data_4GA3 # _model_server_result.job_id cN-ONc25KBmTtjKSaWNzFA _model_server_result.datetime_utc '2024-11-19 18:24:31' _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 4ga3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1001}' # _entry.id 4GA3 # _exptl.entry_id 4GA3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 329.204 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-butyl-3-(2-hydroxy-2,2-diphosphonoethyl)-1H-imidazol-3-ium _entity.pdbx_number_of_molecules 1 _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 4GA3 _cell.length_a 112.29 _cell.length_b 112.29 _cell.length_c 68.553 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4GA3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 8_665 -y+1,-x+1,-z+1/2 0 -1 0 -1 0 0 0 0 -1 112.29 112.29 34.2765 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 OD2 ASP 98 A ASP 103 1_555 D MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc2 A OD1 ASP 98 A ASP 103 1_555 E MG MG . A MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? metalc ? metalc3 A OD2 ASP 102 A ASP 107 1_555 D MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? metalc ? metalc4 A OD2 ASP 102 A ASP 107 1_555 E MG MG . A MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc5 A OD2 ASP 238 A ASP 243 1_555 C MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? metalc ? metalc6 B OAG 4GA . A 4GA 1001 1_555 C MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? metalc ? metalc7 B OAD 4GA . A 4GA 1001 1_555 C MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc8 B OAE 4GA . A 4GA 1001 1_555 C MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? metalc ? metalc9 B OAH 4GA . A 4GA 1001 1_555 D MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc10 B OAB 4GA . A 4GA 1001 1_555 E MG MG . A MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? metalc ? metalc11 B OAH 4GA . A 4GA 1001 1_555 E MG MG . A MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? metalc ? metalc12 C MG MG . A MG 1002 1_555 H O HOH . A HOH 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? metalc ? metalc13 C MG MG . A MG 1002 1_555 H O HOH . A HOH 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc14 C MG MG . A MG 1002 1_555 H O HOH . A HOH 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc15 D MG MG . A MG 1003 1_555 H O HOH . A HOH 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc16 D MG MG . A MG 1003 1_555 H O HOH . A HOH 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.886 ? metalc ? metalc17 E MG MG . A MG 1004 1_555 H O HOH . A HOH 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc18 E MG MG . A MG 1004 1_555 H O HOH . A HOH 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? # _chem_comp.formula 'C9 H19 N2 O7 P2 1' _chem_comp.formula_weight 329.204 _chem_comp.id 4GA _chem_comp.mon_nstd_flag . _chem_comp.name 1-butyl-3-(2-hydroxy-2,2-diphosphonoethyl)-1H-imidazol-3-ium _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag CAA CAL 4GA sing 1 n n CAA HAA 4GA sing 2 n n CAA HAAA 4GA sing 3 n n CAA HAAB 4GA sing 4 n n OAB PAS 4GA sing 5 n n OAB HOAB 4GA sing 6 n n OAC HOAC 4GA sing 7 n n OAD HOAD 4GA sing 8 n n OAE HOAE 4GA sing 9 n n OAF PAS 4GA doub 10 n n OAG HOAG 4GA sing 11 n n OAH PAT 4GA doub 12 n n CAI NAP 4GA sing 13 n y CAI HAI 4GA sing 14 n n CAJ CAI 4GA doub 15 n y CAJ NAQ 4GA sing 16 n y CAJ HAJ 4GA sing 17 n n CAK HAK 4GA sing 18 n n CAL CAM 4GA sing 19 n n CAL HAL 4GA sing 20 n n CAL HALA 4GA sing 21 n n CAM CAN 4GA sing 22 n n CAM HAM 4GA sing 23 n n CAM HAMA 4GA sing 24 n n CAN HAN 4GA sing 25 n n CAN HANA 4GA sing 26 n n CAO CAR 4GA sing 27 n n CAO HAO 4GA sing 28 n n CAO HAOA 4GA sing 29 n n NAP CAK 4GA sing 30 n y NAP CAN 4GA sing 31 n n NAQ CAK 4GA doub 32 n y NAQ CAO 4GA sing 33 n n CAR OAD 4GA sing 34 n n CAR PAT 4GA sing 35 n n PAS OAE 4GA sing 36 n n PAS CAR 4GA sing 37 n n PAT OAC 4GA sing 38 n n PAT OAG 4GA sing 39 n n # _atom_sites.entry_id 4GA3 _atom_sites.fract_transf_matrix[1][1] 0.008906 _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] 0.008906 _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] 0.014587 _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 B 2 4GA A 1 1001 1001 4GA DRG . C 3 MG A 1 1002 2001 MG MG . D 3 MG A 1 1003 3001 MG MG . E 3 MG A 1 1004 4001 MG MG . F 4 PO4 A 1 1005 5001 PO4 PO4 . G 4 PO4 A 1 1006 5002 PO4 PO4 . H 5 HOH A 1 1101 1 HOH HOH . H 5 HOH A 2 1102 2 HOH HOH . H 5 HOH A 3 1103 3 HOH HOH . H 5 HOH A 4 1104 4 HOH HOH . H 5 HOH A 5 1105 5 HOH HOH . H 5 HOH A 6 1106 6 HOH HOH . H 5 HOH A 7 1107 7 HOH HOH . H 5 HOH A 8 1108 8 HOH HOH . H 5 HOH A 9 1109 9 HOH HOH . H 5 HOH A 10 1110 10 HOH HOH . H 5 HOH A 11 1111 11 HOH HOH . H 5 HOH A 12 1112 12 HOH HOH . H 5 HOH A 13 1113 13 HOH HOH . H 5 HOH A 14 1114 14 HOH HOH . H 5 HOH A 15 1115 15 HOH HOH . H 5 HOH A 16 1116 16 HOH HOH . H 5 HOH A 17 1117 17 HOH HOH . H 5 HOH A 18 1118 18 HOH HOH . H 5 HOH A 19 1119 19 HOH HOH . H 5 HOH A 20 1120 20 HOH HOH . H 5 HOH A 21 1121 21 HOH HOH . H 5 HOH A 22 1122 22 HOH HOH . H 5 HOH A 23 1123 23 HOH HOH . H 5 HOH A 24 1124 24 HOH HOH . H 5 HOH A 25 1125 25 HOH HOH . H 5 HOH A 26 1126 26 HOH HOH . H 5 HOH A 27 1127 27 HOH HOH . H 5 HOH A 28 1128 28 HOH HOH . H 5 HOH A 29 1129 29 HOH HOH . H 5 HOH A 30 1130 30 HOH HOH . H 5 HOH A 31 1131 31 HOH HOH . H 5 HOH A 32 1132 32 HOH HOH . H 5 HOH A 33 1133 33 HOH HOH . H 5 HOH A 34 1134 34 HOH HOH . H 5 HOH A 35 1135 35 HOH HOH . H 5 HOH A 36 1136 36 HOH HOH . H 5 HOH A 37 1137 37 HOH HOH . H 5 HOH A 38 1138 38 HOH HOH . H 5 HOH A 39 1139 39 HOH HOH . H 5 HOH A 40 1140 40 HOH HOH . H 5 HOH A 41 1141 41 HOH HOH . H 5 HOH A 42 1142 42 HOH HOH . H 5 HOH A 43 1143 43 HOH HOH . H 5 HOH A 44 1144 44 HOH HOH . H 5 HOH A 45 1145 45 HOH HOH . H 5 HOH A 46 1146 46 HOH HOH . H 5 HOH A 47 1147 47 HOH HOH . H 5 HOH A 48 1148 48 HOH HOH . H 5 HOH A 49 1149 49 HOH HOH . H 5 HOH A 50 1150 50 HOH HOH . H 5 HOH A 51 1151 51 HOH HOH . H 5 HOH A 52 1152 52 HOH HOH . H 5 HOH A 53 1153 53 HOH HOH . H 5 HOH A 54 1154 54 HOH HOH . H 5 HOH A 55 1155 55 HOH HOH . H 5 HOH A 56 1156 56 HOH HOH . H 5 HOH A 57 1157 57 HOH HOH . H 5 HOH A 58 1158 58 HOH HOH . H 5 HOH A 59 1159 59 HOH HOH . H 5 HOH A 60 1160 60 HOH HOH . H 5 HOH A 61 1161 61 HOH HOH . H 5 HOH A 62 1162 62 HOH HOH . H 5 HOH A 63 1163 63 HOH HOH . H 5 HOH A 64 1164 64 HOH HOH . H 5 HOH A 65 1165 65 HOH HOH . H 5 HOH A 66 1166 66 HOH HOH . H 5 HOH A 67 1167 67 HOH HOH . H 5 HOH A 68 1168 68 HOH HOH . H 5 HOH A 69 1169 69 HOH HOH . H 5 HOH A 70 1170 70 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C CAA 4GA . . . B 2 17.486 84.493 23.935 1 38.83 ? CAA 4GA 1001 A 1 HETATM 2 O OAB 4GA . . . B 2 17.198 76.074 24.234 1 26.05 ? OAB 4GA 1001 A 1 HETATM 3 O OAC 4GA . . . B 2 16.671 79.123 27.885 1 28.18 ? OAC 4GA 1001 A 1 HETATM 4 O OAD 4GA . . . B 2 14.89 76.436 27.364 1 42.8 ? OAD 4GA 1001 A 1 HETATM 5 O OAE 4GA . . . B 2 15.43 74.718 25.505 1 24.9 ? OAE 4GA 1001 A 1 HETATM 6 O OAF 4GA . . . B 2 14.697 76.338 23.786 1 29.52 ? OAF 4GA 1001 A 1 HETATM 7 O OAG 4GA . . . B 2 17.046 76.582 27.855 1 25.28 ? OAG 4GA 1001 A 1 HETATM 8 O OAH 4GA . . . B 2 18.444 77.777 26.241 1 21.01 ? OAH 4GA 1001 A 1 HETATM 9 C CAI 4GA . . . B 2 16.039 80.785 24.833 1 31.22 ? CAI 4GA 1001 A 1 HETATM 10 C CAJ 4GA . . . B 2 15.83 79.444 24.743 1 31.31 ? CAJ 4GA 1001 A 1 HETATM 11 C CAK 4GA . . . B 2 14.428 80.38 26.164 1 31.26 ? CAK 4GA 1001 A 1 HETATM 12 C CAL 4GA . . . B 2 16.086 83.993 24.407 1 35.63 ? CAL 4GA 1001 A 1 HETATM 13 C CAM 4GA . . . B 2 16.225 83.428 25.817 1 30.53 ? CAM 4GA 1001 A 1 HETATM 14 C CAN 4GA . . . B 2 14.984 82.64 26.159 1 31.53 ? CAN 4GA 1001 A 1 HETATM 15 C CAO 4GA . . . B 2 14.231 78.001 25.962 1 31.61 ? CAO 4GA 1001 A 1 HETATM 16 N NAP 4GA . . . B 2 15.188 81.318 25.717 1 30.3 ? NAP 4GA 1001 A 1 HETATM 17 N NAQ 4GA . . . B 2 14.846 79.232 25.575 1 33.3 ? NAQ 4GA 1001 A 1 HETATM 18 C CAR 4GA . . . B 2 15.394 77.195 26.282 1 28.89 ? CAR 4GA 1001 A 1 HETATM 19 P PAS 4GA . . . B 2 15.794 76.097 24.818 1 26.14 ? PAS 4GA 1001 A 1 HETATM 20 P PAT 4GA . . . B 2 16.892 77.946 27.021 1 26.12 ? PAT 4GA 1001 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 20 #