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Protein

Putative hydroxypyruvate isomerase YgbM

Gene

ygbM

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the reversible isomerization between hydroxypyruvate and 2-hydroxy-3-oxopropanoate (also termed tartronate semialdehyde).By similarity

Catalytic activityi

Hydroxypyruvate = 2-hydroxy-3-oxopropanoate.

GO - Molecular functioni

Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Enzyme and pathway databases

BioCyciEcoCyc:G7420-MONOMER.
ECOL316407:JW2709-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Putative hydroxypyruvate isomerase YgbM (EC:5.3.1.22)
Alternative name(s):
Glyoxylate-induced protein YgbM
Gene namesi
Name:ygbM
Ordered Locus Names:b2739, JW2709
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13107. ygbM.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 258258Putative hydroxypyruvate isomerase YgbMPRO_0000209109Add
BLAST

Proteomic databases

PaxDbiQ46891.

Interactioni

Protein-protein interaction databases

BioGridi4261446. 5 interactions.
IntActiQ46891. 1 interaction.
MINTiMINT-1286505.
STRINGi511145.b2739.

Structurei

Secondary structure

1
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 74Combined sources
Turni8 – 103Combined sources
Helixi17 – 193Combined sources
Helixi20 – 278Combined sources
Beta strandi30 – 334Combined sources
Helixi42 – 5110Combined sources
Beta strandi55 – 606Combined sources
Helixi66 – 683Combined sources
Helixi80 – 9617Combined sources
Beta strandi100 – 1034Combined sources
Helixi115 – 13319Combined sources
Helixi134 – 1363Combined sources
Beta strandi139 – 1424Combined sources
Turni147 – 1493Combined sources
Helixi158 – 16811Combined sources
Beta strandi173 – 1786Combined sources
Helixi179 – 1857Combined sources
Helixi189 – 1957Combined sources
Turni196 – 1983Combined sources
Beta strandi199 – 2057Combined sources
Turni208 – 2103Combined sources
Beta strandi214 – 2196Combined sources
Helixi221 – 23010Combined sources
Beta strandi237 – 2393Combined sources
Helixi248 – 2514Combined sources
Helixi252 – 2587Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1K77X-ray1.63A1-258[»]
ProteinModelPortaliQ46891.
SMRiQ46891. Positions 1-258.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ46891.

Family & Domainsi

Sequence similaritiesi

Belongs to the hyi family.Curated

Phylogenomic databases

eggNOGiENOG4105QG4. Bacteria.
COG3622. LUCA.
HOGENOMiHOG000218197.
InParanoidiQ46891.
OMAiCANLSFM.
PhylomeDBiQ46891.

Family and domain databases

Gene3Di3.20.20.150. 1 hit.
InterProiIPR026040. HyI-like.
IPR013022. Xyl_isomerase-like_TIM-brl.
[Graphical view]
PfamiPF01261. AP_endonuc_2. 1 hit.
[Graphical view]
PIRSFiPIRSF006241. HyI. 1 hit.
SUPFAMiSSF51658. SSF51658. 1 hit.

Sequencei

Sequence statusi: Complete.

Q46891-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPRFAANLSM MFTEVPFIER FAAARKAGFD AVEFLFPYNY STLQIQKQLE
60 70 80 90 100
QNHLTLALFN TAPGDINAGE WGLSALPGRE HEAHADIDLA LEYALALNCE
110 120 130 140 150
QVHVMAGVVP AGEDAERYRA VFIDNIRYAA DRFAPHGKRI LVEALSPGVK
160 170 180 190 200
PHYLFSSQYQ ALAIVEEVAR DNVFIQLDTF HAQKVDGNLT HLIRDYAGKY
210 220 230 240 250
AHVQIAGLPD RHEPDDGEIN YPWLFRLFDE VGYQGWIGCE YKPRGLTEEG

LGWFDAWR
Length:258
Mass (Da):29,217
Last modified:November 1, 1997 - v1
Checksum:i07392B724316D7DD
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U29579 Genomic DNA. Translation: AAA69249.1.
U00096 Genomic DNA. Translation: AAC75781.1.
AP009048 Genomic DNA. Translation: BAE76816.1.
PIRiG65054.
RefSeqiNP_417219.1. NC_000913.3.
WP_001136934.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC75781; AAC75781; b2739.
BAE76816; BAE76816; BAE76816.
GeneIDi947207.
KEGGiecj:JW2709.
eco:b2739.
PATRICi32120882. VBIEscCol129921_2833.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U29579 Genomic DNA. Translation: AAA69249.1.
U00096 Genomic DNA. Translation: AAC75781.1.
AP009048 Genomic DNA. Translation: BAE76816.1.
PIRiG65054.
RefSeqiNP_417219.1. NC_000913.3.
WP_001136934.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1K77X-ray1.63A1-258[»]
ProteinModelPortaliQ46891.
SMRiQ46891. Positions 1-258.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261446. 5 interactions.
IntActiQ46891. 1 interaction.
MINTiMINT-1286505.
STRINGi511145.b2739.

Proteomic databases

PaxDbiQ46891.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75781; AAC75781; b2739.
BAE76816; BAE76816; BAE76816.
GeneIDi947207.
KEGGiecj:JW2709.
eco:b2739.
PATRICi32120882. VBIEscCol129921_2833.

Organism-specific databases

EchoBASEiEB2910.
EcoGeneiEG13107. ygbM.

Phylogenomic databases

eggNOGiENOG4105QG4. Bacteria.
COG3622. LUCA.
HOGENOMiHOG000218197.
InParanoidiQ46891.
OMAiCANLSFM.
PhylomeDBiQ46891.

Enzyme and pathway databases

BioCyciEcoCyc:G7420-MONOMER.
ECOL316407:JW2709-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ46891.
PROiQ46891.

Family and domain databases

Gene3Di3.20.20.150. 1 hit.
InterProiIPR026040. HyI-like.
IPR013022. Xyl_isomerase-like_TIM-brl.
[Graphical view]
PfamiPF01261. AP_endonuc_2. 1 hit.
[Graphical view]
PIRSFiPIRSF006241. HyI. 1 hit.
SUPFAMiSSF51658. SSF51658. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiYGBM_ECOLI
AccessioniPrimary (citable) accession number: Q46891
Secondary accession number(s): Q2MA90
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: September 7, 2016
This is version 112 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

Although magnesium ion is present in the structure, it is not required for activity.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.