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Protein

Xanthine dehydrogenase FAD-binding subunit

Gene

xdhB

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

Presumed to be a dehydrogenase, but possibly an oxidase. Participates in limited purine salvage (requires aspartate) but does not support aerobic growth on purines as the sole carbon source (purine catabolism).

Catalytic activityi

Xanthine + NAD+ + H2O = urate + NADH.
Hypoxanthine + NAD+ + H2O = xanthine + NADH.

Cofactori

FADBy similarity

Pathway: hypoxanthine degradation

This protein is involved in step 1 and 2 of the subpathway that synthesizes urate from hypoxanthine.
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. Xanthine dehydrogenase iron-sulfur-binding subunit (xdhC), Xanthine dehydrogenase molybdenum-binding subunit (xdhA), Xanthine dehydrogenase FAD-binding subunit (xdhB)
  2. Xanthine dehydrogenase molybdenum-binding subunit (xdhA), Xanthine dehydrogenase FAD-binding subunit (xdhB)
This subpathway is part of the pathway hypoxanthine degradation, which is itself part of Purine metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes urate from hypoxanthine, the pathway hypoxanthine degradation and in Purine metabolism.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei165 – 1651FAD; via amide nitrogen and carbonyl oxygenBy similarity
Binding sitei184 – 1841FADBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi27 – 348FADBy similarity
Nucleotide bindingi109 – 1135FADBy similarity

GO - Molecular functioni

GO - Biological processi

  • hypoxanthine oxidation Source: EcoliWiki
  • purine ribonucleoside salvage Source: UniProtKB-KW

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Purine metabolism, Purine salvage

Keywords - Ligandi

FAD, Flavoprotein, NAD

Enzyme and pathway databases

BioCyciEcoCyc:G7486-MONOMER.
ECOL316407:JW2835-MONOMER.
MetaCyc:G7486-MONOMER.
UniPathwayiUPA00604; UER00661.
UPA00604; UER00662.

Names & Taxonomyi

Protein namesi
Recommended name:
Xanthine dehydrogenase FAD-binding subunit (EC:1.17.1.4)
Gene namesi
Name:xdhB
Synonyms:ygeT
Ordered Locus Names:b2867, JW2835
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318 Componenti: Chromosome UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13050. xdhB.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 292292Xanthine dehydrogenase FAD-binding subunitPRO_0000166092Add
BLAST

Proteomic databases

PaxDbiQ46800.
PRIDEiQ46800.

Interactioni

Subunit structurei

Heterotrimer of XdhA, XdhB and XdhC.Curated

Protein-protein interaction databases

IntActiQ46800. 5 interactions.
STRINGi511145.b2867.

Structurei

3D structure databases

ProteinModelPortaliQ46800.
SMRiQ46800. Positions 3-285.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 176176FAD-binding PCMH-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 FAD-binding PCMH-type domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG1319.
HOGENOMiHOG000244729.
InParanoidiQ46800.
KOiK13479.
OMAiINFDHRR.
OrthoDBiEOG6ZSP3F.
PhylomeDBiQ46800.

Family and domain databases

Gene3Di3.30.43.10. 1 hit.
3.30.465.10. 1 hit.
InterProiIPR005107. CO_DH_flav_C.
IPR016169. CO_DH_flavot_FAD-bd_sub2.
IPR016166. FAD-bd_2.
IPR016167. FAD-bd_2_sub1.
IPR002346. Mopterin_DH_FAD-bd.
[Graphical view]
PfamiPF03450. CO_deh_flav_C. 1 hit.
PF00941. FAD_binding_5. 1 hit.
[Graphical view]
SMARTiSM01092. CO_deh_flav_C. 1 hit.
[Graphical view]
SUPFAMiSSF55447. SSF55447. 1 hit.
SSF56176. SSF56176. 1 hit.
PROSITEiPS51387. FAD_PCMH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q46800-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFDFASYHRA ATLADAINLL ADNPQAKLLA GGTDVLIQLH HHNDRYRHIV
60 70 80 90 100
DIHNLAELRG ITLAEDGSLR IGSATTFTQL IEDPITQRHL PALCAAATSI
110 120 130 140 150
AGPQIRNVAT YGGNICNGAT SADSATPTLI YDAKLEIHSP RGVRFVPING
160 170 180 190 200
FHTGPGKVSL EHDEILVAFH FPPQPKEHAG SAHFKYAMRD AMDISTIGCA
210 220 230 240 250
AHCRLDNGNF SELRLAFGVA APTPIRCQHA EQTAQNAPLN LQTLEAISES
260 270 280 290
VLQDVAPRSS WRASKEFRLH LIQTMTKKVI SEAVAAAGGK LQ
Length:292
Mass (Da):31,557
Last modified:November 1, 1996 - v1
Checksum:i74A07D137DA857E8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U28375 Genomic DNA. Translation: AAA83048.1.
U00096 Genomic DNA. Translation: AAC75905.1.
AP009048 Genomic DNA. Translation: BAE76933.1.
PIRiC65070.
RefSeqiNP_417343.1. NC_000913.3.

Genome annotation databases

EnsemblBacteriaiAAC75905; AAC75905; b2867.
BAE76933; BAE76933; BAE76933.
GeneIDi947205.
KEGGiecj:Y75_p2800.
eco:b2867.
PATRICi32121144. VBIEscCol129921_2960.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U28375 Genomic DNA. Translation: AAA83048.1.
U00096 Genomic DNA. Translation: AAC75905.1.
AP009048 Genomic DNA. Translation: BAE76933.1.
PIRiC65070.
RefSeqiNP_417343.1. NC_000913.3.

3D structure databases

ProteinModelPortaliQ46800.
SMRiQ46800. Positions 3-285.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ46800. 5 interactions.
STRINGi511145.b2867.

Proteomic databases

PaxDbiQ46800.
PRIDEiQ46800.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75905; AAC75905; b2867.
BAE76933; BAE76933; BAE76933.
GeneIDi947205.
KEGGiecj:Y75_p2800.
eco:b2867.
PATRICi32121144. VBIEscCol129921_2960.

Organism-specific databases

EchoBASEiEB2862.
EcoGeneiEG13050. xdhB.

Phylogenomic databases

eggNOGiCOG1319.
HOGENOMiHOG000244729.
InParanoidiQ46800.
KOiK13479.
OMAiINFDHRR.
OrthoDBiEOG6ZSP3F.
PhylomeDBiQ46800.

Enzyme and pathway databases

UniPathwayiUPA00604; UER00661.
UPA00604; UER00662.
BioCyciEcoCyc:G7486-MONOMER.
ECOL316407:JW2835-MONOMER.
MetaCyc:G7486-MONOMER.

Miscellaneous databases

PROiQ46800.

Family and domain databases

Gene3Di3.30.43.10. 1 hit.
3.30.465.10. 1 hit.
InterProiIPR005107. CO_DH_flav_C.
IPR016169. CO_DH_flavot_FAD-bd_sub2.
IPR016166. FAD-bd_2.
IPR016167. FAD-bd_2_sub1.
IPR002346. Mopterin_DH_FAD-bd.
[Graphical view]
PfamiPF03450. CO_deh_flav_C. 1 hit.
PF00941. FAD_binding_5. 1 hit.
[Graphical view]
SMARTiSM01092. CO_deh_flav_C. 1 hit.
[Graphical view]
SUPFAMiSSF55447. SSF55447. 1 hit.
SSF56176. SSF56176. 1 hit.
PROSITEiPS51387. FAD_PCMH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  2. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  3. "Purine catabolism in Escherichia coli and function of xanthine dehydrogenase in purine salvage."
    Xi H., Schneider B.L., Reitzer L.
    J. Bacteriol. 182:5332-5341(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISCUSSION OF FUNCTION.
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.

Entry informationi

Entry nameiXDHB_ECOLI
AccessioniPrimary (citable) accession number: Q46800
Secondary accession number(s): Q2M9X3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: June 24, 2015
This is version 109 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

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.