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Q6AUV1 (XDH_ORYSJ) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 91. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Xanthine dehydrogenase

EC=1.17.1.4
Gene names
Name:XDH
Ordered Locus Names:Os03g0429800, LOC_Os03g31550
ORF Names:OsJ_11360, OSJNBa0091B22.11
OrganismOryza sativa subsp. japonica (Rice) [Reference proteome]
Taxonomic identifier39947 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBEP cladeEhrhartoideaeOryzeaeOryza

Protein attributes

Sequence length1369 AA.
Sequence statusComplete.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

Key enzyme involved in purine catabolism. Catalyzes the oxidation of hypoxanthine to xanthine and the oxidation of xanthine to urate By similarity.

Catalytic activity

Xanthine + NAD+ + H2O = urate + NADH.

Hypoxanthine + NAD+ + H2O = xanthine + NADH.

Cofactor

Binds 2 2Fe-2S clusters By similarity.

FAD By similarity.

Binds 1 molybdenum-molybdopterin (Mo-MPT) cofactor per subunit By similarity.

Subunit structure

Homodimer By similarity.

Sequence similarities

Belongs to the xanthine dehydrogenase family.

Contains 1 2Fe-2S ferredoxin-type domain.

Contains 1 FAD-binding PCMH-type domain.

Sequence caution

The sequence ABF96752.1 differs from that shown. Reason: Erroneous gene model prediction.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 13691369Xanthine dehydrogenase
PRO_0000417459

Regions

Domain20 – 106872Fe-2S ferredoxin-type
Domain265 – 450186FAD-binding PCMH-type
Nucleotide binding293 – 3008FAD By similarity
Nucleotide binding383 – 3875FAD By similarity

Sites

Active site13051Proton acceptor By similarity
Metal binding581Iron-sulfur (2Fe-2S) 1 By similarity
Metal binding631Iron-sulfur (2Fe-2S) 1 By similarity
Metal binding661Iron-sulfur (2Fe-2S) 1 By similarity
Metal binding881Iron-sulfur (2Fe-2S) 1 By similarity
Metal binding1281Iron-sulfur (2Fe-2S) 2 By similarity
Metal binding1311Iron-sulfur (2Fe-2S) 2 By similarity
Metal binding1641Iron-sulfur (2Fe-2S) 2 By similarity
Metal binding1661Iron-sulfur (2Fe-2S) 2 By similarity
Metal binding8041Molybdenum By similarity
Metal binding8351Molybdenum; via carbonyl oxygen By similarity
Metal binding9491Molybdenum; via amide nitrogen By similarity
Metal binding11161Molybdenum; via amide nitrogen By similarity
Binding site3731FAD By similarity
Binding site3961FAD By similarity
Binding site4401FAD; via amide nitrogen and carbonyl oxygen By similarity
Binding site4581FAD By similarity
Binding site8391Substrate By similarity
Binding site9171Substrate By similarity
Binding site9511Substrate By similarity
Binding site10471Substrate By similarity

Experimental info

Sequence conflict12901G → D in AK067814. Ref.5

Sequences

Sequence LengthMass (Da)Tools
Q6AUV1 [UniParc].

Last modified September 13, 2004. Version 1.
Checksum: 470407521B957EA0

FASTA1,369150,227
        10         20         30         40         50         60 
MGSLTRAEEE ETAAAEEWSG EAVVYVNGVR RVLPDGLAHL TLLQYLRDIG LPGTKLGCGE 

        70         80         90        100        110        120 
GGCGACTVMV SCYDQTTKKT QHFAINACLA PLYSVEGMHI ITVEGIGNRQ RGLHPIQERL 

       130        140        150        160        170        180 
AMAHGSQCGF CTPGFVMSMY ALLRSSEQPP TEEQIEDSLA GNLCRCTGYR PIIDAFRVFS 

       190        200        210        220        230        240 
KRDDLLYNNS SLKNADGRPI CPSTGKPCSC GDQKDINGSE SSLLTPTKSY SPCSYNEIDG 

       250        260        270        280        290        300 
NAYSEKELIF PPELQLRKVT SLKLNGFNGI RWYRPLKLKQ VLHLKACYPN AKLIIGNSEV 

       310        320        330        340        350        360 
GVETKFKNAQ YKVLISVTHV PELHTLKVKE DGIHIGSSVR LAQLQNFLRK VILERDSHEI 

