data_3B8Y # _model_server_result.job_id Y74QJCILG_hCCkcgrmVdJg _model_server_result.datetime_utc '2024-12-02 05:17:57' _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 3b8y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":701}' # _entry.id 3B8Y # _exptl.entry_id 3B8Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _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 113.98 _cell.angle_gamma 90 _cell.entry_id 3B8Y _cell.length_a 61.15 _cell.length_b 68.68 _cell.length_c 73.36 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3B8Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,G 1 1 B,D,E,F,H 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 ADA ADA C1 O1 . O4 HO4 . sing 2 ? 2 3 2 ADA ADA C1 O1 . O4 HO4 . sing 3 ? 2 4 3 ADA ADA C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n C ADA 1 C 1 ADA ? 901 ADA 2 n C ADA 2 C 2 ADA ? 902 ADA 2 n C ADA 3 C 3 ADA ? 903 ADA 2 n C ADA 4 C 4 ADA ? 904 ADA 2 n D ADA 1 D 1 ADA ? 911 ADA 2 n D ADA 2 D 2 ADA ? 912 ADA 2 n D ADA 3 D 3 ADA ? 913 ADA 2 n D ADA 4 D 4 ADA ? 914 ADA # 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 disulf ? disulf1 A SG CYS 121 A CYS 121 1_555 A SG CYS 134 A CYS 134 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf2 A SG CYS 143 A CYS 143 1_555 A SG CYS 193 A CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 A SG CYS 177 A CYS 177 1_555 A SG CYS 182 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 A SG CYS 254 A CYS 254 1_555 A SG CYS 257 A CYS 257 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 A SG CYS 309 A CYS 309 1_555 A SG CYS 334 A CYS 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf6 B SG CYS 121 B CYS 121 1_555 B SG CYS 134 B CYS 134 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf7 B SG CYS 143 B CYS 143 1_555 B SG CYS 193 B CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 B SG CYS 177 B CYS 177 1_555 B SG CYS 182 B CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf9 B SG CYS 254 B CYS 254 1_555 B SG CYS 257 B CYS 257 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf10 B SG CYS 309 B CYS 309 1_555 B SG CYS 334 B CYS 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 C O4 ADA . C ADA 1 1_555 C C1 ADA . C ADA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.408 ? covale ? covale2 C O4 ADA . C ADA 2 1_555 C C1 ADA . C ADA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 ? covale ? covale3 C O4 ADA . C ADA 3 1_555 C C1 ADA . C ADA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.405 ? covale ? covale4 D O4 ADA . D ADA 1 1_555 D C1 ADA . D ADA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.412 ? covale ? covale5 D O4 ADA . D ADA 2 1_555 D C1 ADA . D ADA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 ? covale ? covale6 D O4 ADA . D ADA 3 1_555 D C1 ADA . D ADA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.412 ? metalc ? metalc1 B OD2 ASP 178 B ASP 178 1_555 F ZN ZN . B ZN 711 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc2 B OD2 ASP 191 B ASP 191 1_555 E CA CA . B CA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? metalc ? metalc3 B O ILE 192 B ILE 192 1_555 E CA CA . B CA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc4 B OD1 ASN 213 B ASN 213 1_555 E CA CA . B CA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? # _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 3B8Y _atom_sites.fract_transf_matrix[1][1] 0.016353 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007275 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01456 _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] 0.014919 _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 CA B 1 701 701 CA CA . F 4 ZN B 1 711 711 ZN ZN . G 5 HOH A 1 1001 1001 HOH HOH . G 5 HOH A 2 1002 1002 HOH HOH . G 5 HOH A 3 1005 1005 HOH HOH . G 5 HOH A 4 1006 1006 HOH HOH . G 5 HOH A 5 1007 1007 HOH HOH . G 5 HOH A 6 1009 1009 HOH HOH . G 5 HOH A 7 1010 1010 HOH HOH . G 5 HOH A 8 1014 1014 HOH HOH . G 5 HOH A 9 1015 1015 HOH HOH . G 5 HOH A 10 1018 1018 HOH HOH . G 5 HOH A 11 1019 1019 HOH HOH . G 5 HOH A 12 1020 1020 HOH HOH . G 5 HOH A 13 1021 1021 HOH HOH . G 5 HOH A 14 1023 1023 HOH HOH . G 5 HOH A 15 1024 1024 HOH HOH . G 5 HOH A 16 1026 1026 HOH HOH . G 5 HOH A 17 1028 1028 HOH HOH . G 5 HOH A 18 1029 1029 HOH HOH . G 5 HOH A 19 1031 1031 HOH HOH . G 5 HOH A 20 1032 1032 HOH HOH . G 5 HOH A 21 1034 1034 HOH HOH . G 5 HOH A 22 1035 1035 HOH HOH . G 5 HOH A 23 1036 1036 HOH HOH . G 5 HOH A 24 1037 1037 HOH HOH . G 5 HOH A 25 1039 1039 HOH HOH . G 5 HOH A 26 1041 1041 HOH HOH . G 5 HOH A 27 1042 1042 HOH HOH . G 5 HOH A 28 1043 1043 HOH HOH . G 5 HOH A 29 1044 1044 HOH HOH . G 5 HOH A 30 1045 1045 HOH HOH . G 5 HOH A 31 1046 1046 HOH HOH . G 5 HOH A 32 1047 1047 HOH HOH . G 5 HOH A 33 1049 1049 HOH HOH . G 5 HOH A 34 1051 1051 HOH HOH . G 5 HOH A 35 1055 1055 HOH HOH . G 5 HOH A 36 1056 1056 HOH HOH . G 5 HOH A 37 1057 1057 HOH HOH . G 5 HOH A 38 1059 1059 HOH HOH . G 5 HOH A 39 1060 1060 HOH HOH . G 5 HOH A 40 1063 1063 HOH HOH . G 5 HOH A 41 1067 1067 HOH HOH . G 5 HOH A 42 1068 1068 HOH HOH . G 5 HOH A 43 1069 1069 HOH HOH . G 5 HOH A 44 1070 1070 HOH HOH . G 5 HOH A 45 1071 1071 HOH HOH . G 5 HOH A 46 1072 1072 HOH HOH . G 5 HOH A 47 1073 1073 HOH HOH . G 5 HOH A 48 1074 1074 HOH HOH . G 5 HOH A 49 1075 1075 HOH HOH . G 5 HOH A 50 1081 1081 HOH HOH . G 5 HOH A 51 1083 1083 HOH HOH . G 5 HOH A 52 1085 1085 HOH HOH . G 5 HOH A 53 1086 1086 HOH HOH . G 5 HOH A 54 1087 1087 HOH HOH . G 5 HOH A 55 1088 1088 HOH HOH . G 5 HOH A 56 1089 1089 HOH HOH . G 5 HOH A 57 1090 1090 HOH HOH . G 5 HOH A 58 1094 1094 HOH HOH . G 5 HOH A 59 1095 1095 HOH HOH . G 5 HOH A 60 1096 1096 HOH HOH . G 5 HOH A 61 1098 1098 HOH HOH . G 5 HOH A 62 1099 1099 HOH HOH . G 5 HOH A 63 1100 1100 HOH HOH . G 5 HOH A 64 1101 1101 HOH HOH . G 5 HOH A 65 1102 1102 HOH HOH . G 5 HOH A 66 1103 1103 HOH HOH . G 5 HOH A 67 1104 1104 HOH HOH . G 5 HOH A 68 1106 1106 HOH HOH . G 5 HOH A 69 1107 1107 HOH HOH . G 5 HOH A 70 1111 1111 HOH HOH . G 5 HOH A 71 1112 1112 HOH HOH . G 5 HOH A 72 1113 1113 HOH HOH . G 5 HOH A 73 1115 1115 HOH HOH . G 5 HOH A 74 1118 1118 HOH HOH . G 5 HOH A 75 1119 1119 HOH HOH . G 5 HOH A 76 1120 1120 HOH HOH . G 5 HOH A 77 1124 1124 HOH HOH . G 5 HOH A 78 1125 1125 HOH HOH . G 5 HOH A 79 1126 1126 HOH HOH . G 5 HOH A 80 1127 1127 HOH HOH . G 5 HOH A 81 1128 1128 HOH HOH . G 5 HOH A 82 1129 1129 HOH HOH . G 5 HOH A 83 1135 1135 HOH HOH . G 5 HOH A 84 1136 1136 HOH HOH . G 5 HOH A 85 1137 1137 HOH HOH . G 5 HOH A 86 1142 1142 HOH HOH . G 5 HOH A 87 1143 1143 HOH HOH . G 5 HOH A 88 1144 1144 HOH HOH . G 5 HOH A 89 1145 1145 HOH HOH . G 5 HOH A 90 1146 1146 HOH HOH . G 5 HOH A 91 1149 1149 HOH HOH . G 5 HOH A 92 1152 1152 HOH HOH . G 5 HOH A 93 1153 1153 HOH HOH . G 5 HOH A 94 1154 1154 HOH HOH . G 5 HOH A 95 1156 1156 HOH HOH . G 5 HOH A 96 1159 1159 HOH HOH . G 5 HOH A 97 1165 1165 HOH HOH . G 5 HOH A 98 1166 1166 HOH HOH . G 5 HOH A 99 1168 1168 HOH HOH . G 5 HOH A 100 1169 1169 HOH HOH . H 5 HOH B 1 1003 1003 HOH HOH . H 5 HOH B 2 1004 1004 HOH HOH . H 5 HOH B 3 1008 1008 HOH HOH . H 5 HOH B 4 1011 1011 HOH HOH . H 5 HOH B 5 1012 1012 HOH HOH . H 5 HOH B 6 1013 1013 HOH HOH . H 5 HOH B 7 1016 1016 HOH HOH . H 5 HOH B 8 1017 1017 HOH HOH . H 5 HOH B 9 1022 1022 HOH HOH . H 5 HOH B 10 1025 1025 HOH HOH . H 5 HOH B 11 1027 1027 HOH HOH . H 5 HOH B 12 1030 1030 HOH HOH . H 5 HOH B 13 1033 1033 HOH HOH . H 5 HOH B 14 1038 1038 HOH HOH . H 5 HOH B 15 1040 1040 HOH HOH . H 5 HOH B 16 1048 1048 HOH HOH . H 5 HOH B 17 1050 1050 HOH HOH . H 5 HOH B 18 1052 1052 HOH HOH . H 5 HOH B 19 1053 1053 HOH HOH . H 5 HOH B 20 1054 1054 HOH HOH . H 5 HOH B 21 1058 1058 HOH HOH . H 5 HOH B 22 1061 1061 HOH HOH . H 5 HOH B 23 1062 1062 HOH HOH . H 5 HOH B 24 1064 1064 HOH HOH . H 5 HOH B 25 1065 1065 HOH HOH . H 5 HOH B 26 1066 1066 HOH HOH . H 5 HOH B 27 1076 1076 HOH HOH . H 5 HOH B 28 1077 1077 HOH HOH . H 5 HOH B 29 1078 1078 HOH HOH . H 5 HOH B 30 1079 1079 HOH HOH . H 5 HOH B 31 1080 1080 HOH HOH . H 5 HOH B 32 1082 1082 HOH HOH . H 5 HOH B 33 1084 1084 HOH HOH . H 5 HOH B 34 1091 1091 HOH HOH . H 5 HOH B 35 1092 1092 HOH HOH . H 5 HOH B 36 1093 1093 HOH HOH . H 5 HOH B 37 1097 1097 HOH HOH . H 5 HOH B 38 1105 1105 HOH HOH . H 5 HOH B 39 1108 1108 HOH HOH . H 5 HOH B 40 1109 1109 HOH HOH . H 5 HOH B 41 1110 1110 HOH HOH . H 5 HOH B 42 1114 1114 HOH HOH . H 5 HOH B 43 1116 1116 HOH HOH . H 5 HOH B 44 1117 1117 HOH HOH . H 5 HOH B 45 1121 1121 HOH HOH . H 5 HOH B 46 1122 1122 HOH HOH . H 5 HOH B 47 1123 1123 HOH HOH . H 5 HOH B 48 1130 1130 HOH HOH . H 5 HOH B 49 1131 1131 HOH HOH . H 5 HOH B 50 1132 1132 HOH HOH . H 5 HOH B 51 1133 1133 HOH HOH . H 5 HOH B 52 1134 1134 HOH HOH . H 5 HOH B 53 1138 1138 HOH HOH . H 5 HOH B 54 1139 1139 HOH HOH . H 5 HOH B 55 1140 1140 HOH HOH . H 5 HOH B 56 1141 1141 HOH HOH . H 5 HOH B 57 1147 1147 HOH HOH . H 5 HOH B 58 1148 1148 HOH HOH . H 5 HOH B 59 1150 1150 HOH HOH . H 5 HOH B 60 1151 1151 HOH HOH . H 5 HOH B 61 1155 1155 HOH HOH . H 5 HOH B 62 1157 1157 HOH HOH . H 5 HOH B 63 1158 1158 HOH HOH . H 5 HOH B 64 1160 1160 HOH HOH . H 5 HOH B 65 1161 1161 HOH HOH . H 5 HOH B 66 1162 1162 HOH HOH . H 5 HOH B 67 1163 1163 HOH HOH . H 5 HOH B 68 1164 1164 HOH HOH . H 5 HOH B 69 1167 1167 HOH HOH . H 5 HOH B 70 1170 1170 HOH HOH . H 5 HOH B 71 1171 1171 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 3 _atom_site.Cartn_x 26.559 _atom_site.Cartn_y -9.944 _atom_site.Cartn_z -11.406 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 66.3 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 701 _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 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #