Pyridoxal-phosphate-dependent serine hydroxymethyltransferase 2 - Agrobacterium tumefaciens (strain C58 / ATCC 33970)

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Q8U7Y5 (GLYA2_AGRT5) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 61. 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 2
Short name=SHMT 2
Short name=Serine methylase 2
EC=2.1.2.1

Gene names

Name:	glyA2
Ordered Locus Names:	Atu4314
ORF Names:	AGR_L_1099

Organism

Agrobacterium tumefaciens (strain C58 / ATCC 33970)

Taxonomic identifier

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rhizobiales › Rhizobiaceae › Rhizobium/Agrobacterium group › Agrobacterium

Protein attributes

Sequence length	422 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 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

422

Pyridoxal-phosphate-dependent serine hydroxymethyltransferase 2

PRO_0000113520

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

Q8U7Y5 [UniParc].

Last modified June 1, 2002. Version 1.
Checksum: BA22517B0111B359
Show »

422

44,776

        10         20         30         40         50         60 
MLNRLSHNTV SDTVIADAIA EELDRQKTQI ELIASENIVS ADVLAAQGSV LTNKYAEGYP 

        70         80         90        100        110        120 
GKRYYGGCEF VDKVEQVAID RLKQLFGAEF ANVQPHSGAQ ANQAVFLALL QPGDRIMGLS 

       130        140        150        160        170        180 
LAHGGHLTHG SPVTMSGKWF DVVSYEVDPE THLIDMEKVR EKALETKPKL IVAGASAYPR 

       190        200        210        220        230        240 
QIDFAGFREI ADEVGAYLMV DMAHYAGLIA GGHYPNAVPH AHVTTSTTHK TLRGPRGGVI 

       250        260        270        280        290        300 
LTNDADLAKK LNSAVFPGNQ GGPLMHVIAA KAVAFGEALR PEFSDYAGQV IANAQALAKV 

       310        320        330        340        350        360 
LIQGGLGIVS GGTDSHMVLV DLRPKGVTGK IAEIALERAG LTCNKNSIPN DPEKPFVTSG 

       370        380        390        400        410        420 
IRLGSSAGTT RGFGVLEFEK IGALILRVID ALATNAEGDS AVEAEVREEV AALCEAFPIY 


VS

References

[1]	"The genome of the natural genetic engineer Agrobacterium tumefaciens C58." Wood D.W., Setubal J.C., Kaul R., Monks D.E., Kitajima J.P., Okura V.K., Zhou Y., Chen L., Wood G.E., Almeida N.F. Jr., Woo L., Chen Y., Paulsen I.T., Eisen J.A., Karp P.D., Bovee D. Sr., Chapman P., Clendenning J. Nester E.W. Science 294:2317-2323(2001) [PubMed: 11743193] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: C58 / ATCC 33970.
[2]	"Genome sequence of the plant pathogen and biotechnology agent Agrobacterium tumefaciens C58." Goodner B., Hinkle G., Gattung S., Miller N., Blanchard M., Qurollo B., Goldman B.S., Cao Y., Askenazi M., Halling C., Mullin L., Houmiel K., Gordon J., Vaudin M., Iartchouk O., Epp A., Liu F., Wollam C. Slater S. Science 294:2323-2328(2001) [PubMed: 11743194] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: C58 / ATCC 33970.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE007870 Genomic DNA. Translation: AAK89125.1.
PIR	AF3086. C98200.
RefSeq	NP_356340.1. NC_003063.2.
3D structure databases
ProteinModelPortal	Q8U7Y5.
SMR	Q8U7Y5. Positions 12-415.
ModBase	Search...
Protein-protein interaction databases
STRING	Q8U7Y5.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	1136188.
GenomeReviews	Gene locus Atu4314 in contig AE007870_GR.
KEGG	atu:Atu4314.
PATRIC	20818057. VBIAgrTum91616_4124.
Phylogenomic databases
eggNOG	COG0112.
HOGENOM	HBG301263.
OMA	VMTSTTH.
PhylomeDB	Q8U7Y5.
ProtClustDB	PRK00011.
Enzyme and pathway databases
BioCyc	ATUM176299-1:ATU4314-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_AGRT5

Accession

Primary (citable) accession number: Q8U7Y5

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 26, 2004
Last sequence update:	June 1, 2002
Last modified:	January 25, 2012
This is version 61 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