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Protein

Phosphoglycolate phosphatase

Gene

gph

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Specifically catalyzes the dephosphorylation of 2-phosphoglycolate (2P-Gly). Is involved in the dissimilation of the intracellular 2-phosphoglycolate formed during the DNA repair of 3'-phosphoglycolate ends, a major class of DNA lesions induced by oxidative stress.1 Publication

Catalytic activityi

2-phosphoglycolate + H2O = glycolate + phosphate.1 Publication

Cofactori

Protein has several cofactor binding sites:

Kineticsi

  1. KM=210 µM for 2P-Gly2 Publications
  2. KM=8.9 mM for acetyl-phosphate (with magnesium ions as cofactor and at pH 9)2 Publications
  3. KM=0.13 mM for imido-diphosphate (with magnesium ions as cofactor and at pH 9)2 Publications
  1. Vmax=208 µmol/min/mg enzyme2 Publications

pH dependencei

Optimum pH is 6.9.2 Publications

Pathwayi: glycolate biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes glycolate from 2-phosphoglycolate.
Proteins known to be involved in this subpathway in this organism are:
  1. Phosphoglycolate phosphatase (gph)
This subpathway is part of the pathway glycolate biosynthesis, which is itself part of Organic acid metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes glycolate from 2-phosphoglycolate, the pathway glycolate biosynthesis and in Organic acid metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei13NucleophileBy similarity1
Metal bindingi13MagnesiumBy similarity1
Metal bindingi15MagnesiumBy similarity1
Metal bindingi192MagnesiumBy similarity1

GO - Molecular functioni

  • chloride ion binding Source: EcoCyc
  • magnesium ion binding Source: EcoCyc
  • phosphoglycolate phosphatase activity Source: EcoCyc

GO - Biological processi

  • carbohydrate metabolic process Source: UniProtKB-HAMAP
  • dephosphorylation Source: EcoCyc
  • DNA repair Source: EcoCyc
  • glycolate biosynthetic process Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Carbohydrate metabolism

Keywords - Ligandi

Chloride, Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciEcoCyc:GPH-MONOMER.
ECOL316407:JW3348-MONOMER.
MetaCyc:GPH-MONOMER.
SABIO-RKP32662.
UniPathwayiUPA00865; UER00834.

Names & Taxonomyi

Protein namesi
Recommended name:
Phosphoglycolate phosphatase (EC:3.1.3.18)
Short name:
PGP
Short name:
PGPase
Gene namesi
Name:gph
Synonyms:yhfE
Ordered Locus Names:b3385, JW3348
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11871. gph.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001080271 – 252Phosphoglycolate phosphataseAdd BLAST252

Proteomic databases

PaxDbiP32662.
PRIDEiP32662.

2D gel databases

SWISS-2DPAGEP32662.

Expressioni

Inductioni

Constitutively expressed.1 Publication

Interactioni

Subunit structurei

Monomer.1 Publication

Protein-protein interaction databases

BioGridi4259294. 62 interactors.
IntActiP32662. 13 interactors.
STRINGi511145.b3385.

Structurei

3D structure databases

ProteinModelPortaliP32662.
SMRiP32662.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni13 – 15Substrate bindingBy similarity3

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4108VXP. Bacteria.
COG0546. LUCA.
HOGENOMiHOG000248344.
InParanoidiP32662.
KOiK01091.
OMAiHPAPLFL.
PhylomeDBiP32662.

Family and domain databases

Gene3Di1.10.150.240. 1 hit.
3.40.50.1000. 1 hit.
HAMAPiMF_00495. GPH_hydrolase_bact. 1 hit.
InterProiIPR023214. HAD-like_dom.
IPR006439. HAD-SF_hydro_IA.
IPR006346. PGP_bact.
IPR023198. PGP_dom2.
[Graphical view]
PfamiPF13419. HAD_2. 1 hit.
[Graphical view]
PRINTSiPR00413. HADHALOGNASE.
SUPFAMiSSF56784. SSF56784. 1 hit.
TIGRFAMsiTIGR01549. HAD-SF-IA-v1. 1 hit.
TIGR01509. HAD-SF-IA-v3. 1 hit.
TIGR01449. PGP_bact. 1 hit.

Sequencei

Sequence statusi: Complete.

P32662-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNKFEDIRGV AFDLDGTLVD SAPGLAAAVD MALYALELPV AGEERVITWI
60 70 80 90 100
GNGADVLMER ALTWARQERA TQRKTMGKPP VDDDIPAEEQ VRILRKLFDR
110 120 130 140 150
YYGEVAEEGT FLFPHVADTL GALQAKGLPL GLVTNKPTPF VAPLLEALDI
160 170 180 190 200
AKYFSVVIGG DDVQNKKPHP DPLLLVAERM GIAPQQMLFV GDSRNDIQAA
210 220 230 240 250
KAAGCPSVGL TYGYNYGEAI DLSQPDVIYQ SINDLLPALG LPHSENQESK

ND
Length:252
Mass (Da):27,389
Last modified:October 1, 1993 - v1
Checksum:iFC306F044A1E5521
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z19601 Genomic DNA. Translation: CAA79664.1.
U18997 Genomic DNA. Translation: AAA58182.1.
U00096 Genomic DNA. Translation: AAC76410.1.
AP009048 Genomic DNA. Translation: BAE77906.1.
PIRiS55288.
RefSeqiNP_417844.1. NC_000913.3.
WP_001031729.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC76410; AAC76410; b3385.
BAE77906; BAE77906; BAE77906.
GeneIDi947895.
KEGGiecj:JW3348.
eco:b3385.
PATRICi32122202. VBIEscCol129921_3478.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z19601 Genomic DNA. Translation: CAA79664.1.
U18997 Genomic DNA. Translation: AAA58182.1.
U00096 Genomic DNA. Translation: AAC76410.1.
AP009048 Genomic DNA. Translation: BAE77906.1.
PIRiS55288.
RefSeqiNP_417844.1. NC_000913.3.
WP_001031729.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP32662.
SMRiP32662.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4259294. 62 interactors.
IntActiP32662. 13 interactors.
STRINGi511145.b3385.

2D gel databases

SWISS-2DPAGEP32662.

Proteomic databases

PaxDbiP32662.
PRIDEiP32662.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC76410; AAC76410; b3385.
BAE77906; BAE77906; BAE77906.
GeneIDi947895.
KEGGiecj:JW3348.
eco:b3385.
PATRICi32122202. VBIEscCol129921_3478.

Organism-specific databases

EchoBASEiEB1817.
EcoGeneiEG11871. gph.

Phylogenomic databases

eggNOGiENOG4108VXP. Bacteria.
COG0546. LUCA.
HOGENOMiHOG000248344.
InParanoidiP32662.
KOiK01091.
OMAiHPAPLFL.
PhylomeDBiP32662.

Enzyme and pathway databases

UniPathwayiUPA00865; UER00834.
BioCyciEcoCyc:GPH-MONOMER.
ECOL316407:JW3348-MONOMER.
MetaCyc:GPH-MONOMER.
SABIO-RKP32662.

Miscellaneous databases

PROiP32662.

Family and domain databases

Gene3Di1.10.150.240. 1 hit.
3.40.50.1000. 1 hit.
HAMAPiMF_00495. GPH_hydrolase_bact. 1 hit.
InterProiIPR023214. HAD-like_dom.
IPR006439. HAD-SF_hydro_IA.
IPR006346. PGP_bact.
IPR023198. PGP_dom2.
[Graphical view]
PfamiPF13419. HAD_2. 1 hit.
[Graphical view]
PRINTSiPR00413. HADHALOGNASE.
SUPFAMiSSF56784. SSF56784. 1 hit.
TIGRFAMsiTIGR01549. HAD-SF-IA-v1. 1 hit.
TIGR01509. HAD-SF-IA-v3. 1 hit.
TIGR01449. PGP_bact. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiGPH_ECOLI
AccessioniPrimary (citable) accession number: P32662
Secondary accession number(s): Q2M750
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: October 1, 1993
Last modified: November 2, 2016
This is version 131 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.