glyA:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

GlyA

Synonyms

serine hydroxymethyltransferase[1], B2551[2][1], GlyA[2][1] , ECK2548, JW2535, b2551

Product description

GlyA[2][3];

Component of glycine hydroxymethyltransferase[2][3]

Serine hydroxymethyltransferase; binds Zn(II)[4]

EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0004372

glycine hydroxymethyltransferase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00051

F

Seeded from EcoCyc (v14.0)

complete

GO:0004372

glycine hydroxymethyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001085

F

Seeded from EcoCyc (v14.0)

complete

GO:0004372

glycine hydroxymethyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR019798

F

Seeded from EcoCyc (v14.0)

complete

GO:0004372

glycine hydroxymethyltransferase activity

PMID:6190704[5]

IMP: Inferred from Mutant Phenotype

F

complete

GO:0004372

glycine hydroxymethyltransferase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.1.2.1

F

Seeded from EcoCyc (v14.0)

complete

GO:0004372

glycine hydroxymethyltransferase activity

PMID:3891721[6]

IDA: Inferred from Direct Assay

F

complete

GO:0005829

cytosol

PMID:16858726[7]

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0006730

one-carbon metabolic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00051

P

Seeded from EcoCyc (v14.0)

complete

GO:0006730

one-carbon metabolic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0554

P

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

PMID:16858726[7]

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0030170

pyridoxal phosphate binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015421

F

Seeded from EcoCyc (v14.0)

complete

GO:0030170

pyridoxal phosphate binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR019798

F

Seeded from EcoCyc (v14.0)

complete

GO:0008270

zinc ion binding

PMID:11985624[8]

IDA: Inferred from Direct Assay

F

complete

GO:0006564

L-serine biosynthetic process

PMID:3108237[9]

IGI: Inferred from Genetic Interaction

EcoliWiki:serA


P

glyA serA double mutants are unable to synthesize serine by the alternate pathway (Tut cycle) and cannot grow on LRKTM:240 medium (minimal medium containing 240 mg/liter of leucine, arginine, lysine, threonine, and methionine)

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

Subunits of glycine hydroxymethyltransferase

could be indirect

Protein

ymfG

PMID:16606699[10]

Experiment(s):EBI-1143223

Protein

ymfM

PMID:16606699[10]

Experiment(s):EBI-1143223

Protein

yghW

PMID:16606699[10]

Experiment(s):EBI-1143223

Protein

ybaO

PMID:16606699[10]

Experiment(s):EBI-1143223

Protein

yneF

PMID:19402753[11]

LCMS(ID Probability):99.0

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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MLKREMNIAD YDAELWQAME QEKVRQEEHI ELIASENYTS PRVMQAQGSQ LTNKYAEGYP
GKRYYGGCEY VDIVEQLAID RAKELFGADY ANVQPHSGSQ ANFAVYTALL EPGDTVLGMN
LAHGGHLTHG SPVNFSGKLY NIVPYGIDAT GHIDYADLEK QAKEHKPKMI IGGFSAYSGV
VDWAKMREIA DSIGAYLFVD MAHVAGLVAA GVYPNPVPHA HVVTTTTHKT LAGPRGGLIL
AKGGSEELYK KLNSAVFPGG QGGPLMHVIA GKAVALKEAM EPEFKTYQQQ VAKNAKAMVE
VFLERGYKVV SGGTDNHLFL VDLVDKNLTG KEADAALGRA NITVNKNSVP NDPKSPFVTS
GIRVGTPAIT RRGFKEAEAK ELAGWMCDVL DSINDEAVIE RIKGKVLDIC ARYPVYA
Length

417

Mol. Wt

45.316 kDa

pI

6.5 (calculated)

Extinction coefficient

46,300 - 46,675 (calc based on 20 Y, 3 W, and 3 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Domain

8..386

PF00464 Serine hydroxymethyltransferase

PMID:19920124[12]

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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=glyA taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16130476

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947022

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008389

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A825

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10408

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10408

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947022

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000401

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0403

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ Plamann, MD & Stauffer, GV (1983) Characterization of the Escherichia coli gene for serine hydroxymethyltransferase. Gene 22 9-18 PubMed
  6. ↑ Schirch, V et al. (1985) Serine hydroxymethyltransferase from Escherichia coli: purification and properties. J. Bacteriol. 163 1-7 PubMed
  7. ↑ 7.0 7.1 Lasserre, JP et al. (2006) A complexomic study of Escherichia coli using two-dimensional blue native/SDS polyacrylamide gel electrophoresis. Electrophoresis 27 3306-21 PubMed
  8. ↑ Katayama, A et al. (2002) Systematic search for zinc-binding proteins in Escherichia coli. Eur. J. Biochem. 269 2403-13 PubMed
  9. ↑ Ravnikar, PD & Somerville, RL (1987) Genetic characterization of a highly efficient alternate pathway of serine biosynthesis in Escherichia coli. J. Bacteriol. 169 2611-7 PubMed
  10. ↑ 10.0 10.1 10.2 10.3 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  11. ↑ Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  12. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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