data_6RMC # _model_server_result.job_id dAlxzZgFr0OnQPw_c_Rs5w _model_server_result.datetime_utc '2024-11-20 08:29:36' _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 6rmc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":1001}' # _entry.id 6RMC # _exptl.entry_id 6RMC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 2 _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 6RMC _cell.length_a 74.73 _cell.length_b 113.69 _cell.length_c 191.74 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RMC _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,I,K 1 1 B,D,G,H,J,L 2 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 E N N ? 3 G 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 OG1 THR 61 A THR 327 1_555 F MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc2 E O1B ADP . A ADP 1001 1_555 F MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc3 F MG MG . A MG 1002 1_555 I O HOH . A HOH 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc4 F MG MG . A MG 1002 1_555 I O HOH . A HOH 1109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc5 F MG MG . A MG 1002 1_555 I O HOH . A HOH 1115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc6 F MG MG . A MG 1002 1_555 I O HOH . A HOH 1118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc7 B OG1 THR 61 B THR 327 1_555 H MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc8 G O3B ADP . B ADP 1001 1_555 H MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc9 H MG MG . B MG 1002 1_555 J O HOH . B HOH 1110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc10 H MG MG . B MG 1002 1_555 J O HOH . B HOH 1114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc11 H MG MG . B MG 1002 1_555 J O HOH . B HOH 1115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc12 H MG MG . B MG 1002 1_555 J O HOH . B HOH 1119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 6RMC _atom_sites.fract_transf_matrix[1][1] 0.013382 _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] 0.008796 _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] 0.005215 _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 E 3 ADP A 1 1001 1001 ADP ADP . F 4 MG A 1 1002 1002 MG MG . G 3 ADP B 1 1001 1001 ADP ADP . H 4 MG B 1 1002 1002 MG MG . I 5 HOH A 1 1101 1 HOH HOH . I 5 HOH A 2 1102 1114 HOH HOH . I 5 HOH A 3 1103 1118 HOH HOH . I 5 HOH A 4 1104 64 HOH HOH . I 5 HOH A 5 1105 27 HOH HOH . I 5 HOH A 6 1106 1110 HOH HOH . I 5 HOH A 7 1107 14 HOH HOH . I 5 HOH A 8 1108 63 HOH HOH . I 5 HOH A 9 1109 1112 HOH HOH . I 5 HOH A 10 1110 1116 HOH HOH . I 5 HOH A 11 1111 45 HOH HOH . I 5 HOH A 12 1112 55 HOH HOH . I 5 HOH A 13 1113 19 HOH HOH . I 5 HOH A 14 1114 12 HOH HOH . I 5 HOH A 