data_3E6P # _model_server_result.job_id izvc7Z8UCtX5RxxXYfPHOQ _model_server_result.datetime_utc '2024-11-07 13:24:14' _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 3e6p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":302}' # _entry.id 3E6P # _exptl.entry_id 3E6P _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM 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 90 _cell.angle_gamma 90 _cell.entry_id 3E6P _cell.length_a 121.336 _cell.length_b 121.336 _cell.length_c 100.204 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3E6P _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 # _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 6 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 3 n C NAG 1 A 1 NAG H 304 NAG 3 n C NAG 2 A 2 NAG H 305 NAG # 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 8 L CYS 170 1_555 A SG CYS 86 L CYS 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? disulf ? disulf2 A SG CYS 29 L CYS 191 1_555 A SG CYS 69 L CYS 231 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? disulf ? disulf3 A SG CYS 57 L CYS 219 1_555 A SG CYS 81 L CYS 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? disulf ? disulf4 A SG CYS 131 L CYS 401 1_555 B SG CYS 119 H CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? disulf ? disulf5 B SG CYS 28 H CYS 42 1_555 B SG CYS 44 H CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf6 B SG CYS 173 H CYS 168 1_555 B SG CYS 187 H CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? disulf ? disulf7 B SG CYS 201 H CYS 191 1_555 B SG CYS 231 H CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? covale ? covale1 B NE2 HIS 43 H HIS 57 1_555 E CH2 DFK . H DFK 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 B ND2 ASN 53 H ASN 60 1_555 C C1 NAG . A NAG 1 1_555 G ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale3 B OG SER 205 H SER 195 1_555 E C3 DFK . H DFK 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.368 ? covale ? covale4 C O4 NAG . A NAG 1 1_555 C C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? metalc ? metalc1 B O ARG 233 H ARG 221 1_555 F NA NA . H NA 302 1_555 A ? ? ? ? ? ? ? ? ? ? ? 2.45 ? metalc ? metalc2 B O LYS 236 H LYS 224 1_555 F NA NA . H NA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? metalc ? metalc3 F NA NA . H NA 302 1_555 H O HOH . H HOH 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc4 F NA NA . H NA 302 1_555 H O HOH . H HOH 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc5 F NA NA . H NA 302 1_555 H O HOH . H HOH 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.531 ? metalc ? metalc6 F NA NA . H NA 302 1_555 H O HOH . H HOH 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3E6P _atom_sites.fract_transf_matrix[1][1] 0.008242 _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] 0.008242 _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] 0.00998 _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 D 4 SO4 L 1 303 303 SO4 SO4 . E 5 DFK H 1 301 301 DFK DFK . F 6 NA H 1 302 302 NA NA . G 7 HOH L 1 1021 1021 HOH HOH . G 7 HOH L 2 1034 1034 HOH HOH . G 7 HOH L 3 1039 1039 HOH HOH . G 7 HOH L 4 1051 1051 HOH HOH . G 7 HOH L 5 1053 1053 HOH HOH . G 7 HOH L 6 1055 1055 HOH HOH . G 7 HOH L 7 1057 1057 HOH HOH . G 7 HOH L 8 1058 1058 HOH HOH . G 7 HOH L 9 1060 1060 HOH HOH . G 7 HOH L 10 1068 1068 HOH HOH . G 7 HOH L 11 1069 1069 HOH HOH . G 7 HOH L 12 1090 1090 HOH HOH . G 7 HOH L 13 1092 1092 HOH HOH . G 7 HOH L 14 1095 1095 HOH HOH . G 7 HOH L 15 1096 1096 HOH HOH . G 7 HOH L 16 1104 1104 HOH HOH . G 7 HOH L 17 1110 1110 HOH HOH . G 7 HOH L 18 1118 1118 HOH HOH . G 7 HOH L 19 1119 1119 HOH HOH . G 7 HOH L 20 1120 1120 HOH HOH . G 7 HOH L 21 1124 1124 HOH HOH . G 7 HOH L 22 1125 1125 HOH HOH . G 7 HOH L 23 1126 1126 HOH HOH . G 7 HOH L 24 1127 1127 HOH HOH . G 7 HOH L 25 1131 1131 HOH HOH . G 7 HOH L 26 1132 1132 HOH HOH . G 7 HOH L 27 1133 1133 HOH HOH . G 7 HOH L 28 1134 1134 HOH HOH . G 7 HOH L 29 1137 1137 HOH HOH . G 7 HOH L 30 1138 1138 HOH HOH . G 7 HOH L 31 1140 1140 HOH HOH . G 7 HOH L 32 1141 1141 HOH HOH . G 7 HOH L 33 1142 1142 HOH HOH . G 7 HOH L 34 1148 1148 HOH HOH . G 7 HOH L 35 1150 1150 HOH HOH . G 7 HOH L 36 1152 1152 HOH HOH . G 7 HOH L 37 1154 1154 HOH HOH . G 7 HOH L 38 1159 1159 HOH HOH . G 7 HOH L 39 1161 1161 HOH HOH . G 7 HOH L 40 1164 1164 HOH HOH . G 7 HOH L 41 1169 1169 HOH HOH . G 7 HOH L 42 1172 1172 HOH HOH . G 7 HOH L 43 1174 1174 HOH HOH . G 7 HOH L 44 1179 1179 HOH HOH . G 7 HOH L 45 1180 1180 HOH HOH . G 7 HOH L 46 1182 1182 HOH HOH . G 7 HOH L 47 1184 1184 HOH HOH . G 7 HOH L 48 1189 1189 HOH HOH . G 7 HOH L 49 1191 1191 HOH HOH . G 7 HOH L 50 1195 1195 HOH HOH . G 7 HOH L 51 1196 1196 HOH HOH . G 7 HOH L 52 1197 1197 HOH HOH . G 7 HOH L 53 1201 1201 HOH HOH . G 7 HOH L 54 1202 1202 HOH HOH . G 7 HOH L 55 1204 1204 HOH HOH . G 7 HOH L 56 1206 1206 HOH HOH . G 7 HOH L 57 1209 1209 HOH HOH . G 7 HOH L 58 1210 1210 HOH HOH . H 7 HOH H 1 1001 1001 HOH HOH . H 7 HOH H 2 1002 1002 HOH HOH . H 7 HOH H 3 1003 1003 HOH HOH . H 7 HOH H 4 1004 1004 HOH HOH . H 7 HOH H 5 1005 1005 HOH HOH . H 7 HOH H 6 1006 1006 HOH HOH . H 7 HOH H 7 1007 1007 HOH HOH . H 7 HOH H 8 1008 1008 HOH HOH . H 7 HOH H 9 1009 1009 HOH HOH . H 7 HOH H 10 1010 1010 HOH HOH . H 7 HOH H 11 1011 1011 HOH HOH . H 7 HOH H 12 1012 1012 HOH HOH . H 7 HOH H 13 1013 1013 HOH HOH . H 7 HOH H 14 1014 1014 HOH HOH . H 7 HOH H 15 1015 1015 HOH HOH . H 7 HOH H 16 1016 1016 HOH HOH . H 7 HOH H 17 1017 1017 HOH HOH . H 7 HOH H 18 1018 1018 HOH HOH . H 7 HOH H 19 1019 1019 HOH HOH . H 7 HOH H 20 1020 1020 HOH HOH . H 7 HOH H 21 1022 1022 HOH HOH . H 7 HOH H 22 1023 1023 HOH HOH . H 7 HOH H 23 1024 1024 HOH HOH . H 7 HOH H 24 1025 1025 HOH HOH . H 7 HOH H 25 1026 1026 HOH HOH . H 7 HOH H 26 1027 1027 HOH HOH . H 7 HOH H 27 1028 1028 HOH HOH . H 7 HOH H 28 1029 1029 HOH HOH . H 7 HOH H 29 1030 1030 HOH HOH . H 7 HOH H 30 1031 1031 HOH HOH . H 7 HOH H 31 1032 1032 HOH HOH . H 7 HOH H 32 1033 1033 HOH HOH . H 7 HOH H 33 1035 1035 HOH HOH . H 7 HOH H 34 1036 1036 HOH HOH . H 7 HOH H 35 1037 1037 HOH HOH . H 7 HOH H 36 1038 1038 HOH HOH . H 7 HOH H 37 1040 1040 HOH HOH . H 7 HOH H 38 1041 1041 HOH HOH . H 7 HOH H 39 1043 1043 HOH HOH . H 7 HOH H 40 1044 1044 HOH HOH . H 7 HOH H 41 1045 1045 HOH HOH . H 7 HOH H 42 1046 1046 HOH HOH . H 7 HOH H 43 1047 1047 HOH HOH . H 7 HOH H 44 1048 1048 HOH HOH . H 7 HOH H 45 1049 1049 HOH HOH . H 7 HOH H 46 1050 1050 HOH HOH . H 7 HOH H 47 1052 1052 HOH HOH . H 7 HOH H 48 1054 1054 HOH HOH . H 7 HOH H 49 1056 1056 HOH HOH . H 7 HOH H 50 1059 1059 HOH HOH . H 7 HOH H 51 1061 1061 HOH HOH . H 7 HOH H 52 1062 1062 HOH HOH . H 7 HOH H 53 1063 1063 HOH HOH . H 7 HOH H 54 1064 1064 HOH HOH . H 7 HOH H 55 1065 1065 HOH HOH . H 7 HOH H 56 1066 1066 HOH HOH . H 7 HOH H 57 1067 1067 HOH HOH . H 7 HOH H 58 1070 1070 HOH HOH . H 7 HOH H 59 1071 1071 HOH HOH . H 7 HOH H 60 1072 1072 HOH HOH . H 7 HOH H 61 1073 1073 HOH HOH . H 7 HOH H 62 1074 1074 HOH HOH . H 7 HOH H 63 1075 1075 HOH HOH . H 7 HOH H 64 1076 1076 HOH HOH . H 7 HOH H 65 1077 1077 HOH HOH . H 7 HOH H 66 1078 1078 HOH HOH . H 7 HOH H 67 1079 1079 HOH HOH . H 7 HOH H 68 1080 1080 HOH HOH . H 7 HOH H 69 1081 1081 HOH HOH . H 7 HOH H 70 1082 1082 HOH HOH . H 7 HOH H 71 1083 1083 HOH HOH . H 7 HOH H 72 1084 1084 HOH HOH . H 7 HOH H 73 1085 1085 HOH HOH . H 7 HOH H 74 1086 1086 HOH HOH . H 7 HOH H 75 1087 1087 HOH HOH . H 7 HOH H 76 1088 1088 HOH HOH . H 7 HOH H 77 1089 1089 HOH HOH . H 7 HOH H 78 1091 1091 HOH HOH . H 7 HOH H 79 1093 1093 HOH HOH . H 7 HOH H 80 1094 1094 HOH HOH . H 7 HOH H 81 1097 1097 HOH HOH . H 7 HOH H 82 1098 1098 HOH HOH . H 7 HOH H 83 1099 1099 HOH HOH . H 7 HOH H 84 1100 1100 HOH HOH . H 7 HOH H 85 1101 1101 HOH HOH . H 7 HOH H 86 1102 1102 HOH HOH . H 7 HOH H 87 1103 1103 HOH HOH . H 7 HOH H 88 1105 1105 HOH HOH . H 7 HOH H 89 1106 1106 HOH HOH . H 7 HOH H 90 1107 1107 HOH HOH . H 7 HOH H 91 1108 1108 HOH HOH . H 7 HOH H 92 1109 1109 HOH HOH . H 7 HOH H 93 1111 1111 HOH HOH . H 7 HOH H 94 1112 1112 HOH HOH . H 7 HOH H 95 1113 1113 HOH HOH . H 7 HOH H 96 1114 1114 HOH HOH . H 7 HOH H 97 1115 1115 HOH HOH . H 7 HOH H 98 1116 1116 HOH HOH . H 7 HOH H 99 1117 1117 HOH HOH . H 7 HOH H 100 1121 1121 HOH HOH . H 7 HOH H 101 1122 1122 HOH HOH . H 7 HOH H 102 1123 1123 HOH HOH . H 7 HOH H 103 1128 1128 HOH HOH . H 7 HOH H 104 1129 1129 HOH HOH . H 7 HOH H 105 1130 1130 HOH HOH . H 7 HOH H 106 1135 1135 HOH HOH . H 7 HOH H 107 1136 1136 HOH HOH . H 7 HOH H 108 1139 1139 HOH HOH . H 7 HOH H 109 1143 1143 HOH HOH . H 7 HOH H 110 1144 1144 HOH HOH . H 7 HOH H 111 1145 1145 HOH HOH . H 7 HOH H 112 1146 1146 HOH HOH . H 7 HOH H 113 1147 1147 HOH HOH . H 7 HOH H 114 1149 1149 HOH HOH . H 7 HOH H 115 1151 1151 HOH HOH . H 7 HOH H 116 1153 1153 HOH HOH . H 7 HOH H 117 1155 1155 HOH HOH . H 7 HOH H 118 1157 1157 HOH HOH . H 7 HOH H 119 1158 1158 HOH HOH . H 7 HOH H 120 1160 1160 HOH HOH . H 7 HOH H 121 1162 1162 HOH HOH . H 7 HOH H 122 1163 1163 HOH HOH . H 7 HOH H 123 1165 1165 HOH HOH . H 7 HOH H 124 1166 1166 HOH HOH . H 7 HOH H 125 1167 1167 HOH HOH . H 7 HOH H 126 1168 1168 HOH HOH . H 7 HOH H 127 1170 1170 HOH HOH . H 7 HOH H 128 1171 1171 HOH HOH . H 7 HOH H 129 1173 1173 HOH HOH . H 7 HOH H 130 1175 1175 HOH HOH . H 7 HOH H 131 1176 1176 HOH HOH . H 7 HOH H 132 1177 1177 HOH HOH . H 7 HOH H 133 1178 1178 HOH HOH . H 7 HOH H 134 1181 1181 HOH HOH . H 7 HOH H 135 1183 1183 HOH HOH . H 7 HOH H 136 1185 1185 HOH HOH . H 7 HOH H 137 1186 1186 HOH HOH . H 7 HOH H 138 1187 1187 HOH HOH . H 7 HOH H 139 1188 1188 HOH HOH . H 7 HOH H 140 1190 1190 HOH HOH . H 7 HOH H 141 1192 1192 HOH HOH . H 7 HOH H 142 1193 1193 HOH HOH . H 7 HOH H 143 1194 1194 HOH HOH . H 7 HOH H 144 1198 1198 HOH HOH . H 7 HOH H 145 1199 1199 HOH HOH . H 7 HOH H 146 1200 1200 HOH HOH . H 7 HOH H 147 1203 1203 HOH HOH . H 7 HOH H 148 1205 1205 HOH HOH . H 7 HOH H 149 1208 1208 HOH HOH . H 7 HOH H 150 1211 1211 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id F _atom_site.label_entity_id 6 _atom_site.Cartn_x -56.395 _atom_site.Cartn_y -24.273 _atom_site.Cartn_z -9.099 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 36.02 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 302 _atom_site.auth_asym_id H _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #