Pyridoxal-phosphate-dependent serine hydroxymethyltransferase 1 - Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

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Q6N693 (GLYA1_RHOPA) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 54. History...

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

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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 1
Short name=SHMT 1
Short name=Serine methylase 1
EC=2.1.2.1

Gene names

Name:	glyA1
Ordered Locus Names:	RPA2724

Organism

Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009) [Complete proteome] [HAMAP]

Taxonomic identifier

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rhizobiales › Bradyrhizobiaceae › Rhodopseudomonas

Protein attributes

Sequence length	432 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

432

Pyridoxal-phosphate-dependent serine hydroxymethyltransferase 1

PRO_0000113651

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

Q6N693 [UniParc].

Last modified July 5, 2004. Version 1.
Checksum: 25FBBB1820357471
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432

46,185

        10         20         30         40         50         60 
MSTANPASAP DSFFSASLEQ ADPEIAAAIR GELGRQRHEV ELIASENIVS RAVLEAQGSV 

        70         80         90        100        110        120 
MTNKYAEGYP GNRYYGGCEF VDVAENLAID RAKKLFGANF ANVQPNSGSQ MNQAVFLALL 

       130        140        150        160        170        180 
QPGDTFMGLD LAAGGHLTHG APVNMSGKWF KPVHYTVRRE DQMIDMDAVA KLAEEAKPKL 

       190        200        210        220        230        240 
IIAGGSAYPR AWDFKRFREI ADSVGAYFMV DMAHFAGLVA GGVHASPVPH AHVTTTTTHK 

       250        260        270        280        290        300 
SLRGPRGGLI LTNDEALAKK FNSAIFPGLQ GGPLMHVIAA KAVAFKEALQ PDFKVYTKNV 

       310        320        330        340        350        360 
VENAKALAET LRSAGFDLVS GGTDNHLMLV DLRPKGLKGN VSEKALVRAG ITCNKNGIPF 

       370        380        390        400        410        420 
DPEKPFVTSG LRLGTPAATT RGFGVAEFQQ VGHLIAEVLN AIAQSSDGAA PLVEASVKQR 

       430 
VKELTDRFPI YQ

References

[1]

"Complete genome sequence of the metabolically versatile photosynthetic bacterium Rhodopseudomonas palustris."
Larimer F.W., Chain P., Hauser L., Lamerdin J.E., Malfatti S., Do L., Land M.L., Pelletier D.A., Beatty J.T., Lang A.S., Tabita F.R., Gibson J.L., Hanson T.E., Bobst C., Torres y Torres J.L., Peres C., Harrison F.H., Gibson J., Harwood C.S.
Nat. Biotechnol. 22:55-61(2004) [PubMed: 14704707] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC BAA-98 / CGA009.

Cross-references

Sequence databases
EMBL GenBank DDBJ	BX572601 Genomic DNA. Translation: CAE28166.1.
RefSeq	NP_948067.1. NC_005296.1.
3D structure databases
ProteinModelPortal	Q6N693.
SMR	Q6N693. Positions 18-426.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	2693455.
GenomeReviews	Gene locus RPA2724 in contig BX571963_GR.
KEGG	rpa:RPA2724.
NMPDR	fig\|258594.1.peg.2710.
PATRIC	23289865. VBIRhoPal84835_2860.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HBG301263.
OMA	IFNAGYA.
ProtClustDB	PRK00011.
Enzyme and pathway databases
BioCyc	RPAL258594:RPA2724-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

GLYA1_RHOPA

Accession

Primary (citable) accession number: Q6N693

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 15, 2005
Last sequence update:	July 5, 2004
Last modified:	January 25, 2012
This is version 54 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