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(-) Description

Title :  CRYSTAL STRUCTURE OF BOVINE MILK XANTHINE DEHYDROGENASE WITH A COVALENTLY BOUND OXIPURINOL INHIBITOR
 
Authors :  B. T. Eger, K. Okamoto, T. Nishino, E. F. Pai, T. Nishino
Date :  14 Nov 07  (Deposition) - 25 Nov 08  (Release) - 10 Sep 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Oxypurinol, Oxipurinol, Alloxanthine, Allopurinol, Covalently Bound Inhibitor, Xanthine Oxidase, Xanthine Oxidoreductase, Xanthine Dehydrogenase, Fad, Flavoprotein, Iron-Sulfur, Molybdopterin, Peroxisome, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Okamoto, B. T. Eger, T. Nishino, E. F. Pai, T. Nishino
Mechanism Of Inhibition Of Xanthine Oxidoreductase By Allopurinol: Crystal Structure Of Reduced Bovine Milk Xanthine Oxidoreductase Bound With Oxipurinol.
Nucleosides Nucleotides V. 27 888 2008 Nucleic Acids
PubMed-ID: 18600558  |  Reference-DOI: 10.1080/15257770802146577
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - XANTHINE DEHYDROGENASE/OXIDASE
    Chains: A, B
    EC Number: 1.17.3.2, 1.17.1.4
    Organism Common: BOVINE
    Organism Scientific: BOS TAURUS
    Organism Taxid: 9913

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (8, 23)

Asymmetric/Biological Unit (8, 23)
No.NameCountTypeFull Name
11412Ligand/IonOXYPURINOL
2CA2Ligand/IonCALCIUM ION
3CO32Ligand/IonCARBONATE ION
4FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
5FES4Ligand/IonFE2/S2 (INORGANIC) CLUSTER
6GOL7Ligand/IonGLYCEROL
7MOW2Ligand/IonOXO(SULFANYL)MOLYBDENUM(IV) ION
8MTE2Ligand/IonPHOSPHONIC ACIDMONO-(2-AMINO-5,6-DIMERCAPTO-4-OXO-3,7,8A,9,10,10A-HEXAHYDRO-4H-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-7-YLMETHYL)ESTER

(-) Sites  (23, 23)

