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Protein

Quinate/shikimate dehydrogenase

Gene

ydiB

Organism
Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

The actual biological function of YdiB remains unclear, nor is it known whether 3-dehydroshikimate or quinate represents the natural substrate. Catalyzes the reversible NAD-dependent reduction of both 3-dehydroshikimate (DHSA) and 3-dehydroquinate to yield shikimate (SA) and quinate, respectively. It can use both NAD or NADP for catalysis, however it has higher catalytic efficiency with NAD.UniRule annotation

Catalytic activityi

L-quinate + NAD(P)+ = 3-dehydroquinate + NAD(P)H.UniRule annotation
Shikimate + NAD(P)+ = 3-dehydroshikimate + NAD(P)H.UniRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei71 – 711SubstrateUniRule annotation
Binding sitei107 – 1071SubstrateUniRule annotation
Binding sitei205 – 2051NAD; via amide nitrogenUniRule annotation
Binding sitei255 – 2551NAD; via carbonyl oxygenUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi132 – 1354NADUniRule annotation
Nucleotide bindingi155 – 1584NADUniRule annotation
Nucleotide bindingi232 – 2354NADUniRule annotation

GO - Molecular functioni

  1. quinate 3-dehydrogenase (NAD+) activity Source: UniProtKB-HAMAP
  2. quinate 3-dehydrogenase (NADP+) activity Source: UniProtKB-EC
  3. shikimate 3-dehydrogenase (NAD+) activity Source: UniProtKB-EC
  4. shikimate 3-dehydrogenase (NADP+) activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. aromatic amino acid family biosynthetic process Source: UniProtKB-HAMAP
  2. chorismate biosynthetic process Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Amino-acid biosynthesis, Aromatic amino acid biosynthesis

Keywords - Ligandi

NAD, NADP

Enzyme and pathway databases

BioCyciECOL199310:C2087-MONOMER.
UniPathwayiUPA00053; UER00087.

Names & Taxonomyi

Protein namesi
Recommended name:
Quinate/shikimate dehydrogenaseUniRule annotation (EC:1.1.1.282UniRule annotation)
Alternative name(s):
NAD-dependent shikimate 5-dehydrogenaseUniRule annotation
Gene namesi
Name:ydiBUniRule annotation
Ordered Locus Names:c2087
OrganismiEscherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
Taxonomic identifieri199310 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000001410 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 288288Quinate/shikimate dehydrogenasePRO_0000136071Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

MINTiMINT-1283296.
STRINGi199310.c2087.

Structurei

3D structure databases

ProteinModelPortaliP0A6D6.
SMRiP0A6D6. Positions 5-288.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the shikimate dehydrogenase family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000237875.
KOiK05887.
OMAiVSFEIWT.
OrthoDBiEOG64R67G.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
HAMAPiMF_00222. Shikimate_DH_AroE.
MF_01578. Shikimate_DH_YdiB.
InterProiIPR016040. NAD(P)-bd_dom.
IPR022872. Quinate/Shikimate_DH.
IPR013708. Shikimate_DH-bd_N.
IPR022893. Shikimate_DH_fam.
IPR006151. Shikm_DH/Glu-tRNA_Rdtase.
[Graphical view]
PfamiPF01488. Shikimate_DH. 1 hit.
PF08501. Shikimate_dh_N. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0A6D6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDVTAKYELI GLMAYPIRHS LSPEMQNKAL EKAGLPFTYM AFEVDNDSFP
60 70 80 90 100
GAIEGLKALK MRGTGVSMPN KQLACEYVDE LTPAAKLVGA INTIVNDDGY
110 120 130 140 150
LRGYNTDGTG HIRAIKESGF DIKGKTMVLL GAGGASTAIG AQGAIEGLKE
160 170 180 190 200
IKLFNRRDEF FDKALAFAQR VNENTDCVVT VTDLADQQAF AEALASADIL
210 220 230 240 250
TNGTKVGMKP LENESLVNDI SLLHPGLLVT ECVYNPHMTK LLQQAQQAGC
260 270 280
KTIDGYGMLL WQGAEQFTLW TGKDFPLEYV KQVMGFGA
Length:288
Mass (Da):31,228
Last modified:June 7, 2005 - v1
Checksum:iC3D1415E03820A5A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE014075 Genomic DNA. Translation: AAN80547.1.
RefSeqiNP_753982.1. NC_004431.1.

Genome annotation databases

EnsemblBacteriaiAAN80547; AAN80547; c2087.
GeneIDi1036366.
KEGGiecc:c2087.
PATRICi18282073. VBIEscCol75197_1953.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE014075 Genomic DNA. Translation: AAN80547.1.
RefSeqiNP_753982.1. NC_004431.1.

3D structure databases

ProteinModelPortaliP0A6D6.
SMRiP0A6D6. Positions 5-288.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

MINTiMINT-1283296.
STRINGi199310.c2087.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAN80547; AAN80547; c2087.
GeneIDi1036366.
KEGGiecc:c2087.
PATRICi18282073. VBIEscCol75197_1953.

Phylogenomic databases

HOGENOMiHOG000237875.
KOiK05887.
OMAiVSFEIWT.
OrthoDBiEOG64R67G.

Enzyme and pathway databases

UniPathwayiUPA00053; UER00087.
BioCyciECOL199310:C2087-MONOMER.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
HAMAPiMF_00222. Shikimate_DH_AroE.
MF_01578. Shikimate_DH_YdiB.
InterProiIPR016040. NAD(P)-bd_dom.
IPR022872. Quinate/Shikimate_DH.
IPR013708. Shikimate_DH-bd_N.
IPR022893. Shikimate_DH_fam.
IPR006151. Shikm_DH/Glu-tRNA_Rdtase.
[Graphical view]
PfamiPF01488. Shikimate_DH. 1 hit.
PF08501. Shikimate_dh_N. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: CFT073 / ATCC 700928 / UPEC.

Entry informationi

Entry nameiYDIB_ECOL6
AccessioniPrimary (citable) accession number: P0A6D6
Secondary accession number(s): P28244, P77647
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2005
Last sequence update: June 7, 2005
Last modified: April 29, 2015
This is version 74 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

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.