       370        380        390        400        410        420 
SSCEAILRQL KWFAGTQIRN VASVGGNICT ASPISDLNPL WMATGATFEI IDVNNNIRTI 

       430        440        450        460        470        480 
PAKDFFLGYR KVDLKPDEIL LSVILPWTRP FEFVKEFKQA HRREDDIALV NAGMRVYIRK 

       490        500        510        520        530        540 
VEGDWIISDV SIIYGGVAAV SHRASKTETF LTGKKWDYGL LDKTFDLLKE DVVLAENAPG 

       550        560        570        580        590        600 
GMVEFRSSLT LSFFFKFFLH VTHEMNIKGF WKDGLHATNL SAIQSFTRPV GVGTQCYELV 

       610        620        630        640        650        660 
RQGTAVGQPV VHTSAMLQVT GEAEYTDDTP TPPNTLHAAL VLSTKAHARI LSIDASLAKS 

       670        680        690        700        710        720 
SPGFAGLFLS KDVPGANHTG PVIHDEEVFA SDVVTCVGQI VGLVVADTRD NAKAAANKVN 

       730        740        750        760        770        780 
IEYSELPAIL SIEEAVKAGS FHPNSKRCLV KGNVEQCFLS GACDRIIEGK VQVGGQEHFY 

       790        800        810        820        830        840 
MEPQSTLVWP VDSGNEIHMI SSTQAPQKHQ KYVANVLGLP QSRVVCKTKR IGGGFGGKET 

       850        860        870        880        890        900 
RSAIFAAAAS VAAYCLRQPV KLVLDRDIDM MTTGQRHSFL GKYKVGFTDD GKILALDLDV 

       910        920        930        940        950        960 
YNNGGHSHDL SLPVLERAMF HSDNVYDIPN VRVNGQVCFT NFPSNTAFRG FGGPQAMLIA 

       970        980        990       1000       1010       1020 
ENWIQHMATE LKRSPEEIKE LNFQSEGSVL HYGQLLQNCT IHSVWDELKV SCNFMEARKA 

      1030       1040       1050       1060       1070       1080 
VIDFNNNNRW RKRGIAMVPT KFGISFTTKF MNQAGALVQV YTDGTVLVTH GGVEMGQGLH 

      1090       1100       1110       1120       1130       1140 
TKVAQVAASS FNIPLSSIFI SETSTDKVPN ATPTAASASS DLYGAAVLDA CQQIMARMEP 

      1150       1160       1170       1180       1190       1200 
VASRGNHKSF AELVLACYLE RIDLSAHGFY ITPDVGFDWV SGKGTPFYYF TYGAAFAEVE 

      1210       1220       1230       1240       1250       1260 
IDTLTGDFHT RTVDIVMDLG CSINPAIDIG QIEGGFIQGL GWAALEELKW GDDNHKWIRP 

      1270       1280       1290       1300       1310       1320 
GHLFTCGPGS YKIPSVNDIP LNFKVSLLKG VLNPKVIHSS KAVGEPPFFL GSAVLFAIKD 

      1330       1340       1350       1360 
AISAARAEEG HFDWFPLDSP ATPERIRMAC VDSITKKFAS VYYRPKLSV 

« Hide

References

« Hide 'large scale' references
[1]"Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species."
The rice chromosome 3 sequencing consortium
Buell C.R., Yuan Q., Ouyang S., Liu J., Zhu W., Wang A., Maiti R., Haas B., Wortman J., Pertea M., Jones K.M., Kim M., Overton L., Tsitrin T., Fadrosh D., Bera J., Weaver B., Jin S. expand/collapse author list , Johri S., Reardon M., Webb K., Hill J., Moffat K., Tallon L., Van Aken S., Lewis M., Utterback T., Feldblyum T., Zismann V., Iobst S., Hsiao J., de Vazeille A.R., Salzberg S.L., White O., Fraser C.M., Yu Y., Kim H., Rambo T., Currie J., Collura K., Kernodle-Thompson S., Wei F., Kudrna K., Ammiraju J.S.S., Luo M., Goicoechea J.L., Wing R.A., Henry D., Oates R., Palmer M., Pries G., Saski C., Simmons J., Soderlund C., Nelson W., de la Bastide M., Spiegel L., Nascimento L., Huang E., Preston R., Zutavern T., Palmer L., O'Shaughnessy A., Dike S., McCombie W.R., Minx P., Cordum H., Wilson R., Jin W., Lee H.R., Jiang J., Jackson S.
Genome Res. 15:1284-1291(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], GENOME REANNOTATION.
Strain: cv. Nipponbare.
[2]"The map-based sequence of the rice genome."
International rice genome sequencing project (IRGSP)
Nature 436:793-800(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Nipponbare.
[3]"The rice annotation project database (RAP-DB): 2008 update."
The rice annotation project (RAP)
Nucleic Acids Res. 36:D1028-D1033(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: GENOME REANNOTATION.
Strain: cv. Nipponbare.
[4]"The genomes of Oryza sativa: a history of duplications."
Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S., Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L. expand/collapse author list , Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J., Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X., Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y., Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L., Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H., Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z., Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L., Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F., Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q., Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J., Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M., McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.
PLoS Biol. 3:266-281(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Nipponbare.
[5]"Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice."
The rice full-length cDNA consortium
Science 301:376-379(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: cv. Nipponbare.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AC114896 Genomic DNA. Translation: AAT81740.1.
DP000009 Genomic DNA. Translation: ABF96751.1.
DP000009 Genomic DNA. Translation: ABF96752.1. Sequence problems.
AP008209 Genomic DNA. Translation: BAF12334.1.
CM000140 Genomic DNA. Translation: EEE59305.1.
AK067814 mRNA. No translation available.
RefSeqNP_001050420.1. NM_001056955.1.
UniGeneOs.10786.

3D structure databases

ProteinModelPortalQ6AUV1.
ModBaseSearch...
MobiDBSearch...

Proteomic databases

PRIDEQ6AUV1.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsOS03T0429800-01; OS03T0429800-01; OS03G0429800.
OS03T0429800-02; OS03T0429800-02; OS03G0429800.
GeneID4333171.
KEGGosa:4333171.

Organism-specific databases

GrameneQ6AUV1.

Phylogenomic databases

HOGENOMHOG000191197.
KOK00106.
OMACDETFFA.

Family and domain databases

Gene3D1.10.150.120. 1 hit.
3.10.20.30. 1 hit.
3.30.365.10. 6 hits.
3.30.43.10. 1 hit.
3.30.465.10. 1 hit.
3.90.1170.50. 1 hit.
InterProIPR002888. 2Fe-2S-bd.
IPR001041. 2Fe-2S_ferredoxin-type.
IPR006058. 2Fe2S_fd_BS.
IPR000674. Ald_Oxase/Xan_DH_a/b.
IPR016208. Ald_Oxase/xanthine_DH.
IPR008274. AldOxase/xan_DH_Mopterin-bd.
IPR012675. Beta-grasp_dom.
IPR005107. 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]
PfamPF01315. Ald_Xan_dh_C. 1 hit.
PF02738. Ald_Xan_dh_C2. 1 hit.
PF03450. CO_deh_flav_C. 1 hit.
PF00941. FAD_binding_5. 1 hit.
PF00111. Fer2. 1 hit.
PF01799. Fer2_2. 1 hit.
[Graphical view]
PIRSFPIRSF000127. Xanthine_DH. 1 hit.
SMARTSM01008. Ald_Xan_dh_C. 1 hit.
SM01092. CO_deh_flav_C. 1 hit.
[Graphical view]
SUPFAMSSF47741. SSF47741. 1 hit.
SSF54292. SSF54292. 1 hit.
SSF54665. SSF54665. 1 hit.
SSF55447. SSF55447. 1 hit.
SSF56003. SSF56003. 1 hit.
SSF56176. SSF56176. 1 hit.
PROSITEPS00197. 2FE2S_FER_1. 1 hit.
PS51085. 2FE2S_FER_2. 1 hit.
PS51387. FAD_PCMH. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameXDH_ORYSJ
AccessionPrimary (citable) accession number: Q6AUV1
Secondary accession number(s): Q10J86
Entry history
Integrated into UniProtKB/Swiss-Prot: May 16, 2012
Last sequence update: September 13, 2004
Last modified: May 14, 2014
This is version 91 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Oryza sativa (rice)

Index of Oryza sativa entries and their corresponding gene designations