Asymmetric Unit (23, 23)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREALA A:867 , SER A:870 , ARG A:871 , SER A:874 , SER A:907 , ASN A:908BINDING SITE FOR RESIDUE CA A5301
02AC2SOFTWAREGLN A:112 , CYS A:113 , GLY A:114 , CYS A:116 , CYS A:148 , ARG A:149 , CYS A:150BINDING SITE FOR RESIDUE FES A3001
03AC3SOFTWAREGLY A:42 , CYS A:43 , GLY A:44 , GLY A:46 , GLY A:47 , CYS A:48 , GLY A:49 , CYS A:51 , ASN A:71 , CYS A:73BINDING SITE FOR RESIDUE FES A3002
04AC4SOFTWAREGLN A:112 , CYS A:150 , GLY A:796 , GLY A:797 , PHE A:798 , GLY A:799 , ARG A:912 , MET A:1038 , GLY A:1039 , GLN A:1040 , ALA A:1078 , ALA A:1079 , SER A:1080 , VAL A:1081 , SER A:1082 , GLN A:1194 , GLU A:1261 , MOW A:3004 , 141 A:5101 , HOH A:5631 , HOH A:5633 , HOH A:5638BINDING SITE FOR RESIDUE MTE A3003
05AC5SOFTWAREGLN A:767 , GLY A:799 , PHE A:911 , ARG A:912 , ALA A:1078 , GLU A:1261 , MTE A:3003 , 141 A:5101BINDING SITE FOR RESIDUE MOW A3004
06AC6SOFTWAREGLU A:45 , GLY A:46 , LEU A:74 , LYS A:256 , LEU A:257 , VAL A:258 , VAL A:259 , GLY A:260 , ASN A:261 , THR A:262 , GLU A:263 , ILE A:264 , ALA A:301 , PHE A:337 , ALA A:338 , VAL A:342 , ALA A:346 , SER A:347 , GLY A:350 , ASN A:351 , ILE A:353 , THR A:354 , SER A:359 , ASP A:360 , ILE A:403 , LEU A:404 , LYS A:422 , ASP A:429 , ASP A:430 , HOH A:5618 , HOH A:5980 , HOH A:5982 , HOH A:6000BINDING SITE FOR RESIDUE FAD A3005
07AC7SOFTWAREGLU A:802 , ARG A:880 , PHE A:914 , PHE A:1009 , THR A:1010 , ALA A:1078 , ALA A:1079 , GLU A:1261 , MTE A:3003 , MOW A:3004 , HOH A:5479 , HOH A:5480 , HOH A:5887BINDING SITE FOR RESIDUE 141 A5101
08AC8SOFTWARECYS A:662 , HIS A:665 , ILE A:666 , ARG A:804 , ASN A:869 , SER A:906 , SER A:907 , HOH A:5402BINDING SITE FOR RESIDUE GOL A5005
09AC9SOFTWAREASP A:594 , PHE A:604 , CYS A:825 , MET A:826 , HOH A:5719BINDING SITE FOR RESIDUE GOL A5006
10BC1SOFTWAREGLU A:759 , MET A:760 , ASN A:785 , ARG A:786 , LEU A:788 , HOH A:5756 , HOH A:5757 , HOH A:5927 , LEU B:1030 , TYR B:1062 , SER B:1064BINDING SITE FOR RESIDUE GOL A5007
11BC2SOFTWAREARG A:839 , HIS A:840 , ILE A:877 , THR A:909 , ALA A:910 , PHE A:911 , PHE A:914 , GLY A:915 , GLN A:918BINDING SITE FOR RESIDUE CO3 A5201
12BC3SOFTWAREALA B:867 , SER B:870 , ARG B:871 , SER B:874 , SER B:907 , ASN B:908BINDING SITE FOR RESIDUE CA B5302
