547 in contig BX571966_GR.
KEGG	bps:BPSS0547.
PATRIC	19268790. VBIBurPse99623_4566.
Phylogenomic databases
HOGENOM	HBG301263.
OMA	MILTNHE.
ProtClustDB	PRK13034.
Enzyme and pathway databases
BioCyc	BPSE272560:BPSS0547-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_BURPS

Accession

Primary (citable) accession number: Q63MV1

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 15, 2005
Last sequence update:	March 15, 2005
Last modified:	January 25, 2012
This is version 54 of the entry and version 2 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