2E4A
Crystal Structure of Human D-Amino Acid Oxidase in complex with o-aminobenzoate
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0003884 | molecular_function | D-amino-acid oxidase activity |
A | 0005515 | molecular_function | protein binding |
A | 0005576 | cellular_component | extracellular region |
A | 0005737 | cellular_component | cytoplasm |
A | 0005741 | cellular_component | mitochondrial outer membrane |
A | 0005777 | cellular_component | peroxisome |
A | 0005782 | cellular_component | peroxisomal matrix |
A | 0005829 | cellular_component | cytosol |
A | 0006562 | biological_process | proline catabolic process |
A | 0007586 | biological_process | digestion |
A | 0016491 | molecular_function | oxidoreductase activity |
A | 0019478 | biological_process | D-amino acid catabolic process |
A | 0036088 | biological_process | D-serine catabolic process |
A | 0042416 | biological_process | dopamine biosynthetic process |
A | 0042802 | molecular_function | identical protein binding |
A | 0042995 | cellular_component | cell projection |
A | 0045202 | cellular_component | synapse |
A | 0046416 | biological_process | D-amino acid metabolic process |
A | 0048786 | cellular_component | presynaptic active zone |
A | 0055130 | biological_process | D-alanine catabolic process |
A | 0070178 | biological_process | D-serine metabolic process |
A | 0070945 | biological_process | neutrophil-mediated killing of gram-negative bacterium |
A | 0071949 | molecular_function | FAD binding |
B | 0003884 | molecular_function | D-amino-acid oxidase activity |
B | 0005515 | molecular_function | protein binding |
B | 0005576 | cellular_component | extracellular region |
B | 0005737 | cellular_component | cytoplasm |
B | 0005741 | cellular_component | mitochondrial outer membrane |
B | 0005777 | cellular_component | peroxisome |
B | 0005782 | cellular_component | peroxisomal matrix |
B | 0005829 | cellular_component | cytosol |
B | 0006562 | biological_process | proline catabolic process |
B | 0007586 | biological_process | digestion |
B | 0016491 | molecular_function | oxidoreductase activity |
B | 0019478 | biological_process | D-amino acid catabolic process |
B | 0036088 | biological_process | D-serine catabolic process |
B | 0042416 | biological_process | dopamine biosynthetic process |
B | 0042802 | molecular_function | identical protein binding |
B | 0042995 | cellular_component | cell projection |
B | 0045202 | cellular_component | synapse |
B | 0046416 | biological_process | D-amino acid metabolic process |
B | 0048786 | cellular_component | presynaptic active zone |
B | 0055130 | biological_process | D-alanine catabolic process |
B | 0070178 | biological_process | D-serine metabolic process |
B | 0070945 | biological_process | neutrophil-mediated killing of gram-negative bacterium |
B | 0071949 | molecular_function | FAD binding |
C | 0003884 | molecular_function | D-amino-acid oxidase activity |
C | 0005515 | molecular_function | protein binding |
C | 0005576 | cellular_component | extracellular region |
C | 0005737 | cellular_component | cytoplasm |
C | 0005741 | cellular_component | mitochondrial outer membrane |
C | 0005777 | cellular_component | peroxisome |
C | 0005782 | cellular_component | peroxisomal matrix |
C | 0005829 | cellular_component | cytosol |
C | 0006562 | biological_process | proline catabolic process |
C | 0007586 | biological_process | digestion |
C | 0016491 | molecular_function | oxidoreductase activity |
C | 0019478 | biological_process | D-amino acid catabolic process |
C | 0036088 | biological_process | D-serine catabolic process |
C | 0042416 | biological_process | dopamine biosynthetic process |
C | 0042802 | molecular_function | identical protein binding |
C | 0042995 | cellular_component | cell projection |
C | 0045202 | cellular_component | synapse |
C | 0046416 | biological_process | D-amino acid metabolic process |
C | 0048786 | cellular_component | presynaptic active zone |
C | 0055130 | biological_process | D-alanine catabolic process |
C | 0070178 | biological_process | D-serine metabolic process |
C | 0070945 | biological_process | neutrophil-mediated killing of gram-negative bacterium |
C | 0071949 | molecular_function | FAD binding |
D | 0003884 | molecular_function | D-amino-acid oxidase activity |
D | 0005515 | molecular_function | protein binding |
D | 0005576 | cellular_component | extracellular region |
D | 0005737 | cellular_component | cytoplasm |
D | 0005741 | cellular_component | mitochondrial outer membrane |
D | 0005777 | cellular_component | peroxisome |
D | 0005782 | cellular_component | peroxisomal matrix |
D | 0005829 | cellular_component | cytosol |
D | 0006562 | biological_process | proline catabolic process |
D | 0007586 | biological_process | digestion |
D | 0016491 | molecular_function | oxidoreductase activity |
D | 0019478 | biological_process | D-amino acid catabolic process |
D | 0036088 | biological_process | D-serine catabolic process |
D | 0042416 | biological_process | dopamine biosynthetic process |
D | 0042802 | molecular_function | identical protein binding |
D | 0042995 | cellular_component | cell projection |
D | 0045202 | cellular_component | synapse |
D | 0046416 | biological_process | D-amino acid metabolic process |
D | 0048786 | cellular_component | presynaptic active zone |
D | 0055130 | biological_process | D-alanine catabolic process |
D | 0070178 | biological_process | D-serine metabolic process |
D | 0070945 | biological_process | neutrophil-mediated killing of gram-negative bacterium |
D | 0071949 | molecular_function | FAD binding |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 27 |
Details | BINDING SITE FOR RESIDUE FAD A 351 |
Chain | Residue |
A | GLY7 |
A | ALA48 |
A | GLY50 |
A | LEU51 |
A | ARG162 |
A | LYS163 |
A | VAL164 |
A | THR182 |
A | GLY183 |
A | TRP185 |
A | ARG283 |
A | GLY9 |
A | GLY312 |
A | GLY313 |
A | TYR314 |
A | GLY315 |
A | LEU316 |
A | THR317 |
A | BE2352 |
A | HOH380 |
A | VAL10 |
A | ILE11 |
A | ASP37 |
A | ARG38 |
A | THR43 |
A | THR44 |
A | THR45 |
site_id | AC2 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE BE2 A 352 |
Chain | Residue |
A | TYR224 |
A | TYR228 |
A | ILE230 |
A | ARG283 |
A | GLY313 |
A | FAD351 |
site_id | AC3 |
Number of Residues | 28 |
Details | BINDING SITE FOR RESIDUE FAD B 1351 |
Chain | Residue |
B | HOH47 |
B | HOH83 |
B | HOH89 |
B | GLY1007 |
B | ALA1008 |
B | GLY1009 |
B | VAL1010 |
B | ILE1011 |
B | ASP1037 |
B | ARG1038 |
B | THR1044 |
B | THR1045 |
B | ALA1048 |
B | GLY1050 |
B | LEU1051 |
B | ARG1162 |
B | VAL1164 |
B | THR1182 |
B | GLY1183 |
B | TRP1185 |
B | ARG1283 |
B | GLY1312 |
B | GLY1313 |
B | TYR1314 |
B | GLY1315 |
B | LEU1316 |
B | THR1317 |
B | BE21352 |
site_id | AC4 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE BE2 B 1352 |
Chain | Residue |
B | TYR1224 |
B | TYR1228 |
B | ILE1230 |
B | ARG1283 |
B | GLY1313 |
B | FAD1351 |
site_id | AC5 |
Number of Residues | 29 |
Details | BINDING SITE FOR RESIDUE FAD C 2351 |
Chain | Residue |
C | HOH54 |
C | GLY2007 |
C | GLY2009 |
C | VAL2010 |
C | ILE2011 |
C | ASP2037 |
C | ARG2038 |
C | THR2043 |
C | THR2044 |
C | THR2045 |
C | ALA2048 |
C | GLY2050 |
C | LEU2051 |
C | ARG2162 |
C | LYS2163 |
C | VAL2164 |
C | THR2182 |
C | GLY2183 |
C | TRP2185 |
C | LEU2189 |
C | ARG2283 |
C | PRO2284 |
C | GLY2312 |
C | GLY2313 |
C | TYR2314 |
C | GLY2315 |
C | LEU2316 |
C | THR2317 |
C | BE22352 |
site_id | AC6 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE BE2 C 2352 |
Chain | Residue |
C | ILE2230 |
C | ARG2283 |
C | GLY2313 |
C | FAD2351 |
C | LEU2215 |
C | TYR2224 |
C | TYR2228 |
site_id | AC7 |
Number of Residues | 30 |
Details | BINDING SITE FOR RESIDUE FAD D 3351 |
Chain | Residue |
D | HOH49 |
D | HOH92 |
D | GLY3007 |
D | ALA3008 |
D | GLY3009 |
D | VAL3010 |
D | ILE3011 |
D | ALA3036 |
D | ASP3037 |
D | ARG3038 |
D | THR3043 |
D | THR3044 |
D | THR3045 |
D | ALA3048 |
D | GLY3050 |
D | LEU3051 |
D | ARG3162 |
D | VAL3164 |
D | THR3182 |
D | GLY3183 |
D | LEU3189 |
D | ARG3283 |
D | PRO3284 |
D | GLY3312 |
D | GLY3313 |
D | TYR3314 |
D | GLY3315 |
D | LEU3316 |
D | THR3317 |
D | BE23352 |
site_id | AC8 |
Number of Residues | 6 |
Details | BINDING SITE FOR RESIDUE BE2 D 3352 |
Chain | Residue |
D | TYR3224 |
D | TYR3228 |
D | ILE3230 |
D | ARG3283 |
D | GLY3313 |
D | FAD3351 |
Functional Information from PROSITE/UniProt
Functional Information from SwissProt/UniProt
Chain | Residue | Details |
A | ALA8 | |
A | ILE11 | |
B | ALA1008 | |
B | ILE1011 | |
C | ALA2008 | |
C | ILE2011 | |
D | ALA3008 | |
D | ILE3011 |
site_id | SWS_FT_FI2 |
Number of Residues | 4 |
Details | BINDING: BINDING => ECO:0000269|PubMed:17303072, ECO:0007744|PDB:2E4A, ECO:0007744|PDB:2E82 |
Chain | Residue | Details |
A | GLY9 | |
B | GLY1009 | |
C | GLY2009 | |
D | GLY3009 |
site_id | SWS_FT_FI3 |
Number of Residues | 4 |
Details | BINDING: BINDING => ECO:0000269|PubMed:17088322, ECO:0000269|PubMed:23566269, ECO:0000269|PubMed:23631755, ECO:0007744|PDB:2DU8, ECO:0007744|PDB:3W4I, ECO:0007744|PDB:3W4J, ECO:0007744|PDB:3W4K, ECO:0007744|PDB:3ZNO, ECO:0007744|PDB:3ZNQ |
Chain | Residue | Details |
A | VAL10 | |
B | VAL1010 | |
C | VAL2010 | |
D | VAL3010 |
Chain | Residue | Details |
A | ASP37 | |
B | ASP1037 | |
C | ASP2037 | |
D | ASP3037 |
Chain | Residue | Details |
A | ARG38 | |
B | VAL1164 | |
B | GLY1312 | |
B | THR1317 | |
C | ARG2038 | |
C | THR2045 | |
C | LEU2051 | |
C | VAL2164 | |
C | GLY2312 | |
C | THR2317 | |
D | ARG3038 | |
A | THR45 | |
D | THR3045 | |
D | LEU3051 | |
D | VAL3164 | |
D | GLY3312 | |
D | THR3317 | |
A | LEU51 | |
A | VAL164 | |
A | GLY312 | |
A | THR317 | |
B | ARG1038 | |
B | THR1045 | |
B | LEU1051 |
site_id | SWS_FT_FI6 |
Number of Residues | 4 |
Details | BINDING: BINDING => ECO:0000269|PubMed:18455394, ECO:0007744|PDB:3CUK |
Chain | Residue | Details |
A | THR43 | |
B | THR1043 | |
C | THR2043 | |
D | THR3043 |
Chain | Residue | Details |
A | THR44 | |
B | THR1044 | |
C | THR2044 | |
D | THR3044 |
site_id | SWS_FT_FI8 |
Number of Residues | 8 |
Details | BINDING: BINDING => ECO:0000250|UniProtKB:P00371 |
Chain | Residue | Details |
A | ALA49 | |
A | LYS163 | |
B | ALA1049 | |
B | LYS1163 | |
C | ALA2049 | |
C | LYS2163 | |
D | ALA3049 | |
D | LYS3163 |
Chain | Residue | Details |
A | GLY50 | |
B | GLY1050 | |
C | GLY2050 | |
D | GLY3050 |
site_id | SWS_FT_FI10 |
Number of Residues | 4 |
Details | BINDING: BINDING => ECO:0000269|PubMed:17303072, ECO:0007744|PDB:2E82 |
Chain | Residue | Details |
A | GLN53 | |
B | GLN1053 | |
C | GLN2053 | |
D | GLN3053 |
site_id | SWS_FT_FI11 |
Number of Residues | 4 |
Details | BINDING: BINDING => ECO:0007744|PDB:3ZNQ |
Chain | Residue | Details |
A | THR182 | |
B | THR1182 | |
C | THR2182 | |
D | THR3182 |
site_id | SWS_FT_FI12 |
Number of Residues | 4 |
Details | BINDING: BINDING => ECO:0000305|PubMed:17303072, ECO:0007744|PDB:2E4A |
Chain | Residue | Details |
A | TYR224 | |
B | TYR1224 | |
C | TYR2224 | |
D | TYR3224 |
site_id | SWS_FT_FI13 |
Number of Residues | 4 |
Details | BINDING: BINDING => ECO:0000305|PubMed:17088322, ECO:0000305|PubMed:17303072, ECO:0000305|PubMed:18455394, ECO:0007744|PDB:2DU8, ECO:0007744|PDB:2E4A, ECO:0007744|PDB:3CUK |
Chain | Residue | Details |
A | TYR228 | |
B | TYR1228 | |
C | TYR2228 | |
D | TYR3228 |
site_id | SWS_FT_FI14 |
Number of Residues | 4 |
Details | BINDING: BINDING => ECO:0000269|PubMed:17303072, ECO:0000269|PubMed:18455394, ECO:0000269|PubMed:23566269, ECO:0000269|PubMed:23631755, ECO:0007744|PDB:2E48, ECO:0007744|PDB:2E49, ECO:0007744|PDB:2E82, ECO:0007744|PDB:3CUK, ECO:0007744|PDB:3W4I, ECO:0007744|PDB:3W4J, ECO:0007744|PDB:3W4K, ECO:0007744|PDB:3ZNO |
Chain | Residue | Details |
A | ARG283 | |
B | ARG1283 | |
C | ARG2283 | |
D | ARG3283 |
site_id | SWS_FT_FI15 |
Number of Residues | 4 |
Details | BINDING: BINDING => ECO:0000269|PubMed:17088322, ECO:0000269|PubMed:17303072, ECO:0000269|PubMed:23566269, ECO:0000269|PubMed:23631755, ECO:0000269|PubMed:25001371, ECO:0007744|PDB:2DU8, ECO:0007744|PDB:2E48, ECO:0007744|PDB:2E49, ECO:0007744|PDB:2E82, ECO:0007744|PDB:3W4I, ECO:0007744|PDB:3W4J, ECO:0007744|PDB:3W4K, ECO:0007744|PDB:3ZNO, ECO:0007744|PDB:3ZNP, ECO:0007744|PDB:3ZNQ, ECO:0007744|PDB:4QFD |
Chain | Residue | Details |
A | GLY313 | |
B | GLY1313 | |
C | GLY2313 | |
D | GLY3313 |
Chain | Residue | Details |
A | GLY315 | |
B | GLY1315 | |
C | GLY2315 | |
D | GLY3315 |
Chain | Residue | Details |
A | LEU316 | |
B | LEU1316 | |
C | LEU2316 | |
D | LEU3316 |
Catalytic Information from CSA
site_id | CSA1 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1c0k |
Chain | Residue | Details |
A | GLY313 |
site_id | CSA2 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1c0k |
Chain | Residue | Details |
B | GLY1313 |
site_id | CSA3 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1c0k |
Chain | Residue | Details |
C | GLY2313 |
site_id | CSA4 |
Number of Residues | 1 |
Details | Annotated By Reference To The Literature 1c0k |
Chain | Residue | Details |
D | GLY3313 |