data_3DO1 # _model_server_result.job_id pgto5_xvfLQl0iiPI5N2yw _model_server_result.datetime_utc '2024-12-04 21:49:45' _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 3do1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":404}' # _entry.id 3DO1 # _exptl.entry_id 3DO1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _entity.pdbx_number_of_molecules 4 _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 120 _cell.entry_id 3DO1 _cell.length_a 92.526 _cell.length_b 92.526 _cell.length_c 128.553 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3DO1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E 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 covale ? covale1 G C VAL . A VAL 1001 1_555 H N LYS . A LYS 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? metalc ? metalc1 A OD1 ASP 57 A ASP 57 1_555 D CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc2 A OD2 ASP 57 A ASP 57 1_555 D CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.58 ? metalc ? metalc3 A OD1 ASP 59 A ASP 59 1_555 D CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc4 A O GLN 61 A GLN 61 1_555 D CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc5 A OD2 ASP 138 A ASP 138 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? metalc ? metalc6 A NE2 HIS 142 A HIS 142 1_555 F ZN ZN . A ZN 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? metalc ? metalc7 A NE2 HIS 146 A HIS 146 1_555 F ZN ZN . A ZN 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc8 A OE2 GLU 166 A GLU 166 1_555 F ZN ZN . A ZN 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.931 ? metalc ? metalc9 A OE1 GLU 177 A GLU 177 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? metalc ? metalc10 A OE2 GLU 177 A GLU 177 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.873 ? metalc ? metalc11 A OE2 GLU 177 A GLU 177 1_555 C CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc12 A O ASN 183 A ASN 183 1_555 C CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? metalc ? metalc13 A OD1 ASP 185 A ASP 185 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? metalc ? metalc14 A OD2 ASP 185 A ASP 185 1_555 C CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc15 A O GLU 187 A GLU 187 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc16 A OE1 GLU 190 A GLU 190 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? metalc ? metalc17 A OE2 GLU 190 A GLU 190 1_555 B CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.506 ? metalc ? metalc18 A OE2 GLU 190 A GLU 190 1_555 C CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc19 A O TYR 193 A TYR 193 1_555 E CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? metalc ? metalc20 A O THR 194 A THR 194 1_555 E CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc21 A OG1 THR 194 A THR 194 1_555 E CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.436 ? metalc ? metalc22 A O ILE 197 A ILE 197 1_555 E CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc23 A OD1 ASP 200 A ASP 200 1_555 E CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc24 B CA CA . A CA 401 1_555 I O HOH . A HOH 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? metalc ? metalc25 C CA CA . A CA 402 1_555 I O HOH . A HOH 1019 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.544 ? metalc ? metalc26 C CA CA . A CA 402 1_555 I O HOH . A HOH 1030 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc27 D CA CA . A CA 403 1_555 I O HOH . A HOH 1014 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? metalc ? metalc28 D CA CA . A CA 403 1_555 I O HOH . A HOH 1016 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc29 D CA CA . A CA 403 1_555 I O HOH . A HOH 1021 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? metalc ? metalc30 E CA CA . A CA 404 1_555 I O HOH . A HOH 1009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? metalc ? metalc31 E CA CA . A CA 404 1_555 I O HOH . A HOH 1051 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.519 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3DO1 _atom_sites.fract_transf_matrix[1][1] 0.010808 _atom_sites.fract_transf_matrix[1][2] 0.00624 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01248 _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] 0.007779 _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 CA A 1 401 401 CA CA . C 2 CA A 1 402 402 CA CA . D 2 CA A 1 403 403 CA CA . E 2 CA A 1 404 404 CA CA . F 3 ZN A 1 405 405 ZN ZN . G 4 VAL A 1 1001 1001 VAL VAL . H 5 LYS A 1 1002 1002 LYS LYS . I 6 HOH A 1 1003 1 HOH HOH . I 6 HOH A 2 1004 2 HOH HOH . I 6 HOH A 3 1005 3 HOH HOH . I 6 HOH A 4 1006 4 HOH HOH . I 6 HOH A 5 1007 5 HOH HOH . I 6 HOH A 6 1008 6 HOH HOH . I 6 HOH A 7 1009 7 HOH HOH . I 6 HOH A 8 1010 8 HOH HOH . I 6 HOH A 9 1011 9 HOH HOH . I 6 HOH A 10 1012 10 HOH HOH . I 6 HOH A 11 1013 11 HOH HOH . I 6 HOH A 12 1014 12 HOH HOH . I 6 HOH A 13 1015 13 HOH HOH . I 6 HOH A 14 1016 14 HOH HOH . I 6 HOH A 15 1017 15 HOH HOH . I 6 HOH A 16 1018 16 HOH HOH . I 6 HOH A 17 1019 17 HOH HOH . I 6 HOH A 18 1020 18 HOH HOH . I 6 HOH A 19 1021 19 HOH HOH . I 6 HOH A 20 1022 20 HOH HOH . I 6 HOH A 21 1023 21 HOH HOH . I 6 HOH A 22 1024 22 HOH HOH . I 6 HOH A 23 1025 23 HOH HOH . I 6 HOH A 24 1026 24 HOH HOH . I 6 HOH A 25 1027 25 HOH HOH . I 6 HOH A 26 1028 26 HOH HOH . I 6 HOH A 27 1029 27 HOH HOH . I 6 HOH A 28 1030 28 HOH HOH . I 6 HOH A 29 1031 29 HOH HOH . I 6 HOH A 30 1032 30 HOH HOH . I 6 HOH A 31 1033 31 HOH HOH . I 6 HOH A 32 1034 32 HOH HOH . I 6 HOH A 33 1035 33 HOH HOH . I 6 HOH A 34 1036 34 HOH HOH . I 6 HOH A 35 1037 35 HOH HOH . I 6 HOH A 36 1038 36 HOH HOH . I 6 HOH A 37 1039 37 HOH HOH . I 6 HOH A 38 1040 38 HOH HOH . I 6 HOH A 39 1041 39 HOH HOH . I 6 HOH A 40 1042 40 HOH HOH . I 6 HOH A 41 1043 41 HOH HOH . I 6 HOH A 42 1044 42 HOH HOH . I 6 HOH A 43 1045 43 HOH HOH . I 6 HOH A 44 1046 44 HOH HOH . I 6 HOH A 45 1047 45 HOH HOH . I 6 HOH A 46 1048 46 HOH HOH . I 6 HOH A 47 1049 47 HOH HOH . I 6 HOH A 48 1050 48 HOH HOH . I 6 HOH A 49 1051 49 HOH HOH . I 6 HOH A 50 1052 50 HOH HOH . I 6 HOH A 51 1053 51 HOH HOH . I 6 HOH A 52 1054 52 HOH HOH . I 6 HOH A 53 1055 53 HOH HOH . I 6 HOH A 54 1056 54 HOH HOH . I 6 HOH A 55 1057 55 HOH HOH . I 6 HOH A 56 1058 56 HOH HOH . I 6 HOH A 57 1059 57 HOH HOH . I 6 HOH A 58 1060 58 HOH HOH . I 6 HOH A 59 1061 59 HOH HOH . I 6 HOH A 60 1062 60 HOH HOH . I 6 HOH A 61 1063 61 HOH HOH . I 6 HOH A 62 1064 62 HOH HOH . I 6 HOH A 63 1065 63 HOH HOH . I 6 HOH A 64 1066 64 HOH HOH . I 6 HOH A 65 1067 65 HOH HOH . I 6 HOH A 66 1068 66 HOH HOH . I 6 HOH A 67 1069 67 HOH HOH . I 6 HOH A 68 1070 68 HOH HOH . I 6 HOH A 69 1071 69 HOH HOH . I 6 HOH A 70 1072 70 HOH HOH . I 6 HOH A 71 1073 71 HOH HOH . I 6 HOH A 72 1074 73 HOH HOH . I 6 HOH A 73 1075 74 HOH HOH . I 6 HOH A 74 1076 75 HOH HOH . I 6 HOH A 75 1077 76 HOH HOH . I 6 HOH A 76 1078 77 HOH HOH . I 6 HOH A 77 1079 78 HOH HOH . I 6 HOH A 78 1080 79 HOH HOH . I 6 HOH A 79 1081 80 HOH HOH . I 6 HOH A 80 1082 81 HOH HOH . I 6 HOH A 81 1083 82 HOH HOH . I 6 HOH A 82 1084 83 HOH HOH . I 6 HOH A 83 1085 84 HOH HOH . I 6 HOH A 84 1086 85 HOH HOH . I 6 HOH A 85 1087 86 HOH HOH . I 6 HOH A 86 1088 87 HOH HOH . I 6 HOH A 87 1089 88 HOH HOH . I 6 HOH A 88 1090 89 HOH HOH . I 6 HOH A 89 1091 90 HOH HOH . I 6 HOH A 90 1092 91 HOH HOH . I 6 HOH A 91 1093 92 HOH HOH . I 6 HOH A 92 1094 93 HOH HOH . I 6 HOH A 93 1095 94 HOH HOH . I 6 HOH A 94 1096 95 HOH HOH . I 6 HOH A 95 1097 96 HOH HOH . I 6 HOH A 96 1098 97 HOH HOH . I 6 HOH A 97 1099 98 HOH HOH . I 6 HOH A 98 1100 99 HOH HOH . I 6 HOH A 99 1101 100 HOH HOH . I 6 HOH A 100 1102 101 HOH HOH . I 6 HOH A 101 1103 102 HOH HOH . I 6 HOH A 102 1104 103 HOH HOH . I 6 HOH A 103 1105 104 HOH HOH . I 6 HOH A 104 1106 105 HOH HOH . I 6 HOH A 105 1107 106 HOH HOH . I 6 HOH A 106 1108 107 HOH HOH . I 6 HOH A 107 1109 108 HOH HOH . I 6 HOH A 108 1110 109 HOH HOH . I 6 HOH A 109 1111 110 HOH HOH . I 6 HOH A 110 1112 115 HOH HOH . I 6 HOH A 111 1113 118 HOH HOH . I 6 HOH A 112 1114 119 HOH HOH . I 6 HOH A 113 1115 121 HOH HOH . I 6 HOH A 114 1116 123 HOH HOH . I 6 HOH A 115 1117 124 HOH HOH . I 6 HOH A 116 1118 125 HOH HOH . I 6 HOH A 117 1119 126 HOH HOH . I 6 HOH A 118 1120 127 HOH HOH . I 6 HOH A 119 1121 128 HOH HOH . I 6 HOH A 120 1122 130 HOH HOH . I 6 HOH A 121 1123 131 HOH HOH . I 6 HOH A 122 1124 132 HOH HOH . I 6 HOH A 123 1125 133 HOH HOH . I 6 HOH A 124 1126 134 HOH HOH . I 6 HOH A 125 1127 135 HOH HOH . I 6 HOH A 126 1128 137 HOH HOH . I 6 HOH A 127 1129 138 HOH HOH . I 6 HOH A 128 1130 139 HOH HOH . I 6 HOH A 129 1131 141 HOH HOH . I 6 HOH A 130 1132 142 HOH HOH . I 6 HOH A 131 1133 144 HOH HOH . I 6 HOH A 132 1134 148 HOH HOH . I 6 HOH A 133 1135 150 HOH HOH . I 6 HOH A 134 1136 152 HOH HOH . I 6 HOH A 135 1137 156 HOH HOH . I 6 HOH A 136 1138 157 HOH HOH . I 6 HOH A 137 1139 159 HOH HOH . I 6 HOH A 138 1140 163 HOH HOH . I 6 HOH A 139 1141 164 HOH HOH . I 6 HOH A 140 1142 166 HOH HOH . I 6 HOH A 141 1143 167 HOH HOH . I 6 HOH A 142 1144 169 HOH HOH . I 6 HOH A 143 1145 172 HOH HOH . I 6 HOH A 144 1146 173 HOH HOH . I 6 HOH A 145 1147 174 HOH HOH . I 6 HOH A 146 1148 175 HOH HOH . I 6 HOH A 147 1149 176 HOH HOH . I 6 HOH A 148 1150 177 HOH HOH . I 6 HOH A 149 1151 178 HOH HOH . I 6 HOH A 150 1152 179 HOH HOH . I 6 HOH A 151 1153 180 HOH HOH . I 6 HOH A 152 1154 181 HOH HOH . I 6 HOH A 153 1155 182 HOH HOH . I 6 HOH A 154 1156 183 HOH HOH . I 6 HOH A 155 1157 184 HOH HOH . I 6 HOH A 156 1158 186 HOH HOH . I 6 HOH A 157 1159 190 HOH HOH . I 6 HOH A 158 1160 192 HOH HOH . I 6 HOH A 159 1161 194 HOH HOH . I 6 HOH A 160 1162 195 HOH HOH . I 6 HOH A 161 1163 196 HOH HOH . I 6 HOH A 162 1164 198 HOH HOH . I 6 HOH A 163 1165 200 HOH HOH . I 6 HOH A 164 1166 203 HOH HOH . I 6 HOH A 165 1167 205 HOH HOH . I 6 HOH A 166 1168 206 HOH HOH . I 6 HOH A 167 1169 207 HOH HOH . I 6 HOH A 168 1170 208 HOH HOH . I 6 HOH A 169 1171 209 HOH HOH . I 6 HOH A 170 1172 210 HOH HOH . I 6 HOH A 171 1173 211 HOH HOH . I 6 HOH A 172 1174 212 HOH HOH . I 6 HOH A 173 1175 213 HOH HOH . I 6 HOH A 174 1176 214 HOH HOH . I 6 HOH A 175 1177 217 HOH HOH . I 6 HOH A 176 1178 219 HOH HOH . I 6 HOH A 177 1179 220 HOH HOH . I 6 HOH A 178 1180 222 HOH HOH . I 6 HOH A 179 1181 226 HOH HOH . I 6 HOH A 180 1182 227 HOH HOH . I 6 HOH A 181 1183 228 HOH HOH . I 6 HOH A 182 1184 229 HOH HOH . I 6 HOH A 183 1185 230 HOH HOH . I 6 HOH A 184 1186 231 HOH HOH . I 6 HOH A 185 1187 232 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id E _atom_site.label_entity_id 2 _atom_site.Cartn_x 42.571 _atom_site.Cartn_y 39.284 _atom_site.Cartn_z 74.764 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 22.12 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 404 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 264 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 1 #