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Q54FB7

- XDH_DICDI

UniProt

Q54FB7 - XDH_DICDI

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Protein
Xanthine dehydrogenase
Gene
xdh, DDB_G0291047
Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed - Annotation score: 4 out of 5 - Protein inferred from homologyi

Functioni

Key enzyme in purine degradation. Catalyzes the oxidation of hypoxanthine to xanthine. Catalyzes the oxidation of xanthine to uric acid 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 1 By similarity
Metal bindingi61 – 611Iron-sulfur 1 By similarity
Metal bindingi64 – 641Iron-sulfur 1 By similarity
Metal bindingi89 – 891Iron-sulfur 1 By similarity
Metal bindingi129 – 1291Iron-sulfur 2 By similarity
Metal bindingi132 – 1321Iron-sulfur 2 By similarity
Metal bindingi164 – 1641Iron-sulfur 2 By similarity
Metal bindingi166 – 1661Iron-sulfur 2 By similarity
Binding sitei366 – 3661FAD By similarity
Binding sitei389 – 3891FAD By similarity
Binding sitei437 – 4371FAD; via amide nitrogen and carbonyl oxygen By similarity
Binding sitei455 – 4551FAD By similarity
Metal bindingi805 – 8051Molybdenum By similarity
Metal bindingi836 – 8361Molybdenum; via carbonyl oxygen By similarity
Binding sitei840 – 8401Substrate By similarity
Binding sitei918 – 9181Substrate By similarity
Metal bindingi950 – 9501Molybdenum; via amide nitrogen By similarity
Binding sitei952 – 9521Substrate By similarity
Binding sitei1048 – 10481Substrate; via amide nitrogen By similarity
Metal bindingi1117 – 11171Molybdenum; via amide nitrogen By similarity
Active sitei1302 – 13021Proton acceptor By similarity

Regions

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

GO - Molecular functioni

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

GO - Biological processi

  1. xanthine catabolic process Source: UniProtKB
Complete GO annotation...

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
Complete GO annotation...

Keywords - Cellular componenti

Peroxisome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 13581358Xanthine dehydrogenase
PRO_0000327650Add
BLAST

Interactioni

Subunit structurei

Homodimer By similarity.

Protein-protein interaction databases

STRINGi44689.DDB_0230176.

Structurei

3D structure databases

ProteinModelPortaliQ54FB7.
SMRiQ54FB7. Positions 18-181.

Family & Domainsi

Domains and Repeats

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

Sequence similaritiesi

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: September 3, 2014
This is version 79 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

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