Pyridoxal-phosphate-dependent serine hydroxymethyltransferase - Cytophaga hutchinsonii (strain ATCC 33406 / NCIMB 9469)

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Q11NZ7 (GLYA_CYTH3) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 49. History...

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

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

Gene names

Name:	glyA
Ordered Locus Names:	CHU_3633

Organism

Cytophaga hutchinsonii (strain ATCC 33406 / NCIMB 9469) [Complete proteome] [HAMAP]

Taxonomic identifier

Taxonomic lineage

Bacteria › Bacteroidetes › Cytophagia › Cytophagales › Cytophagaceae › Cytophaga

Protein attributes

Sequence length	431 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

431

Pyridoxal-phosphate-dependent serine hydroxymethyltransferase

PRO_0000369916

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

Q11NZ7 [UniParc].

Last modified August 22, 2006. Version 1.
Checksum: E2309B2FEBA0D42B
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431

47,153

        10         20         30         40         50         60 
MITAPIRTTA RDTQIFDLIS KEAHRQEEGI ELIASENFTS KQVMEAMGSV LTNKYAEGLP 

        70         80         90        100        110        120 
GKRYYGGCQV VDQVEQIAID RLKKLFGAEW ANVQPHSGAQ ANAAIMIACL NPGDSILGFD 

       130        140        150        160        170        180 
LSHGGHLSHG SPVNMSGKYF KAHFYGVEKE SGLINMDIVE ATALKVKPKM IICGASAYSR 

       190        200        210        220        230        240 
DWDYARFRKI ADSVGAILLA DISHPAGLIA KGLLNDPIPH CHIVSTTTHK TLRGPRGGVI 

       250        260        270        280        290        300 
MMGKDFENPF GLKTPKGETR MMSNVLDMGV FPGTQGGPLE HVIAAKAVAF QEALSTDYLQ 

       310        320        330        340        350        360 
YAKQIQKNAQ IMAEAFLKKG YDIISGGTDN HLMLIDLRSK NLTGKEAENA LIRADITINK 

       370        380        390        400        410        420 
NMVPFDDKSP FVTSGMRVGT AAITSRGMVG DDMIRIVEMI DTVLMNQTKD SVIETVRKDV 

       430 
NNWMAQYPLY I

References

[1]

"Genome sequence of the cellulolytic gliding bacterium Cytophaga hutchinsonii."
Xie G., Bruce D.C., Challacombe J.F., Chertkov O., Detter J.C., Gilna P., Han C.S., Lucas S., Misra M., Myers G.L., Richardson P., Tapia R., Thayer N., Thompson L.S., Brettin T.S., Henrissat B., Wilson D.B., McBride M.J.
Appl. Environ. Microbiol. 73:3536-3546(2007) [PubMed: 17400776] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 33406 / NCIMB 9469.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000383 Genomic DNA. Translation: ABG60866.1.
RefSeq	YP_680209.1. NC_008255.1.
3D structure databases
ProteinModelPortal	Q11NZ7.
SMR	Q11NZ7. Positions 9-431.
ModBase	Search...
Protein-protein interaction databases
STRING	Q11NZ7.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	4184877.
GenomeReviews	Gene locus CHU_3633 in contig CP000383_GR.
KEGG	chu:CHU_3633.
NMPDR	fig\|269798.12.peg.3461.
PATRIC	21598145. VBICytHut34013_3617.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0112.
HOGENOM	HBG301263.
OMA	FPMYADR.
ProtClustDB	PRK00011.
Enzyme and pathway databases
BioCyc	CHUT269798:CHU_3633-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

GLYA_CYTH3

Accession

Primary (citable) accession number: Q11NZ7

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 14, 2009
Last sequence update:	August 22, 2006
Last modified:	January 25, 2012
This is version 49 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