15 1115 1113 HOH HOH . I 5 HOH A 16 1116 8 HOH HOH . I 5 HOH A 17 1117 1101 HOH HOH . I 5 HOH A 18 1118 2 HOH HOH . I 5 HOH A 19 1119 15 HOH HOH . I 5 HOH A 20 1120 301 HOH HOH . I 5 HOH A 21 1121 7 HOH HOH . I 5 HOH A 22 1122 1107 HOH HOH . I 5 HOH A 23 1123 1117 HOH HOH . I 5 HOH A 24 1124 80 HOH HOH . I 5 HOH A 25 1125 1106 HOH HOH . I 5 HOH A 26 1126 1104 HOH HOH . I 5 HOH A 27 1127 1111 HOH HOH . I 5 HOH A 28 1128 77 HOH HOH . I 5 HOH A 29 1129 20 HOH HOH . I 5 HOH A 30 1130 43 HOH HOH . I 5 HOH A 31 1131 75 HOH HOH . I 5 HOH A 32 1132 46 HOH HOH . I 5 HOH A 33 1133 1115 HOH HOH . I 5 HOH A 34 1134 1102 HOH HOH . I 5 HOH A 35 1135 1109 HOH HOH . I 5 HOH A 36 1136 76 HOH HOH . I 5 HOH A 37 1137 1103 HOH HOH . I 5 HOH A 38 1138 1105 HOH HOH . I 5 HOH A 39 1139 56 HOH HOH . I 5 HOH A 40 1140 57 HOH HOH . I 5 HOH A 41 1141 5 HOH HOH . I 5 HOH A 42 1142 1108 HOH HOH . I 5 HOH A 43 1143 41 HOH HOH . I 5 HOH A 44 1144 28 HOH HOH . I 5 HOH A 45 1145 65 HOH HOH . I 5 HOH A 46 1146 16 HOH HOH . I 5 HOH A 47 1147 42 HOH HOH . I 5 HOH A 48 1148 31 HOH HOH . I 5 HOH A 49 1149 53 HOH HOH . I 5 HOH A 50 1150 47 HOH HOH . I 5 HOH A 51 1151 26 HOH HOH . I 5 HOH A 52 1152 44 HOH HOH . I 5 HOH A 53 1153 54 HOH HOH . I 5 HOH A 54 1154 52 HOH HOH . I 5 HOH A 55 1155 32 HOH HOH . I 5 HOH A 56 1156 33 HOH HOH . J 5 HOH B 1 1101 1107 HOH HOH . J 5 HOH B 2 1102 70 HOH HOH . J 5 HOH B 3 1103 71 HOH HOH . J 5 HOH B 4 1104 73 HOH HOH . J 5 HOH B 5 1105 78 HOH HOH . J 5 HOH B 6 1106 1115 HOH HOH . J 5 HOH B 7 1107 10 HOH HOH . J 5 HOH B 8 1108 23 HOH HOH . J 5 HOH B 9 1109 39 HOH HOH . J 5 HOH B 10 1110 1109 HOH HOH . J 5 HOH B 11 1111 9 HOH HOH . J 5 HOH B 12 1112 21 HOH HOH . J 5 HOH B 13 1113 72 HOH HOH . J 5 HOH B 14 1114 1106 HOH HOH . J 5 HOH B 15 1115 1111 HOH HOH . J 5 HOH B 16 1116 40 HOH HOH . J 5 HOH B 17 1117 1108 HOH HOH . J 5 HOH B 18 1118 38 HOH HOH . J 5 HOH B 19 1119 1105 HOH HOH . J 5 HOH B 20 1120 4 HOH HOH . J 5 HOH B 21 1121 1102 HOH HOH . J 5 HOH B 22 1122 36 HOH HOH . J 5 HOH B 23 1123 22 HOH HOH . J 5 HOH B 24 1124 1114 HOH HOH . J 5 HOH B 25 1125 37 HOH HOH . J 5 HOH B 26 1126 59 HOH HOH . J 5 HOH B 27 1127 49 HOH HOH . J 5 HOH B 28 1128 1103 HOH HOH . J 5 HOH B 29 1129 1104 HOH HOH . J 5 HOH B 30 1130 1110 HOH HOH . J 5 HOH B 31 1131 34 HOH HOH . J 5 HOH B 32 1132 79 HOH HOH . J 5 HOH B 33 1133 1113 HOH HOH . J 5 HOH B 34 1134 24 HOH HOH . J 5 HOH B 35 1135 74 HOH HOH . J 5 HOH B 36 1136 1112 HOH HOH . J 5 HOH B 37 1137 51 HOH HOH . J 5 HOH B 38 1138 1101 HOH HOH . J 5 HOH B 39 1139 35 HOH HOH . J 5 HOH B 40 1140 1116 HOH HOH . J 5 HOH B 41 1141 61 HOH HOH . J 5 HOH B 42 1142 11 HOH HOH . J 5 HOH B 43 1143 48 HOH HOH . J 5 HOH B 44 