data_8RI3 # _model_server_result.job_id 895409jyjTRdgF9LlspuFQ _model_server_result.datetime_utc '2024-12-12 18:51:48' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 8ri3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":101}' # _entry.id 8RI3 # _exptl.entry_id 8RI3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 195.078 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PLATINUM (II) ION' _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 8RI3 _cell.length_a 25.56 _cell.length_b 40.39 _cell.length_c 65.67 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8RI3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 F N N ? 3 I N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A N7 DG 4 A DG 4 1_555 F PT PT . A PT 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.9 ? metalc ? metalc2 A N7 DG 10 A DG 10 1_555 D PT PT . A PT 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc3 C MG MG . A MG 101 1_555 K O HOH . A HOH 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? metalc ? metalc4 C MG MG . A MG 101 1_555 K O HOH . A HOH 217 3_655 ? ? ? ? ? ? ? ? ? ? ? ? 1.957 ? metalc ? metalc5 C MG MG . A MG 101 1_555 K O HOH . A HOH 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc6 C MG MG . A MG 101 1_555 K O HOH . A HOH 226 3_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? metalc ? metalc7 C MG MG . A MG 101 1_555 K O HOH . A HOH 231 3_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? metalc ? metalc8 C MG MG . A MG 101 1_555 L O HOH . B HOH 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? metalc ? metalc9 D PT PT . A PT 102 1_555 E N NH3 . A NH3 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc10 D PT PT . A PT 102 1_555 K O HOH . A HOH 232 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.62 ? metalc ? metalc11 F PT PT . A PT 104 1_555 G N NH3 . A NH3 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.842 ? metalc ? metalc12 F PT PT . A PT 104 1_555 K O HOH . A HOH 207 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.77 ? metalc ? metalc13 B N7 DG 4 B DG 16 1_555 I PT PT . B PT 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? metalc ? metalc14 I PT PT . B PT 101 1_555 J N NH3 . B NH3 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc15 I PT PT . B PT 101 1_555 L O HOH . B HOH 222 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.552 ? hydrog WATSON-CRICK hydrog1 A N3 DC 1 A DC 1 1_555 B N1 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N4 DC 1 A DC 1 1_555 B O6 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O2 DC 1 A DC 1 1_555 B N2 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DG 2 A DG 2 1_555 B N3 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N2 DG 2 A DG 2 1_555 B O2 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O6 DG 2 A DG 2 1_555 B N4 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N3 DC 3 A DC 3 1_555 B N1 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N4 DC 3 A DC 3 1_555 B O6 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O2 DC 3 A DC 3 1_555 B N2 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N1 DG 4 A DG 4 1_555 B N3 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N2 DG 4 A DG 4 1_555 B O2 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O6 DG 4 A DG 4 1_555 B N4 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DA 5 A DA 5 1_555 B N3 DT 8 B DT 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N6 DA 5 A DA 5 1_555 B O4 DT 8 B DT 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N1 DA 6 A DA 6 1_555 B N3 DT 7 B DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N6 DA 6 A DA 6 1_555 B O4 DT 7 B DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N3 DT 7 A DT 7 1_555 B N1 DA 6 B DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A O4 DT 7 A DT 7 1_555 B N6 DA 6 B DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N3 DT 8 A DT 8 1_555 B N1 DA 5 B DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A O4 DT 8 A DT 8 1_555 B N6 DA 5 B DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N3 DC 9 A DC 9 1_555 B N1 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A N4 DC 9 A DC 9 1_555 B O6 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A O2 DC 9 A DC 9 1_555 B N2 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A N1 DG 10 A DG 10 1_555 B N3 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A N2 DG 10 A DG 10 1_555 B O2 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A O6 DG 10 A DG 10 1_555 B N4 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A N3 DC 11 A DC 11 1_555 B N1 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A N4 DC 11 A DC 11 1_555 B O6 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 A O2 DC 11 A DC 11 1_555 B N2 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 A N1 DG 12 A DG 12 1_555 B N3 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 A N2 DG 12 A DG 12 1_555 B O2 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 A O6 DG 12 A DG 12 1_555 B N4 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'Pt 2' _chem_comp.formula_weight 195.078 _chem_comp.id PT _chem_comp.mon_nstd_flag . _chem_comp.name 'PLATINUM (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 8RI3 _atom_sites.fract_transf_matrix[1][1] 0.039124 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.024759 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.015228 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 MG A 1 101 13 MG MG . D 3 PT A 1 102 3 PT PT . E 4 NH3 A 1 103 2 NH3 NH3 . F 3 PT A 1 104 1 PT YUO . G 4 NH3 A 1 105 1 NH3 YUO . H 5 CL A 1 106 1 CL YUO . I 3 PT B 1 101 1 PT PT . J 4 NH3 B 1 102 4 NH3 NH3 . K 6 HOH A 1 201 30 HOH HOH . K 6 HOH A 2 202 91 HOH HOH . K 6 HOH A 3 203 82 HOH HOH . K 6 HOH A 4 204 73 HOH HOH . K 6 HOH A 5 205 97 HOH HOH . K 6 HOH A 6 206 2 HOH HOH . K 6 HOH A 7 207 110 HOH HOH . K 6 HOH A 8 208 68 HOH HOH . K 6 HOH A 9 209 43 HOH HOH . K 6 HOH A 10 210 47 HOH HOH . K 6 HOH A 11 211 5 HOH HOH . K 6 HOH A 12 212 46 HOH HOH . K 6 HOH A 13 213 58 HOH HOH . K 6 HOH A 14 214 10 HOH HOH . K 6 HOH A 15 215 63 HOH HOH . K 6 HOH A 16 216 4 HOH HOH . K 6 HOH A 17 217 8 HOH HOH . K 6 HOH A 18 218 6 HOH HOH . K 6 HOH A 19 219 39 HOH HOH . K 6 HOH A 20 220 90 HOH HOH . K 6 HOH A 21 221 99 HOH HOH . K 6 HOH A 22 222 65 HOH HOH . K 6 HOH A 23 223 7 HOH HOH . K 6 HOH A 24 224 3 HOH HOH . K 6 HOH A 25 225 9 HOH HOH . K 6 HOH A 26 226 13 HOH HOH . K 6 HOH A 27 227 29 HOH HOH . K 6 HOH A 28 228 79 HOH HOH . K 6 HOH A 29 229 51 HOH HOH . K 6 HOH A 30 230 21 HOH HOH . K 6 HOH A 31 231 11 HOH HOH . K 6 HOH A 32 232 108 HOH HOH . K 6 HOH A 33 233 31 HOH HOH . K 6 HOH A 34 234 36 HOH HOH . K 6 HOH A 35 235 44 HOH HOH . K 6 HOH A 36 236 18 HOH HOH . K 6 HOH A 37 237 74 HOH HOH . K 6 HOH A 38 238 86 HOH HOH . K 6 HOH A 39 239 78 HOH HOH . K 6 HOH A 40 240 48 HOH HOH . K 6 HOH A 41 241 25 HOH HOH . K 6 HOH A 42 242 38 HOH HOH . K 6 HOH A 43 243 98 HOH HOH . K 6 HOH A 44 244 37 HOH HOH . K 6 HOH A 45 245 104 HOH HOH . K 6 HOH A 46 246 93 HOH HOH . K 6 HOH A 47 247 19 HOH HOH . K 6 HOH A 48 248 111 HOH HOH . K 6 HOH A 49 249 103 HOH HOH . K 6 HOH A 50 250 75 HOH HOH . K 6 HOH A 51 251 22 HOH HOH . K 6 HOH A 52 252 107 HOH HOH . K 6 HOH A 53 253 42 HOH HOH . K 6 HOH A 54 254 35 HOH HOH . K 6 HOH A 55 255 23 HOH HOH . K 6 HOH A 56 256 70 HOH HOH . K 6 HOH A 57 257 77 HOH HOH . K 6 HOH A 58 258 15 HOH HOH . K 6 HOH A 59 259 112 HOH HOH . K 6 HOH A 60 260 57 HOH HOH . L 6 HOH B 1 201 45 HOH HOH . L 6 HOH B 2 202 56 HOH HOH . L 6 HOH B 3 203 28 HOH HOH . L 6 HOH B 4 204 69 HOH HOH . L 6 HOH B 5 205 26 HOH HOH . L 6 HOH B 6 206 59 HOH HOH . L 6 HOH B 7 207 32 HOH HOH . L 6 HOH B 8 208 60 HOH HOH . L 6 HOH B 9 209 92 HOH HOH . L 6 HOH B 10 210 83 HOH HOH . L 6 HOH B 11 211 14 HOH HOH . L 6 HOH B 12 212 34 HOH HOH . L 6 HOH B 13 213 101 HOH HOH . L 6 HOH B 14 214 53 HOH HOH . L 6 HOH B 15 215 54 HOH HOH . L 6 HOH B 16 216 40 HOH HOH . L 6 HOH B 17 217 12 HOH HOH . L 6 HOH B 18 218 94 HOH HOH . L 6 HOH B 19 219 61 HOH HOH . L 6 HOH B 20 220 16 HOH HOH . L 6 HOH B 21 221 27 HOH HOH . L 6 HOH B 22 222 109 HOH HOH . L 6 HOH B 23 223 84 HOH HOH . L 6 HOH B 24 224 64 HOH HOH . L 6 HOH B 25 225 87 HOH HOH . L 6 HOH B 26 226 66 HOH HOH . L 6 HOH B 27 227 89 HOH HOH . L 6 HOH B 28 228 24 HOH HOH . L 6 HOH B 29 229 50 HOH HOH . L 6 HOH B 30 230 67 HOH HOH . L 6 HOH B 31 231 17 HOH HOH . L 6 HOH B 32 232 81 HOH HOH . L 6 HOH B 33 233 49 HOH HOH . L 6 HOH B 34 234 20 HOH HOH . L 6 HOH B 35 235 55 HOH HOH . L 6 HOH B 36 236 95 HOH HOH . L 6 HOH B 37 237 113 HOH HOH . L 6 HOH B 38 238 106 HOH HOH . L 6 HOH B 39 239 71 HOH HOH . L 6 HOH B 40 240 41 HOH HOH . L 6 HOH B 41 241 80 HOH HOH . L 6 HOH B 42 242 102 HOH HOH . L 6 HOH B 43 243 96 HOH HOH . L 6 HOH B 44 244 62 HOH HOH . L 6 HOH B 45 245 105 HOH HOH . L 6 HOH B 46 246 72 HOH HOH . L 6 HOH B 47 247 88 HOH HOH . L 6 HOH B 48 248 76 HOH HOH . L 6 HOH B 49 249 100 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol PT _atom_site.label_atom_id PT _atom_site.label_comp_id PT _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id I _atom_site.label_entity_id 3 _atom_site.Cartn_x 16.96 _atom_site.Cartn_y 14.743 _atom_site.Cartn_z 2.197 _atom_site.occupancy 0.25 _atom_site.B_iso_or_equiv 26.97 _atom_site.pdbx_formal_charge 0 _atom_site.auth_atom_id PT _atom_site.auth_comp_id PT _atom_site.auth_seq_id 101 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #