3UNI
Crystal Structure of Bovine Milk Xanthine Dehydrogenase with NADH Bound
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0002197 | cellular_component | xanthine dehydrogenase complex |
A | 0004854 | molecular_function | xanthine dehydrogenase activity |
A | 0004855 | molecular_function | xanthine oxidase activity |
A | 0005506 | molecular_function | iron ion binding |
A | 0005576 | cellular_component | extracellular region |
A | 0005615 | cellular_component | extracellular space |
A | 0005737 | cellular_component | cytoplasm |
A | 0005777 | cellular_component | peroxisome |
A | 0009115 | biological_process | xanthine catabolic process |
A | 0016491 | molecular_function | oxidoreductase activity |
A | 0030151 | molecular_function | molybdenum ion binding |
A | 0042803 | molecular_function | protein homodimerization activity |
A | 0043546 | molecular_function | molybdopterin cofactor binding |
A | 0046872 | molecular_function | metal ion binding |
A | 0050660 | molecular_function | flavin adenine dinucleotide binding |
A | 0051536 | molecular_function | iron-sulfur cluster binding |
A | 0051537 | molecular_function | 2 iron, 2 sulfur cluster binding |
A | 0071949 | molecular_function | FAD binding |
B | 0002197 | cellular_component | xanthine dehydrogenase complex |
B | 0004854 | molecular_function | xanthine dehydrogenase activity |
B | 0004855 | molecular_function | xanthine oxidase activity |
B | 0005506 | molecular_function | iron ion binding |
B | 0005576 | cellular_component | extracellular region |
B | 0005615 | cellular_component | extracellular space |
B | 0005737 | cellular_component | cytoplasm |
B | 0005777 | cellular_component | peroxisome |
B | 0009115 | biological_process | xanthine catabolic process |
B | 0016491 | molecular_function | oxidoreductase activity |
B | 0030151 | molecular_function | molybdenum ion binding |
B | 0042803 | molecular_function | protein homodimerization activity |
B | 0043546 | molecular_function | molybdopterin cofactor binding |
B | 0046872 | molecular_function | metal ion binding |
B | 0050660 | molecular_function | flavin adenine dinucleotide binding |
B | 0051536 | molecular_function | iron-sulfur cluster binding |
B | 0051537 | molecular_function | 2 iron, 2 sulfur cluster binding |
B | 0071949 | molecular_function | FAD binding |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE FES A 1333 |
Chain | Residue |
A | GLN112 |
A | CYS113 |
A | GLY114 |
A | CYS116 |
A | CYS148 |
A | ARG149 |
A | CYS150 |
site_id | AC2 |
Number of Residues | 10 |
Details | BINDING SITE FOR RESIDUE FES A 1334 |
Chain | Residue |
A | GLY44 |
A | GLY46 |
A | GLY47 |
A | CYS48 |
A | GLY49 |
A | CYS51 |
A | ASN71 |
A | CYS73 |
A | GLY42 |
A | CYS43 |
site_id | AC3 |
Number of Residues | 20 |
Details | BINDING SITE FOR RESIDUE MTE A 1335 |
Chain | Residue |
A | GLN112 |
A | CYS150 |
A | GLY796 |
A | GLY797 |
A | PHE798 |
A | ARG912 |
A | MET1038 |
A | GLY1039 |
A | GLN1040 |
A | ALA1078 |
A | ALA1079 |
A | SER1080 |
A | VAL1081 |
A | SER1082 |
A | GLN1194 |
A | GLU1261 |
A | MOS1336 |
A | HOH1428 |
A | HOH1429 |
A | HOH1431 |
site_id | AC4 |
Number of Residues | 11 |
Details | BINDING SITE FOR RESIDUE MOS A 1336 |
Chain | Residue |
A | GLN767 |
A | GLY799 |
A | GLU802 |
A | PHE911 |
A | ARG912 |
A | ALA1078 |
A | ALA1079 |
A | GLU1261 |
A | MTE1335 |
A | SAL1344 |
A | HOH1440 |
site_id | AC5 |
Number of Residues | 30 |
Details | BINDING SITE FOR RESIDUE FAD A 1337 |
Chain | Residue |
A | GLU45 |
A | GLY46 |
A | LYS256 |
A | LEU257 |
A | VAL258 |
A | VAL259 |
A | GLY260 |
A | ASN261 |
A | THR262 |
A | GLU263 |
A | ILE264 |
A | ALA301 |
A | PHE337 |
A | ALA338 |
A | ALA346 |
A | SER347 |
A | GLY350 |
A | ASN351 |
A | ILE353 |
A | THR354 |
A | SER359 |
A | ASP360 |
A | ILE403 |
A | LEU404 |
A | LYS422 |
A | ASP429 |
A | NAI1338 |
A | HOH1560 |
A | HOH1856 |
A | HOH1895 |
site_id | AC6 |
Number of Residues | 22 |
Details | BINDING SITE FOR RESIDUE NAI A 1338 |
Chain | Residue |
A | HOH1856 |
A | GLU263 |
A | LYS271 |
A | SER356 |
A | PRO357 |
A | ILE358 |
A | TYR393 |
A | ARG394 |
A | ASP429 |
A | ASP430 |
A | ILE431 |
A | GLY458 |
A | ALA460 |
A | ASP461 |
A | PRO501 |
A | GLY502 |
A | ARG508 |
A | SER1225 |
A | FAD1337 |
A | HOH1546 |
A | HOH1547 |
A | HOH1751 |
site_id | AC7 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE GOL A 1339 |
Chain | Residue |
A | TRP336 |
A | LYS422 |
A | GLN423 |
A | PHE549 |
A | ASP1170 |
site_id | AC8 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE GOL A 1340 |
Chain | Residue |
A | LEU580 |
A | ALA581 |
A | ARG793 |
A | TYR1062 |
A | ILE1063 |
A | HOH1509 |
A | HOH1771 |
B | HOH1768 |
site_id | AC9 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE GOL A 1341 |
Chain | Residue |
A | HIS665 |
A | ILE666 |
A | ARG804 |
A | ILE835 |
A | ASN869 |
A | SER907 |
A | HOH1579 |
site_id | BC1 |
Number of Residues | 5 |
Details | BINDING SITE FOR RESIDUE GOL A 1342 |
Chain | Residue |
A | ASP594 |
A | PHE604 |
A | CYS825 |
A | MET826 |
A | HOH1717 |
site_id | BC2 |
Number of Residues | 9 |
Details | BINDING SITE FOR RESIDUE CO3 A 1343 |
Chain | Residue |
A | ARG839 |
A | HIS840 |
A | ILE877 |
A | THR909 |
A | ALA910 |
A | PHE911 |
A | PHE914 |
A | GLY915 |
A | GLN918 |
site_id | BC3 |
Number of Residues | 11 |
Details | BINDING SITE FOR RESIDUE SAL A 1344 |
Chain | Residue |
A | GLU802 |
A | ARG880 |
A | PHE914 |
A | SER1008 |
A | PHE1009 |
A | THR1010 |
A | VAL1011 |
A | LEU1014 |
A | MOS1336 |
A | HOH1439 |
A | HOH1440 |
site_id | BC4 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE CA A 1345 |
Chain | Residue |
A | ALA867 |
A | SER870 |
A | ARG871 |
A | ASP872 |
A | SER874 |
A | SER907 |
A | ASN908 |
site_id | BC5 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE FES B 1333 |
Chain | Residue |
B | GLN112 |
B | CYS113 |
B | GLY114 |
B | CYS116 |
B | CYS148 |
B | ARG149 |
B | CYS150 |
B | LEU744 |
site_id | BC6 |
Number of Residues | 10 |
Details | BINDING SITE FOR RESIDUE FES B 1334 |
Chain | Residue |
B | GLY42 |
B | CYS43 |
B | GLY44 |
B | GLY46 |
B | GLY47 |
B | CYS48 |
B | GLY49 |
B | CYS51 |
B | ASN71 |
B | CYS73 |
site_id | BC7 |
Number of Residues | 20 |
Details | BINDING SITE FOR RESIDUE MTE B 1335 |
Chain | Residue |
B | GLN112 |
B | CYS150 |
B | GLY796 |
B | GLY797 |
B | PHE798 |
B | ARG912 |
B | MET1038 |
B | GLY1039 |
B | GLN1040 |
B | ALA1078 |
B | ALA1079 |
B | SER1080 |
B | VAL1081 |
B | SER1082 |
B | GLN1194 |
B | GLU1261 |
B | MOS1336 |
B | HOH1441 |
B | HOH1442 |
B | HOH1443 |
site_id | BC8 |
Number of Residues | 12 |
Details | BINDING SITE FOR RESIDUE MOS B 1336 |
Chain | Residue |
B | GLN767 |
B | PHE798 |
B | GLY799 |
B | GLU802 |
B | PHE911 |
B | ARG912 |
B | ALA1078 |
B | ALA1079 |
B | GLU1261 |
B | MTE1335 |
B | SAL1345 |
B | HOH1552 |
site_id | BC9 |
Number of Residues | 32 |
Details | BINDING SITE FOR RESIDUE FAD B 1337 |
Chain | Residue |
B | GLU45 |
B | GLY46 |
B | LYS256 |
B | LEU257 |
B | VAL258 |
B | VAL259 |
B | GLY260 |
B | ASN261 |
B | THR262 |
B | GLU263 |
B | ILE264 |
B | ALA301 |
B | PHE337 |
B | ALA338 |
B | ALA346 |
B | SER347 |
B | GLY350 |
B | ASN351 |
B | ILE353 |
B | THR354 |
B | SER359 |
B | ASP360 |
B | ILE403 |
B | LEU404 |
B | LYS422 |
B | ASP429 |
B | NAI1338 |
B | HOH1733 |
B | HOH1734 |
B | HOH1738 |
B | HOH1787 |
B | HOH1800 |
site_id | CC1 |
Number of Residues | 21 |
Details | BINDING SITE FOR RESIDUE NAI B 1338 |
Chain | Residue |
B | GLU263 |
B | SER356 |
B | PRO357 |
B | ILE358 |
B | TYR393 |
B | ARG394 |
B | ASP429 |
B | ASP430 |
B | ILE431 |
B | GLY458 |
B | ALA460 |
B | ASP461 |
B | PRO501 |
B | ARG508 |
B | SER1225 |
B | FAD1337 |
B | HOH1595 |
B | HOH1738 |
B | HOH1742 |
B | HOH1784 |
B | HOH1785 |
site_id | CC2 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE GOL B 1339 |
Chain | Residue |
A | HOH1631 |
B | LEU580 |
B | ALA581 |
B | ARG793 |
B | TYR1062 |
B | ILE1063 |
B | HOH1416 |
B | HOH1421 |
site_id | CC3 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE GOL B 1340 |
Chain | Residue |
B | ASP594 |
B | PHE604 |
B | PRO675 |
B | CYS825 |
B | MET826 |
B | HOH1725 |
site_id | CC4 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE GOL B 1341 |
Chain | Residue |
B | CYS662 |
B | HIS665 |
B | ILE666 |
B | ARG804 |
B | ILE835 |
B | ASN869 |
B | SER906 |
B | SER907 |
site_id | CC5 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE GOL B 1342 |
Chain | Residue |
B | ARG427 |
B | PHE549 |
B | LYS994 |
B | GLU1163 |
B | ASP1170 |
B | HIS1171 |
B | LYS1172 |
site_id | CC6 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE GOL B 1343 |
Chain | Residue |
B | GLN561 |
B | GLY574 |
B | SER1184 |
B | SER1185 |
B | PRO1188 |
B | HOH1399 |
site_id | CC7 |
Number of Residues | 9 |
Details | BINDING SITE FOR RESIDUE CO3 B 1344 |
Chain | Residue |
B | ARG839 |
B | HIS840 |
B | ILE877 |
B | THR909 |
B | ALA910 |
B | PHE911 |
B | PHE914 |
B | GLY915 |
B | GLN918 |
site_id | CC8 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE SAL B 1345 |
Chain | Residue |
B | GLU802 |
B | ARG880 |
B | PHE914 |
B | PHE1009 |
B | THR1010 |
B | LEU1014 |
B | MOS1336 |
B | HOH1552 |
site_id | CC9 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE CA B 1346 |
Chain | Residue |
B | ALA867 |
B | SER870 |
B | ARG871 |
B | SER874 |
B | SER907 |
B | ASN908 |
Functional Information from PROSITE/UniProt
site_id | PS00197 |
Number of Residues | 9 |
Details | 2FE2S_FER_1 2Fe-2S ferredoxin-type iron-sulfur binding region signature. CGEGGCGAC |
Chain | Residue | Details |
A | CYS43-CYS51 |
site_id | PS00559 |
Number of Residues | 36 |
Details | MOLYBDOPTERIN_EUK Eukaryotic molybdopterin oxidoreductases signature. GFggKetrstlvsvava..LaayKTghpVrCmlDRneD |
Chain | Residue | Details |
A | GLY797-ASP832 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 2 |
Details | ACT_SITE: Proton acceptor => ECO:0000269|PubMed:15148401 |
Chain | Residue | Details |
A | GLU1261 | |
B | GLU1261 |
site_id | SWS_FT_FI2 |
Number of Residues | 24 |
Details | BINDING: BINDING => ECO:0000269|PubMed:12421831, ECO:0000269|PubMed:15148401, ECO:0000269|PubMed:19109252 |
Chain | Residue | Details |
A | CYS43 | |
A | PHE798 | |
A | ARG912 | |
A | ALA1079 | |
B | CYS43 | |
B | CYS48 | |
B | CYS51 | |
B | CYS73 | |
B | CYS113 | |
B | CYS116 | |
B | CYS148 | |
A | CYS48 | |
B | CYS150 | |
B | GLN767 | |
B | PHE798 | |
B | ARG912 | |
B | ALA1079 | |
A | CYS51 | |
A | CYS73 | |
A | CYS113 | |
A | CYS116 | |
A | CYS148 | |
A | CYS150 | |
A | GLN767 |
site_id | SWS_FT_FI3 |
Number of Residues | 12 |
Details | BINDING: BINDING => ECO:0000269|PubMed:12421831, ECO:0000269|PubMed:15148401 |
Chain | Residue | Details |
A | LEU257 | |
B | ASP360 | |
B | LEU404 | |
B | LYS422 | |
A | PHE337 | |
A | SER347 | |
A | ASP360 | |
A | LEU404 | |
A | LYS422 | |
B | LEU257 | |
B | PHE337 | |
B | SER347 |
site_id | SWS_FT_FI4 |
Number of Residues | 8 |
Details | BINDING: |
Chain | Residue | Details |
A | GLU802 | |
A | ARG880 | |
A | PHE914 | |
A | THR1010 | |
B | GLU802 | |
B | ARG880 | |
B | PHE914 | |
B | THR1010 |
Catalytic Information from CSA
site_id | MCSA1 |
Number of Residues | 3 |
Details | M-CSA 139 |
Chain | Residue | Details |
A | GLU802 | electrostatic stabiliser, hydrogen bond acceptor |
A | ARG880 | electrostatic stabiliser, hydrogen bond donor |
A | GLU1261 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |
site_id | MCSA2 |
Number of Residues | 3 |
Details | M-CSA 139 |
Chain | Residue | Details |
B | GLU802 | electrostatic stabiliser, hydrogen bond acceptor |
B | ARG880 | electrostatic stabiliser, hydrogen bond donor |
B | GLU1261 | electrostatic stabiliser, hydrogen bond acceptor, hydrogen bond donor, proton acceptor, proton donor |