13BC4SOFTWAREGLN B:112 , CYS B:113 , GLY B:114 , CYS B:116 , CYS B:148 , ARG B:149 , CYS B:150 , LEU B:744BINDING SITE FOR RESIDUE FES B4001
14BC5SOFTWAREGLY B:42 , CYS B:43 , GLY B:44 , GLY B:46 , GLY B:47 , CYS B:48 , GLY B:49 , CYS B:51 , ASN B:71 , CYS B:73BINDING SITE FOR RESIDUE FES B4002
15BC6SOFTWAREGLN B:112 , CYS B:150 , GLY B:796 , GLY B:797 , PHE B:798 , GLY B:799 , ARG B:912 , MET B:1038 , GLY B:1039 , GLN B:1040 , ALA B:1078 , ALA B:1079 , SER B:1080 , VAL B:1081 , SER B:1082 , GLN B:1194 , GLU B:1261 , MOW B:4004 , 141 B:5102 , HOH B:5485 , HOH B:5490 , HOH B:5492BINDING SITE FOR RESIDUE MTE B4003
16BC7SOFTWAREGLN B:767 , GLY B:799 , PHE B:911 , ARG B:912 , ALA B:1078 , GLU B:1261 , MTE B:4003 , 141 B:5102BINDING SITE FOR RESIDUE MOW B4004
17BC8SOFTWAREGLU B:45 , GLY B:46 , LEU B:74 , LYS B:256 , LEU B:257 , VAL B:258 , VAL B:259 , GLY B:260 , ASN B:261 , THR B:262 , GLU B:263 , ILE B:264 , ALA B:301 , PHE B:337 , ALA B:338 , VAL B:342 , ALA B:346 , SER B:347 , GLY B:350 , ASN B:351 , ILE B:353 , THR B:354 , SER B:359 , ASP B:360 , ILE B:403 , LEU B:404 , LYS B:422 , ASP B:429 , ASP B:430 , HOH B:5751 , HOH B:5755 , HOH B:5759 , HOH B:5974BINDING SITE FOR RESIDUE FAD B4005
18BC9SOFTWAREGLU B:802 , ARG B:880 , PHE B:914 , PHE B:1009 , THR B:1010 , ALA B:1078 , ALA B:1079 , GLU B:1261 , MTE B:4003 , MOW B:4004 , HOH B:5340 , HOH B:5341 , HOH B:5342BINDING SITE FOR RESIDUE 141 B5102
19CC1SOFTWAREASP B:594 , PHE B:604 , PRO B:675 , CYS B:825 , MET B:826 , HOH B:5635BINDING SITE FOR RESIDUE GOL B5001
20CC2SOFTWARECYS B:662 , HIS B:665 , ILE B:666 , ARG B:804 , ILE B:835 , ASN B:869 , SER B:906 , SER B:907BINDING SITE FOR RESIDUE GOL B5002
21CC3SOFTWAREGLN B:561 , GLY B:574 , SER B:1184 , SER B:1185 , HOH B:5375BINDING SITE FOR RESIDUE GOL B5003
22CC4SOFTWARELEU B:580 , TYR B:1062 , ILE B:1063 , HOH B:5507 , HOH B:5521BINDING SITE FOR RESIDUE GOL B5004
23CC5SOFTWAREARG B:839 , HIS B:840 , ILE B:877 , THR B:909 , ALA B:910 , PHE B:911 , PHE B:914 , GLY B:915 , GLN B:918BINDING SITE FOR RESIDUE CO3 B5202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3BDJ)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ser A:1298 -Pro A:1299
2Ser B:1298 -Pro B:1299

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3BDJ)

(-) PROSITE Motifs  (4, 8)

Asymmetric/Biological Unit (4, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
12FE2S_FER_2PS51085 2Fe-2S ferredoxin-type iron-sulfur binding domain profile.XDH_BOVIN4-91
 		  2A:4-91
B:4-91
22FE2S_FER_1PS00197 2Fe-2S ferredoxin-type iron-sulfur binding region signature.XDH_BOVIN43-51
 		  2A:43-51
B:43-51
3FAD_PCMHPS51387 PCMH-type FAD-binding domain profile.XDH_BOVIN229-414
 		  2A:229-414
B:229-414
4MOLYBDOPTERIN_EUKPS00559 Eukaryotic molybdopterin oxidoreductases signature.XDH_BOVIN797-832
 		  2A:797-832
B:797-832

(-) Exons   (0, 0)

(no "Exon" information available for 3BDJ)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:1286
 aligned with XDH_BOVIN | P80457 from UniProtKB/Swiss-Prot  Length:1332

    Alignment length:1330
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732       742       752       762       772       782       792       802       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962       972       982       992      1002      1012      1022      1032      1042      1052      1062      1072      1082      1092      1102      1112      1122      1132      1142      1152      1162      1172      1182      1192      1202      1212      1222      1232      1242      1252      1262      1272      1282      1292      1302      1312      1322      1332
           XDH_BOVIN      3 ADELVFFVNGKKVVEKNADPETTLLAYLRRKLGLRGTKLGCGEGGCGACTVMLSKYDRLQDKIIHFSANACLAPICTLHHVAVTTVEGIGSTKTRLHPVQERIAKSHGSQCGFCTPGIVMSMYTLLRNQPEPTVEEIEDAFQGNLCRCTGYRPILQGFRTFAKNGGCCGGNGNNPNCCMNQKKDHTVTLSPSLFNPEEFMPLDPTQEPIFPPELLRLKDVPPKQLRFEGERVTWIQASTLKELLDLKAQHPEAKLVVGNTEIGIEMKFKNQLFPMIICPAWIPELNAVEHGPEGISFGAACALSSVEKTLLEAVAKLPTQKTEVFRGVLEQLRWFAGKQVKSVASLGGNIITASPISDLNPVFMASGTKLTIVSRGTRRTVPMDHTFFPSYRKTLLGPEEILLSIEIPYSREDEFFSAFKQASRREDDIAKVTCGMRVLFQPGSMQVKELALCYGGMADRTISALKTTQKQLSKFWNEKLLQDVCAGLAEELSLSPDAPGGMIEFRRTLTLSFFFKFYLTVLKKLGKDSKDKCGKLDPTYTSATLLFQKDPPANIQLFQEVPNGQSKEDTVGRPLPHLAAAMQASGEAVYCDDIPRYENELFLRLVTSTRAHAKIKSIDVSEAQKVPGFVCFLSADDIPGSNETGLFNDETVFAKDTVTCVGHIIGAVVADTPEHAERAAHVVKVTYEDLPAIITIEDAIKNNSFYGSELKIEKGDLKKGFSEADNVVSGELYIGGQDHFYLETHCTIAIPKGEEGEMELFVSTQNAMKTQSFVAKMLGVPVNRILVRVKRMGGGFGGKETRSTLVSVAVALAAYKTGHPVRCMLDRNEDMLITGGRHPFLARYKVGFMKTGTIVALEVDHYSNAGNSRDLSHSIMERALFHMDNCYKIPNIRGTGRLCKTNLSSNTAFRGFGGPQALFIAENWMSEVAVTCGLPAEEVRWKNMYKEGDLTHFNQRLEGFSVPRCWDECLKSSQYYARKSEVDKFNKENCWKKRGLCIIPTKFGISFTVPFLNQAGALIHVYTDGSVLVSHGGTEMGQGLHTKMVQVASKALKIPISKIYISETSTNTVPNSSPTAASVSTDIYGQAVYEACQTILKRLEPFKKKNPDGSWEDWVMAAYQDRVSLSTTGFYRTPNLGYSFETNSGNAFHYFTYGVACSEVEIDCLTGDHKNLRTDIVMDVGSSLNPAIDIGQVEGAFVQGLGLFTLEELHYSPEGSLHTRGPSTYKIPAFGSIPTEFRVSLLRDCPNKKAIYASKAVGEPPLFLGASVFFAIKDAIRAARAQHTNNNTKELFRLDSPATPEKIRNACVDKFTTLCVTGAPGNCKPWSLRV 1332
               SCOP domains d3bdja1 A:3-92 Xanthine oxidase, N-terminal domain                                        d3bdja2 A:93-164 Xanthine oxidase, domain 2                                                         d3bdja3 A:193-414 Xanthine oxidase, domain 3 (?)                                                                                                                                                                              d3bdja4 A:415-528 Xanthine oxidase, domain 4 (?)                                                                          d3bdja5 A:537-694 Xanthine oxidase, domain 5 (?)                                                                                                              d3bdja6 A:695-1332 Xanthine oxidase, C-terminal domain                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..eeeee.......hhhhhhhhh..................eeeeeeee....eeeeeeee....hhhhh...eeehhhhh.......hhhhhhhhhh.......hhhhhhhhhhhhhhhh...hhhhhhhh..........hhhhhhhhhhhh----------------------------....hhhhh...hhhhh...hhhhhhhh......eeee....eeee..hhhhhhhhhhhh...ee.....hhhhhhhhh.....eeee...hhhhh.eee...eeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhh.....hhhhhhhh..eeeeee..eeeeee.hhhhh............eeeeeeee.....eeeeeeee..........eeeeeeeee......eeeeeeeee......eehhhhhhh......hhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhh--------.....hhhhhh.......eeeee.....................hhhhhhh....hhhhh......eeeeeee.....eeeeeee..hhhhh..eeeeee.hhh....ee.....ee.....ee.....eeeeeee.hhhhhhhhhhh.eeeeee.....hhhhhhhhh.eeeeeeeeee.hhhhhhhhh.eeeeeeeee...........eeeeee......eeeee...hhhhhhhhhhhhhh.hhh.eeeee.............hhhhhhhhhhhhhhhh..eeee.hhhhhhhhh.....eeeeeeeee.....eeeeeeeeeeeee....hhhhhhhhhhhh.........eeeeeeeee............hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeeee...hhhh.eeeeeeee.....eeeee.......hhhhhhhhhhhhhhh.hhh.ee...ee.............hhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh....eeeeeee.................eeeeeeeeeeeeee.....eeeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhh......................hhhhh..eeeeee........hhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhh.hhhhhhh--------....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -2FE2S_FER_2  PDB: A:4-91 UniProt: 4-91                                                  -----------------------------------------------------------------------------------------------------------------------------------------FAD_PCMH  PDB: A:229-414 UniProt: 229-414                                                                                                                                                 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MOLYBDOPTERIN_EUK  PDB: A:797-832   -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) ----------------------------------------2FE2S_FER--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3bdj A    3 ADELVFFVNGKKVVEKNADPETTLLAYLRRKLGLRGTKLGCGEGGCGACTVMLSKYDRLQDKIIHFSANACLAPICTLHHVAVTTVEGIGSTKTRLHPVQERIAKSHGSQCGFCTPGIVMSMYTLLRNQPEPTVEEIEDAFQGNLCRCTGYRPILQGFRTFA----------------------------PSLFNPEEFMPLDPTQEPIFPPELLRLKDVPPKQLRFEGERVTWIQASTLKELLDLKAQHPEAKLVVGNTEIGIEMKFKNQLFPMIICPAWIPELNAVEHGPEGISFGAACALSSVEKTLLEAVAKLPTQKTEVFRGVLEQLRWFAGKQVKSVASLGGNIITASPISDLNPVFMASGTKLTIVSRGTRRTVPMDHTFFPSYRKTLLGPEEILLSIEIPYSREDEFFSAFKQASRREDDIAKVTCGMRVLFQPGSMQVKELALCYGGMADRTISALKTTQKQLSKFWNEKLLQDVCAGLAEELSLSPDAPGGMIEFRRTLTLSFFFKFYLTVLKKLG--------KLDPTYTSATLLFQKHPPANIQLFQEVPNGQSKEDTVGRPLPHLAAAMQASGEAVYCDDIPRYENELFLRLVTSTRAHAKIKSIDVSEAQKVPGFVCFLSADDIPGSNETGLFNDETVFAKDTVTCVGHIIGAVVADTPEHAERAAHVVKVTYEDLPAIITIEDAIKNNSFYGSELKIEKGDLKKGFSEADNVVSGELYIGGQDHFYLETHCTIAIPKGEEGEMELFVSTQNAMKTQSFVAKMLGVPVNRILVRVKRMGGGFGGKETRSTLVSVAVALAAYKTGHPVRCMLDRNEDMLITGGRHPFLARYKVGFMKTGTIVALEVDHYSNAGNSRDLSHSIMERALFHMDNCYKIPNIRGTGRLCKTNLSSNTAFRGFGGPQALFIAENWMSEVAVTCGLPAEEVRWKNMYKEGDLTHFNQRLEGFSVPRCWDECLKSSQYYARKSEVDKFNKENCWKKRGLCIIPTKFGISFTVPFLNQAGALIHVYTDGSVLVSHGGTEMGQGLHTKMVQVASKALKIPISKIYISETSTNTVPNSSPTAASVSTDIYGQAVYEACQTILKRLEPFKKKNPDGSWEDWVMAAYQDRVSLSTTGFYRTPNLGYSFETNSGNAFHYFTYGVACSEVEIDCLTGDHKNLRTDIVMDVGSSLNPAIDIGQVEGAFVQGLGLFTLEELHYSPEGSLHTRGPSTYKIPAFGSIPTEFRVSLLRDCPNKKAIYASKAVGEPPLFLGASVFFAIKDAIRAARAQHTNNNTKELFRLDSPATPEKIRNACVDKFTTLC--------KPWSLRV 1332
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162 |       -         -         -|      202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522     |   -    |  542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732       742       752       762       772       782       792       802       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962       972       982       992      1002      1012      1022      1032      1042      1052      1062      1072      1082      1092      1102      1112      1122      1132      1142      1152      1162      1172      1182      1192      1202      1212      1222      1232      1242      1252      1262      1272      1282      1292      1302      1312    |    -   |  1332
                                                                                                                                                                                           164                          193                                                                                                                                                                                                                                                                                                                                            528      537                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        1317     1326      


Chain B from PDB  Type:PROTEIN  Length:1286
 aligned with XDH_BOVIN | P80457 from UniProtKB/Swiss-Prot  Length:1332

    Alignment length:1330
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732       742       752       762       772       782       792       802       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962       972       982       992      1002      1012      1022      1032      1042      1052      1062      1072      1082      1092      1102      1112      1122      1132      1142      1152      1162      1172      1182      1192      1202      1212      1222      1232      1242      1252      1262      1272      1282      1292      1302      1312      1322      1332
           XDH_BOVIN      3 ADELVFFVNGKKVVEKNADPETTLLAYLRRKLGLRGTKLGCGEGGCGACTVMLSKYDRLQDKIIHFSANACLAPICTLHHVAVTTVEGIGSTKTRLHPVQERIAKSHGSQCGFCTPGIVMSMYTLLRNQPEPTVEEIEDAFQGNLCRCTGYRPILQGFRTFAKNGGCCGGNGNNPNCCMNQKKDHTVTLSPSLFNPEEFMPLDPTQEPIFPPELLRLKDVPPKQLRFEGERVTWIQASTLKELLDLKAQHPEAKLVVGNTEIGIEMKFKNQLFPMIICPAWIPELNAVEHGPEGISFGAACALSSVEKTLLEAVAKLPTQKTEVFRGVLEQLRWFAGKQVKSVASLGGNIITASPISDLNPVFMASGTKLTIVSRGTRRTVPMDHTFFPSYRKTLLGPEEILLSIEIPYSREDEFFSAFKQASRREDDIAKVTCGMRVLFQPGSMQVKELALCYGGMADRTISALKTTQKQLSKFWNEKLLQDVCAGLAEELSLSPDAPGGMIEFRRTLTLSFFFKFYLTVLKKLGKDSKDKCGKLDPTYTSATLLFQKDPPANIQLFQEVPNGQSKEDTVGRPLPHLAAAMQASGEAVYCDDIPRYENELFLRLVTSTRAHAKIKSIDVSEAQKVPGFVCFLSADDIPGSNETGLFNDETVFAKDTVTCVGHIIGAVVADTPEHAERAAHVVKVTYEDLPAIITIEDAIKNNSFYGSELKIEKGDLKKGFSEADNVVSGELYIGGQDHFYLETHCTIAIPKGEEGEMELFVSTQNAMKTQSFVAKMLGVPVNRILVRVKRMGGGFGGKETRSTLVSVAVALAAYKTGHPVRCMLDRNEDMLITGGRHPFLARYKVGFMKTGTIVALEVDHYSNAGNSRDLSHSIMERALFHMDNCYKIPNIRGTGRLCKTNLSSNTAFRGFGGPQALFIAENWMSEVAVTCGLPAEEVRWKNMYKEGDLTHFNQRLEGFSVPRCWDECLKSSQYYARKSEVDKFNKENCWKKRGLCIIPTKFGISFTVPFLNQAGALIHVYTDGSVLVSHGGTEMGQGLHTKMVQVASKALKIPISKIYISETSTNTVPNSSPTAASVSTDIYGQAVYEACQTILKRLEPFKKKNPDGSWEDWVMAAYQDRVSLSTTGFYRTPNLGYSFETNSGNAFHYFTYGVACSEVEIDCLTGDHKNLRTDIVMDVGSSLNPAIDIGQVEGAFVQGLGLFTLEELHYSPEGSLHTRGPSTYKIPAFGSIPTEFRVSLLRDCPNKKAIYASKAVGEPPLFLGASVFFAIKDAIRAARAQHTNNNTKELFRLDSPATPEKIRNACVDKFTTLCVTGAPGNCKPWSLRV 1332
               SCOP domains d3bdjb1 B:3-92 Xanthine oxidase, N-terminal domain                                        d3bdjb2 B:93-164 Xanthine oxidase, domain 2                                                         d3bdjb3 B:193-414 Xanthine oxidase, domain 3 (?)                                                                                                                                                                              d3bdjb4 B:415-528 Xanthine oxidase, domain 4 (?)                                                                          d3bdjb5 B:537-694 Xanthine oxidase, domain 5 (?)                                                                                                              d3bdjb6 B:695-1332 Xanthine oxidase, C-terminal domain                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..eeeee.......hhhhhhhhh..................eeeeeeee....eeeeeeee....hhhhh...eeehhhhh.......hhhhhhhhhh.......hhhhhhhhhhhhhhhh...hhhhhhhh..........hhhhhhhhhhhh----------------------------....hhhhh...hhhhh...hhhhhhhh......eeee....eeee..hhhhhhhhhhhh...ee.....hhhhhhhhh.....eeee...hhhhh.eee...eeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhh.....hhhhhhhhh.eeeeee..eeeeee.hhhhh............eeeeeeee.....eeeeeeee..........eeeeeeeee......eeeeeeeee......eehhhhhhh......hhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhh--------.....hhhhhh.......eeeee.....................hhhhhhh....hhhhh......eeeeeee.....eeeeeee..hhhhh..eeeeehhhhh....ee.....ee.....ee.....eeeeeee.hhhhhhhhhhh.eeeeee.....hhhhhhhhh......eeeee.hhhhhhhhh.eeeeeeeee...........eeeeee......eeeee...hhhhhhhhhhhhhh.hhh.eeeee.............hhhhhhhhhhhhhhhh..eeee.hhhhhhhhh.....eeeeeeeee.....eeeeeeeeeeeee....hhhhhhhhhhhh........eeeeeeeeee............hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeeeeee...hhhh.eeeeeeee.....eeeee.......hhhhhhhhhhhhhhh.hhh.ee...ee.............hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh....eeeeeee.................eeeeeeeeeeeeee.....eeeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhh......................hhhhh..eeeeee........hhhhh......hhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhh.hhhhhhh--------....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -2FE2S_FER_2  PDB: B:4-91 UniProt: 4-91                                                  -----------------------------------------------------------------------------------------------------------------------------------------FAD_PCMH  PDB: B:229-414 UniProt: 229-414                                                                                                                                                 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MOLYBDOPTERIN_EUK  PDB: B:797-832   -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) ----------------------------------------2FE2S_FER--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3bdj B    3 ADELVFFVNGKKVVEKNADPETTLLAYLRRKLGLRGTKLGCGEGGCGACTVMLSKYDRLQDKIIHFSANACLAPICTLHHVAVTTVEGIGSTKTRLHPVQERIAKSHGSQCGFCTPGIVMSMYTLLRNQPEPTVEEIEDAFQGNLCRCTGYRPILQGFRTFA----------------------------PSLFNPEEFMPLDPTQEPIFPPELLRLKDVPPKQLRFEGERVTWIQASTLKELLDLKAQHPEAKLVVGNTEIGIEMKFKNQLFPMIICPAWIPELNAVEHGPEGISFGAACALSSVEKTLLEAVAKLPTQKTEVFRGVLEQLRWFAGKQVKSVASLGGNIITASPISDLNPVFMASGTKLTIVSRGTRRTVPMDHTFFPSYRKTLLGPEEILLSIEIPYSREDEFFSAFKQASRREDDIAKVTCGMRVLFQPGSMQVKELALCYGGMADRTISALKTTQKQLSKFWNEKLLQDVCAGLAEELSLSPDAPGGMIEFRRTLTLSFFFKFYLTVLKKLG--------KLDPTYTSATLLFQKHPPANIQLFQEVPNGQSKEDTVGRPLPHLAAAMQASGEAVYCDDIPRYENELFLRLVTSTRAHAKIKSIDVSEAQKVPGFVCFLSADDIPGSNETGLFNDETVFAKDTVTCVGHIIGAVVADTPEHAERAAHVVKVTYEDLPAIITIEDAIKNNSFYGSELKIEKGDLKKGFSEADNVVSGELYIGGQDHFYLETHCTIAIPKGEEGEMELFVSTQNAMKTQSFVAKMLGVPVNRILVRVKRMGGGFGGKETRSTLVSVAVALAAYKTGHPVRCMLDRNEDMLITGGRHPFLARYKVGFMKTGTIVALEVDHYSNAGNSRDLSHSIMERALFHMDNCYKIPNIRGTGRLCKTNLSSNTAFRGFGGPQALFIAENWMSEVAVTCGLPAEEVRWKNMYKEGDLTHFNQRLEGFSVPRCWDECLKSSQYYARKSEVDKFNKENCWKKRGLCIIPTKFGISFTVPFLNQAGALIHVYTDGSVLVSHGGTEMGQGLHTKMVQVASKALKIPISKIYISETSTNTVPNSSPTAASVSTDIYGQAVYEACQTILKRLEPFKKKNPDGSWEDWVMAAYQDRVSLSTTGFYRTPNLGYSFETNSGNAFHYFTYGVACSEVEIDCLTGDHKNLRTDIVMDVGSSLNPAIDIGQVEGAFVQGLGLFTLEELHYSPEGSLHTRGPSTYKIPAFGSIPTEFRVSLLRDCPNKKAIYASKAVGEPPLFLGASVFFAIKDAIRAARAQHTNNNTKELFRLDSPATPEKIRNACVDKFTTLC--------KPWSLRV 1332
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162 |       -         -         -|      202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522     |   -    |  542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732       742       752       762       772       782       792       802       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962       972       982       992      1002      1012      1022      1032      1042      1052      1062      1072      1082      1092      1102      1112      1122      1132      1142      1152      1162      1172      1182      1192      1202      1212      1222      1232      1242      1252      1262      1272      1282      1292      1302      1312    |    -   |  1332
                                                                                                                                                                                           164                          193                                                                                                                                                                                                                                                                                                                                            528      537                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        1317     1326
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (6, 12)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3BDJ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3BDJ)

(-) Gene Ontology  (20, 20)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (XDH_BOVIN | P80457)
molecular function
    GO:0051537    2 iron, 2 sulfur cluster binding    Interacting selectively and non-covalently with a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0050660    flavin adenine dinucleotide binding    Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    GO:0051536    iron-sulfur cluster binding    Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0043546    molybdopterin cofactor binding    Interacting selectively and non-covalently with the molybdopterin cofactor (Moco), essential for the catalytic activity of some enzymes, e.g. sulfite oxidase, xanthine dehydrogenase, and aldehyde oxidase. The cofactor consists of a mononuclear molybdenum (Mo-molybdopterin) or tungsten ion (W-molybdopterin) coordinated by one or two molybdopterin ligands.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0016614    oxidoreductase activity, acting on CH-OH group of donors    Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group act as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
    GO:0016903    oxidoreductase activity, acting on the aldehyde or oxo group of donors    Catalysis of an oxidation-reduction (redox) reaction in which an aldehyde or ketone (oxo) group acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
    GO:0004854    xanthine dehydrogenase activity    Catalysis of the reaction: xanthine + NAD+ + H2O = urate + NADH + H+.
    GO:0004855    xanthine oxidase activity    Catalysis of the reaction: xanthine + H2O + O2 = urate + hydrogen peroxide.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0009115    xanthine catabolic process    The chemical reactions and pathways resulting in the breakdown of xanthine, 2,6-dihydroxypurine, a purine formed in the metabolic breakdown of guanine but not present in nucleic acids.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    GO:0005777    peroxisome    A small organelle enclosed by a single membrane, and found in most eukaryotic cells. Contains peroxidases and other enzymes involved in a variety of metabolic processes including free radical detoxification, lipid catabolism and biosynthesis, and hydrogen peroxide metabolism.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        XDH_BOVIN | P80457: 1fiq 1fo4 1n5x 1v97 1vdv 3am9 3amz 3ax7 3ax9 3b9j 3etr 3eub 3nrz 3ns1 3nvv 3nvw 3nvy 3nvz 3sr6 3una 3unc 3uni

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3BDJ)