1144 66 HOH HOH . J 5 HOH B 45 1145 69 HOH HOH . J 5 HOH B 46 1146 25 HOH HOH . J 5 HOH B 47 1147 30 HOH HOH . J 5 HOH B 48 1148 50 HOH HOH . J 5 HOH B 49 1149 18 HOH HOH . J 5 HOH B 50 1150 13 HOH HOH . J 5 HOH B 51 1151 67 HOH HOH . K 5 HOH C 1 301 17 HOH HOH . K 5 HOH C 2 302 302 HOH HOH . K 5 HOH C 3 303 6 HOH HOH . K 5 HOH C 4 304 60 HOH HOH . K 5 HOH C 5 305 58 HOH HOH . L 5 HOH D 1 301 62 HOH HOH . L 5 HOH D 2 302 301 HOH HOH . L 5 HOH D 3 303 29 HOH HOH . L 5 HOH D 4 304 68 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 P PB ADP . . . G 3 -7.091 16.678 11.323 1 69.14 ? PB ADP 1001 B 1 HETATM 2 O O1B ADP . . . G 3 -6.135 15.753 10.608 1 55.87 ? O1B ADP 1001 B 1 HETATM 3 O O2B ADP . . . G 3 -6.705 18.134 11.26 1 70.79 ? O2B ADP 1001 B 1 HETATM 4 O O3B ADP . . . G 3 -8.553 16.44 11.018 1 66.35 ? O3B ADP 1001 B 1 HETATM 5 P PA ADP . . . G 3 -7.922 15.354 13.692 1 61.4 ? PA ADP 1001 B 1 HETATM 6 O O1A ADP . . . G 3 -8.021 14.01 13.012 1 69.53 ? O1A ADP 1001 B 1 HETATM 7 O O2A ADP . . . G 3 -9.148 16.201 13.924 1 64.45 ? O2A ADP 1001 B 1 HETATM 8 O O3A ADP . . . G 3 -6.868 16.252 12.866 1 62.48 ? O3A ADP 1001 B 1 HETATM 9 O O5' ADP . . . G 3 -7.22 15.079 15.111 1 95.9 ? O5' ADP 1001 B 1 HETATM 10 C C5' ADP . . . G 3 -6.018 15.728 15.508 1 94.42 ? C5' ADP 1001 B 1 HETATM 11 C C4' ADP . . . G 3 -5.548 15.039 16.781 1 90.22 ? C4' ADP 1001 B 1 HETATM 12 O O4' ADP . . . G 3 -6.601 14.209 17.279 1 86.74 ? O4' ADP 1001 B 1 HETATM 13 C C3' ADP . . . G 3 -4.345 14.146 16.527 1 89.81 ? C3' ADP 1001 B 1 HETATM 14 O O3' ADP . . . G 3 -3.221 14.64 17.26 1 88.8 ? O3' ADP 1001 B 1 HETATM 15 C C2' ADP . . . G 3 -4.733 12.773 17.036 1 89.34 ? C2' ADP 1001 B 1 HETATM 16 O O2' ADP . . . G 3 -3.774 12.309 17.988 1 95.11 ? O2' ADP 1001 B 1 HETATM 17 C C1' ADP . . . G 3 -6.087 12.944 17.703 1 85.57 ? C1' ADP 1001 B 1 HETATM 18 N N9 ADP . . . G 3 -6.992 11.839 17.296 1 78.71 ? N9 ADP 1001 B 1 HETATM 19 C C8 ADP . . . G 3 -7.836 11.851 16.247 1 77.59 ? C8 ADP 1001 B 1 HETATM 20 N N7 ADP . . . G 3 -8.517 10.681 16.155 1 78.55 ? N7 ADP 1001 B 1 HETATM 21 C C5 ADP . . . G 3 -8.108 9.891 17.164 1 75.87 ? C5 ADP 1001 B 1 HETATM 22 C C6 ADP . . . G 3 -8.425 8.527 17.648 1 70.33 ? C6 ADP 1001 B 1 HETATM 23 N N6 ADP . . . G 3 -9.34 7.753 17.014 1 68.14 ? N6 ADP 1001 B 1 HETATM 24 N N1 ADP . . . G 3 -7.768 8.081 18.743 1 68.78 ? N1 ADP 1001 B 1 HETATM 25 C C2 ADP . . . G 3 -6.858 8.841 19.379 1 70.58 ? C2 ADP 1001 B 1 HETATM 26 N N3 ADP . . . G 3 -6.525 10.086 18.995 1 73.11 ? N3 ADP 1001 B 1 HETATM 27 C C4 ADP . . . G 3 -7.104 10.66 17.913 1 76.37 ? C4 ADP 1001 B 1 # _model_server_stats.io_time_ms 126 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #