data_3GCD # _model_server_result.job_id dhNERmU2kIvplCMqH6seMw _model_server_result.datetime_utc '2024-11-24 11:54:36' _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 3gcd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":215}' # _entry.id 3GCD # _exptl.entry_id 3GCD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM 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 90 _cell.entry_id 3GCD _cell.length_a 48.56 _cell.length_b 65.854 _cell.length_c 254.88 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3GCD _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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 PISA monomeric 1 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,G,Q 1 1 B,H,I,J,R 2 1 C,K,L,M,S 3 1 D,N,O,P,T 4 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 ? 4 G N N ? 4 J N N ? 4 M N N ? 4 P 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 A SG CYS 140 A CYS 140 1_555 E CAG AZ0 . A AZ0 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.804 ? covale ? covale2 B SG CYS 140 B CYS 140 1_555 H CAG AZ0 . B AZ0 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.853 ? covale ? covale3 C SG CYS 140 C CYS 140 1_555 K CAG AZ0 . C AZ0 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.794 ? covale ? covale4 D SG CYS 140 D CYS 140 1_555 N CAG AZ0 . D AZ0 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc1 A O GLU 27 A GLU 27 1_555 G NA NA . A NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.994 ? metalc ? metalc2 F O32 IHP . A IHP 214 1_555 G NA NA . A NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc3 F O31 IHP . A IHP 214 1_555 G NA NA . A NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.983 ? metalc ? metalc4 G NA NA . A NA 215 1_555 Q O HOH . A HOH 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.714 ? metalc ? metalc5 B O GLU 27 B GLU 27 1_555 J NA NA . B NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc6 I O31 IHP . B IHP 214 1_555 J NA NA . B NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc7 I O32 IHP . B IHP 214 1_555 J NA NA . B NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? metalc ? metalc8 C O GLU 27 C GLU 27 1_555 M NA NA . C NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc9 L O32 IHP . C IHP 214 1_555 M NA NA . C NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc10 L O31 IHP . C IHP 214 1_555 M NA NA . C NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.921 ? metalc ? metalc11 M NA NA . C NA 215 1_555 S O HOH . C HOH 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.034 ? metalc ? metalc12 M NA NA . C NA 215 1_555 S O HOH . C HOH 254 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? metalc ? metalc13 D O GLU 27 D GLU 27 1_555 P NA NA . D NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc14 O O31 IHP . D IHP 214 1_555 P NA NA . D NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? metalc ? metalc15 O O32 IHP . D IHP 214 1_555 P NA NA . D NA 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? # _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 3GCD _atom_sites.fract_transf_matrix[1][1] 0.020593 _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] 0.015185 _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] 0.003923 _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 2 AZ0 A 1 213 213 AZ0 AZ0 . F 3 IHP A 1 214 214 IHP IHP . G 4 NA A 1 215 215 NA NA . H 2 AZ0 B 1 213 213 AZ0 AZ0 . I 3 IHP B 1 214 214 IHP IHP . J 4 NA B 1 215 215 NA NA . K 2 AZ0 C 1 213 213 AZ0 AZ0 . L 3 IHP C 1 214 214 IHP IHP . M 4 NA C 1 215 215 NA NA . N 2 AZ0 D 1 213 213 AZ0 AZ0 . O 3 IHP D 1 214 214 IHP IHP . P 4 NA D 1 215 215 NA NA . Q 5 HOH A 1 216 216 HOH HOH . Q 5 HOH A 2 217 217 HOH HOH . Q 5 HOH A 3 218 218 HOH HOH . Q 5 HOH A 4 219 219 HOH HOH . Q 5 HOH A 5 220 220 HOH HOH . Q 5 HOH A 6 221 221 HOH HOH . Q 5 HOH A 7 222 222 HOH HOH . Q 5 HOH A 8 223 223 HOH HOH . Q 5 HOH A 9 224 224 HOH HOH . Q 5 HOH A 10 225 225 HOH HOH . Q 5 HOH A 11 226 226 HOH HOH . Q 5 HOH A 12 227 227 HOH HOH . Q 5 HOH A 13 228 228 HOH HOH . Q 5 HOH A 14 229 229 HOH HOH . Q 5 HOH A 15 230 230 HOH HOH . Q 5 HOH A 16 231 231 HOH HOH . Q 5 HOH A 17 232 232 HOH HOH . Q 5 HOH A 18 233 233 HOH HOH . Q 5 HOH A 19 234 234 HOH HOH . Q 5 HOH A 20 235 235 HOH HOH . Q 5 HOH A 21 236 236 HOH HOH . Q 5 HOH A 22 237 237 HOH HOH . Q 5 HOH A 23 238 238 HOH HOH . Q 5 HOH A 24 239 239 HOH HOH . Q 5 HOH A 25 240 240 HOH HOH . Q 5 HOH A 26 241 241 HOH HOH . Q 5 HOH A 27 242 242 HOH HOH . Q 5 HOH A 28 243 243 HOH HOH . Q 5 HOH A 29 244 244 HOH HOH . Q 5 HOH A 30 245 245 HOH HOH . Q 5 HOH A 31 246 246 HOH HOH . Q 5 HOH A 32 247 247 HOH HOH . Q 5 HOH A 33 248 248 HOH HOH . Q 5 HOH A 34 249 249 HOH HOH . Q 5 HOH A 35 250 250 HOH HOH . Q 5 HOH A 36 251 251 HOH HOH . Q 5 HOH A 37 252 252 HOH HOH . Q 5 HOH A 38 253 253 HOH HOH . Q 5 HOH A 39 254 254 HOH HOH . Q 5 HOH A 40 255 255 HOH HOH . Q 5 HOH A 41 256 256 HOH HOH . Q 5 HOH A 42 257 257 HOH HOH . Q 5 HOH A 43 258 258 HOH HOH . Q 5 HOH A 44 259 259 HOH HOH . Q 5 HOH A 45 260 260 HOH HOH . Q 5 HOH A 46 261 261 HOH HOH . Q 5 HOH A 47 262 262 HOH HOH . Q 5 HOH A 48 263 263 HOH HOH . Q 5 HOH A 49 264 264 HOH HOH . Q 5 HOH A 50 265 265 HOH HOH . Q 5 HOH A 51 266 266 HOH HOH . Q 5 HOH A 52 267 267 HOH HOH . Q 5 HOH A 53 268 268 HOH HOH . Q 5 HOH A 54 269 269 HOH HOH . Q 5 HOH A 55 270 270 HOH HOH . Q 5 HOH A 56 271 271 HOH HOH . Q 5 HOH A 57 272 272 HOH HOH . Q 5 HOH A 58 273 273 HOH HOH . Q 5 HOH A 59 274 274 HOH HOH . Q 5 HOH A 60 275 275 HOH HOH . R 5 HOH B 1 216 216 HOH HOH . R 5 HOH B 2 217 217 HOH HOH . R 5 HOH B 3 218 218 HOH HOH . R 5 HOH B 4 219 219 HOH HOH . R 5 HOH B 5 220 220 HOH HOH . R 5 HOH B 6 221 221 HOH HOH . R 5 HOH B 7 222 222 HOH HOH . R 5 HOH B 8 223 223 HOH HOH . R 5 HOH B 9 224 224 HOH HOH . R 5 HOH B 10 225 225 HOH HOH . R 5 HOH B 11 226 226 HOH HOH . R 5 HOH B 12 227 227 HOH HOH . R 5 HOH B 13 228 228 HOH HOH . R 5 HOH B 14 229 229 HOH HOH . R 5 HOH B 15 230 230 HOH HOH . R 5 HOH B 16 231 231 HOH HOH . R 5 HOH B 17 232 232 HOH HOH . R 5 HOH B 18 233 233 HOH HOH . R 5 HOH B 19 234 234 HOH HOH . R 5 HOH B 20 235 235 HOH HOH . R 5 HOH B 21 236 236 HOH HOH . R 5 HOH B 22 237 237 HOH HOH . R 5 HOH B 23 238 238 HOH HOH . R 5 HOH B 24 239 239 HOH HOH . R 5 HOH B 25 240 240 HOH HOH . R 5 HOH B 26 241 241 HOH HOH . R 5 HOH B 27 242 242 HOH HOH . R 5 HOH B 28 243 243 HOH HOH . R 5 HOH B 29 244 244 HOH HOH . R 5 HOH B 30 245 245 HOH HOH . R 5 HOH B 31 246 246 HOH HOH . S 5 HOH C 1 216 216 HOH HOH . S 5 HOH C 2 217 217 HOH HOH . S 5 HOH C 3 218 218 HOH HOH . S 5 HOH C 4 219 219 HOH HOH . S 5 HOH C 5 220 220 HOH HOH . S 5 HOH C 6 221 221 HOH HOH . S 5 HOH C 7 222 222 HOH HOH . S 5 HOH C 8 223 223 HOH HOH . S 5 HOH C 9 224 224 HOH HOH . S 5 HOH C 10 225 225 HOH HOH . S 5 HOH C 11 226 226 HOH HOH . S 5 HOH C 12 227 227 HOH HOH . S 5 HOH C 13 228 228 HOH HOH . S 5 HOH C 14 229 229 HOH HOH . S 5 HOH C 15 230 230 HOH HOH . S 5 HOH C 16 231 231 HOH HOH . S 5 HOH C 17 232 232 HOH HOH . S 5 HOH C 18 233 233 HOH HOH . S 5 HOH C 19 234 234 HOH HOH . S 5 HOH C 20 235 235 HOH HOH . S 5 HOH C 21 236 236 HOH HOH . S 5 HOH C 22 237 237 HOH HOH . S 5 HOH C 23 238 238 HOH HOH . S 5 HOH C 24 239 239 HOH HOH . S 5 HOH C 25 240 240 HOH HOH . S 5 HOH C 26 241 241 HOH HOH . S 5 HOH C 27 242 242 HOH HOH . S 5 HOH C 28 243 243 HOH HOH . S 5 HOH C 29 244 244 HOH HOH . S 5 HOH C 30 245 245 HOH HOH . S 5 HOH C 31 246 246 HOH HOH . S 5 HOH C 32 247 247 HOH HOH . S 5 HOH C 33 248 248 HOH HOH . S 5 HOH C 34 249 249 HOH HOH . S 5 HOH C 35 250 250 HOH HOH . S 5 HOH C 36 251 251 HOH HOH . S 5 HOH C 37 252 252 HOH HOH . S 5 HOH C 38 253 253 HOH HOH . S 5 HOH C 39 254 254 HOH HOH . S 5 HOH C 40 255 255 HOH HOH . T 5 HOH D 1 216 216 HOH HOH . T 5 HOH D 2 217 217 HOH HOH . T 5 HOH D 3 218 218 HOH HOH . T 5 HOH D 4 219 219 HOH HOH . T 5 HOH D 5 220 220 HOH HOH . T 5 HOH D 6 221 221 HOH HOH . T 5 HOH D 7 222 222 HOH HOH . T 5 HOH D 8 223 223 HOH HOH . T 5 HOH D 9 224 224 HOH HOH . T 5 HOH D 10 225 225 HOH HOH . T 5 HOH D 11 226 226 HOH HOH . T 5 HOH D 12 227 227 HOH HOH . T 5 HOH D 13 228 228 HOH HOH . T 5 HOH D 14 229 229 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 G _atom_site.label_entity_id 4 _atom_site.Cartn_x -15.839 _atom_site.Cartn_y 8.094 _atom_site.Cartn_z -70.684 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 36.84 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 215 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 1 #