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Q54FB7

- XDH_DICDI

UniProt

Q54FB7 - XDH_DICDI

Protein

Xanthine dehydrogenase

Gene

xdh

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 80 (01 Oct 2014)
      Sequence version 1 (24 May 2005)
      Previous versions | rss
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    Functioni

    Key enzyme in purine degradation. Catalyzes the oxidation of hypoxanthine to xanthine. Catalyzes the oxidation of xanthine to uric acid By similarity.By similarity

    Catalytic activityi

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

    Cofactori

    Binds 2 2Fe-2S clusters.By similarity
    FAD.By similarity
    Binds 1 molybdenum-molybdopterin (Mo-MPT) cofactor per subunit.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi56 – 561Iron-sulfur 1By similarity
    Metal bindingi61 – 611Iron-sulfur 1By similarity
    Metal bindingi64 – 641Iron-sulfur 1By similarity
    Metal bindingi89 – 891Iron-sulfur 1By similarity
    Metal bindingi129 – 1291Iron-sulfur 2By similarity
    Metal bindingi132 – 1321Iron-sulfur 2By similarity
    Metal bindingi164 – 1641Iron-sulfur 2By similarity
    Metal bindingi166 – 1661Iron-sulfur 2By similarity
    Binding sitei366 – 3661FADBy similarity
    Binding sitei389 – 3891FADBy similarity
    Binding sitei437 – 4371FAD; via amide nitrogen and carbonyl oxygenBy similarity
    Binding sitei455 – 4551FADBy similarity
    Metal bindingi805 – 8051MolybdenumBy similarity
    Metal bindingi836 – 8361Molybdenum; via carbonyl oxygenBy similarity
    Binding sitei840 – 8401SubstrateBy similarity
    Binding sitei918 – 9181SubstrateBy similarity
    Metal bindingi950 – 9501Molybdenum; via amide nitrogenBy similarity
    Binding sitei952 – 9521SubstrateBy similarity
    Binding sitei1048 – 10481Substrate; via amide nitrogenBy similarity
    Metal bindingi1117 – 11171Molybdenum; via amide nitrogenBy similarity
    Active sitei1302 – 13021Proton acceptorBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi281 – 2888FADBy similarity
    Nucleotide bindingi376 – 3805FADBy similarity

    GO - Molecular functioni

    1. 2 iron, 2 sulfur cluster binding Source: UniProtKB
    2. electron carrier activity Source: InterPro
    3. flavin adenine dinucleotide binding Source: UniProtKB
    4. iron ion binding Source: InterPro
    5. molybdopterin cofactor binding Source: UniProtKB
    6. UDP-N-acetylmuramate dehydrogenase activity Source: InterPro
    7. xanthine dehydrogenase activity Source: UniProtKB

    GO - Biological processi

    1. xanthine catabolic process Source: UniProtKB

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Ligandi

    2Fe-2S, FAD, Flavoprotein, Iron, Iron-sulfur, Metal-binding, Molybdenum, NAD

    Enzyme and pathway databases

    ReactomeiREACT_208582. Vitamins B6 activation to pyridoxal phosphate.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Xanthine dehydrogenase (EC:1.17.1.4)
    Short name:
    XD
    Gene namesi
    Name:xdh
    ORF Names:DDB_G0291047
    OrganismiDictyostelium discoideum (Slime mold)
    Taxonomic identifieri44689 [NCBI]
    Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
    ProteomesiUP000002195: Chromosome 5, UP000002195: Unassembled WGS sequence

    Organism-specific databases

    dictyBaseiDDB_G0291047. xdh.

    Subcellular locationi

    Peroxisome By similarity

    GO - Cellular componenti

    1. peroxisome Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Peroxisome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 13581358Xanthine dehydrogenasePRO_0000327650Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.By similarity

    Protein-protein interaction databases

    STRINGi44689.DDB_0230176.

    Structurei

    3D structure databases

    ProteinModelPortaliQ54FB7.
    SMRiQ54FB7. Positions 18-181.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini18 – 107902Fe-2S ferredoxin-typePROSITE-ProRule annotationAdd
    BLAST
    Domaini253 – 447195FAD-binding PCMH-typePROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the xanthine dehydrogenase family.Curated
    Contains 1 2Fe-2S ferredoxin-type domain.PROSITE-ProRule annotation
    Contains 1 FAD-binding PCMH-type domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG4630.
    KOiK00106.
    OMAiCDETFFA.
    PhylomeDBiQ54FB7.

    Family and domain databases

    Gene3Di1.10.150.120. 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.
    InterProiIPR002888. 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]
    PfamiPF01315. 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]
    PIRSFiPIRSF000127. Xanthine_DH. 1 hit.
    SMARTiSM01008. Ald_Xan_dh_C. 1 hit.
    SM01092. CO_deh_flav_C. 1 hit.
    [Graphical view]
    SUPFAMiSSF47741. SSF47741. 1 hit.
    SSF54292. SSF54292. 1 hit.
    SSF54665. SSF54665. 1 hit.
    SSF55447. SSF55447. 1 hit.
    SSF56003. SSF56003. 1 hit.
    SSF56176. SSF56176. 1 hit.
    PROSITEiPS00197. 2FE2S_FER_1. 1 hit.
    PS51085. 2FE2S_FER_2. 1 hit.
    PS51387. FAD_PCMH. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q54FB7-1 [UniParc]FASTAAdd to Basket

    « Hide

    MIDDENLNGK EPFLKKENQL LFFLNGEKVL INEPNPELST LDYIRSIGLT     50
    GLKRGCSEGA CGSCTFMLSN VVKDDNDTFR IVHRAVNGCL YPLCALDGMA 100
    VTTIEGLGNI DKGLHSIQER ISENSGSQCG FCTPGIIMAL YAFLRSNPNS 150
    TQKDIEQNFD GNLCRCTGYR PILDAAKSFA NQPSDEQLVE LPLPPMATID 200
    DKKDDTQMIC PGTGKPCNCK TKTSHIPNKP MELNSEPIFP PFLMEYKKES 250
    LKFTGSRVTW YTPTTLEELL KIKKEKTNAK IVVGNTEIGI ETRFRSIVYP 300
    TIICPTRVEE LIQIQKEDNG VRVGASVTLT EMKSYLNGII KSSENDEIAN 350
    KKNGTFKAII SQLKWFAGNQ VRNAASIGGN LCTASPISDL NPVLLAAGAV 400
    LTMVSLDDNG AKVRRQVPIN QFFLRYRVVD IKPEEILESV FIPYTRPLEF 450
    IQAYKQSRRR EDDIAIVSCC FRVLLEPIAE SASNTVDSNF KIKDCVLAYG 500
    GMNVKAVTCE KTEKQLIGSV WSRELLNDAC LNLESDLPLA AGAPGGMIEY 550
    RRSLTTGFFF KYFLTVSKQL YQISNGNPLY LVSDKEKSAT DAYSRPLSFG 600
    EQNYQTQPDK HPITQPIKHQ SADKQVTGEA LYVDDVKMKS LYAVMVPSLK 650
    AHANIKSVDA SKALKAPGVK AFFSAKDIPG INDCGPVIHD EEVFVTKTAL 700
    FHGAPIGCIV AETHIQALEA SKLVAIEYEE LPAITSIEDA ISKQSFFPFT 750
    HLLKDGDMEK GWSESDHIID GEFKVGAQEH FYLEPNGTLV IPGEGKELTV 800
    ISSTQNPTKT QAIVASVLGI GQNQVVCKLK RLGGGFGGKE TRSIFSSCVA 850
    AIASYHMKEP VRIILDRDTD MSTTGTRHPF IARYRVGFTK EGLIKALDLE 900
    LYADAGFSYD ISVGVLDRAI FHSENSYKIP NVNILGRLCK TNLPSNTAFR 950
    GYGGPQAMII CENWVEKISK TLGMDSYKIR ELNFYKEAEV TAYRQSVVNN 1000
    MMKRVWDELM VKSNYHQRLI AVEKFNKENR YKKRGISIIP TKFGMSFTVK 1050
    TLNQAGALVH VYTDGTILVT HGGTEMGQGL NTKMIQIAAR AFNVPVSDVF 1100
    ISETSTDKVP NTAPTAASVS SDLNGMAVLD ACQQILLRME PIREKNPNVP 1150
    FKQLCTLCFV ERVNLSANGF YATPNVGYMF KDSGVGEGTP FNYFNFGAAC 1200
    SEVEIDTLTG DHTTLRSDVI LDVGDSLNPT IDIGQVEGAF VQGMGWSTLE 1250
    EVVTFPSGYM FTRGPSTYKI PGFNDVPIEF NVSLLGDAPN PKAIHSSKGV 1300
    GEPPLFLGSS VYFAIRQAIT AARLENNLTN WFDLQSPATC ERIRTSCLDN 1350
    FVLQFRKQ 1358
    Length:1,358
    Mass (Da):149,928
    Last modified:May 24, 2005 - v1
    Checksum:iAF9AEE1059FE076F
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AAFI02000174 Genomic DNA. Translation: EAL61954.1.
    RefSeqiXP_635420.1. XM_630328.1.

    Genome annotation databases

    EnsemblProtistsiDDB0230176; DDB0230176; DDB_G0291047.
    GeneIDi8627921.
    KEGGiddi:DDB_G0291047.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AAFI02000174 Genomic DNA. Translation: EAL61954.1 .
    RefSeqi XP_635420.1. XM_630328.1.

    3D structure databases

    ProteinModelPortali Q54FB7.
    SMRi Q54FB7. Positions 18-181.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 44689.DDB_0230176.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblProtistsi DDB0230176 ; DDB0230176 ; DDB_G0291047 .
    GeneIDi 8627921.
    KEGGi ddi:DDB_G0291047.

    Organism-specific databases

    dictyBasei DDB_G0291047. xdh.

    Phylogenomic databases

    eggNOGi COG4630.
    KOi K00106.
    OMAi CDETFFA.
    PhylomeDBi Q54FB7.

    Enzyme and pathway databases

    Reactomei REACT_208582. Vitamins B6 activation to pyridoxal phosphate.

    Miscellaneous databases

    PROi Q54FB7.

    Family and domain databases

    Gene3Di 1.10.150.120. 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.
    InterProi IPR002888. 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 ]
    Pfami PF01315. 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 ]
    PIRSFi PIRSF000127. Xanthine_DH. 1 hit.
    SMARTi SM01008. Ald_Xan_dh_C. 1 hit.
    SM01092. CO_deh_flav_C. 1 hit.
    [Graphical view ]
    SUPFAMi SSF47741. SSF47741. 1 hit.
    SSF54292. SSF54292. 1 hit.
    SSF54665. SSF54665. 1 hit.
    SSF55447. SSF55447. 1 hit.
    SSF56003. SSF56003. 1 hit.
    SSF56176. SSF56176. 1 hit.
    PROSITEi PS00197. 2FE2S_FER_1. 1 hit.
    PS51085. 2FE2S_FER_2. 1 hit.
    PS51387. FAD_PCMH. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The genome of the social amoeba Dictyostelium discoideum."
      Eichinger L., Pachebat J.A., Gloeckner G., Rajandream M.A., Sucgang R., Berriman M., Song J., Olsen R., Szafranski K., Xu Q., Tunggal B., Kummerfeld S., Madera M., Konfortov B.A., Rivero F., Bankier A.T., Lehmann R., Hamlin N.
      , Davies R., Gaudet P., Fey P., Pilcher K., Chen G., Saunders D., Sodergren E.J., Davis P., Kerhornou A., Nie X., Hall N., Anjard C., Hemphill L., Bason N., Farbrother P., Desany B., Just E., Morio T., Rost R., Churcher C.M., Cooper J., Haydock S., van Driessche N., Cronin A., Goodhead I., Muzny D.M., Mourier T., Pain A., Lu M., Harper D., Lindsay R., Hauser H., James K.D., Quiles M., Madan Babu M., Saito T., Buchrieser C., Wardroper A., Felder M., Thangavelu M., Johnson D., Knights A., Loulseged H., Mungall K.L., Oliver K., Price C., Quail M.A., Urushihara H., Hernandez J., Rabbinowitsch E., Steffen D., Sanders M., Ma J., Kohara Y., Sharp S., Simmonds M.N., Spiegler S., Tivey A., Sugano S., White B., Walker D., Woodward J.R., Winckler T., Tanaka Y., Shaulsky G., Schleicher M., Weinstock G.M., Rosenthal A., Cox E.C., Chisholm R.L., Gibbs R.A., Loomis W.F., Platzer M., Kay R.R., Williams J.G., Dear P.H., Noegel A.A., Barrell B.G., Kuspa A.
      Nature 435:43-57(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: AX4.

    Entry informationi

    Entry nameiXDH_DICDI
    AccessioniPrimary (citable) accession number: Q54FB7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 8, 2008
    Last sequence update: May 24, 2005
    Last modified: October 1, 2014
    This is version 80 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Dictyostelium discoideum
      Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3