data_6XXQ # _model_server_result.job_id INlo8zzP0xl62vktGVKDNA _model_server_result.datetime_utc '2024-11-22 16:58:03' _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 6xxq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":305}' # _entry.id 6XXQ # _exptl.entry_id 6XXQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 332.35 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description SPECTINOMYCIN _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 135 _cell.angle_gamma 90 _cell.entry_id 6XXQ _cell.length_a 133.532 _cell.length_b 69.312 _cell.length_c 94.517 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6XXQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_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,D,E,F,G,L 1 1 B,H,I,J,K,M 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 ? 5 G N N ? 5 K 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 O ASP 46 A ASP 46 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.892 ? metalc ? metalc2 A OD1 ASP 46 A ASP 46 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc3 A OD2 ASP 46 A ASP 46 1_555 E MG MG . A MG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.42 ? metalc ? metalc4 A OD2 ASP 48 A ASP 48 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.698 ? metalc ? metalc5 D MG MG . A MG 302 1_555 F O3G ATP . A ATP 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.606 ? metalc ? metalc6 D MG MG . A MG 302 1_555 F O2B ATP . A ATP 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? metalc ? metalc7 E MG MG . A MG 303 1_555 F O2A ATP . A ATP 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.852 ? metalc ? metalc8 E MG MG . A MG 303 1_555 F O1A ATP . A ATP 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc9 E MG MG . A MG 303 1_555 G O2B SCM . A SCM 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc10 B OD1 ASP 46 B ASP 46 1_555 I MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.938 ? metalc ? metalc11 B OD2 ASP 48 B ASP 48 1_555 I MG MG . B MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc12 I MG MG . B MG 302 1_555 J O2G ATP . B ATP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc13 I MG MG . B MG 302 1_555 J O2B ATP . B ATP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc14 I MG MG . B MG 302 1_555 J O2A ATP . B ATP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? # _chem_comp.formula 'C14 H24 N2 O7' _chem_comp.formula_weight 332.35 _chem_comp.id SCM _chem_comp.mon_nstd_flag . _chem_comp.name SPECTINOMYCIN _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ACTINOSPECTACIN;ESPECTINOMICINA;CHX-3101 # 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 O1 C2 SCM sing 326 n n O1 C6 SCM sing 327 n n C2 C2M SCM sing 328 n n C2 C3 SCM sing 329 n n C2 H2 SCM sing 330 n n C2M H2M1 SCM sing 331 n n C2M H2M2 SCM sing 332 n n C2M H2M3 SCM sing 333 n n C3 C4 SCM sing 334 n n C3 H31 SCM sing 335 n n C3 H32 SCM sing 336 n n C4 O4 SCM doub 337 n n C4 C5 SCM sing 338 n n C5 O5 SCM sing 339 n n C5 C6 SCM sing 340 n n C5 O1B SCM sing 341 n n O5 HO5 SCM sing 342 n n C6 O2B SCM sing 343 n n C6 H6 SCM sing 344 n n O1B C7 SCM sing 345 n n O2B C12 SCM sing 346 n n C7 C8 SCM sing 347 n n C7 C12 SCM sing 348 n n C7 H7 SCM sing 349 n n C8 N8 SCM sing 350 n n C8 C9 SCM sing 351 n n C8 H8 SCM sing 352 n n N8 C8M SCM sing 353 n n N8 HN8 SCM sing 354 n n C8M H8M1 SCM sing 355 n n C8M H8M2 SCM sing 356 n n C8M H8M3 SCM sing 357 n n C9 O9 SCM sing 358 n n C9 C10 SCM sing 359 n n C9 H9 SCM sing 360 n n O9 HO9 SCM sing 361 n n C10 N10 SCM sing 362 n n C10 C11 SCM sing 363 n n C10 H10 SCM sing 364 n n N10 C1M SCM sing 365 n n N10 HN1 SCM sing 366 n n C1M H1M1 SCM sing 367 n n C1M H1M2 SCM sing 368 n n C1M H1M3 SCM sing 369 n n C11 O11 SCM sing 370 n n C11 C12 SCM sing 371 n n C11 H11 SCM sing 372 n n O11 HO1 SCM sing 373 n n C12 H12 SCM sing 374 n n # _atom_sites.entry_id 6XXQ _atom_sites.fract_transf_matrix[1][1] 0.007489 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007489 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014428 _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] 0.014963 _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 C 2 NA A 1 301 256 NA NA . D 3 MG A 1 302 257 MG MG . E 3 MG A 1 303 259 MG MG . F 4 ATP A 1 304 401 ATP ATP . G 5 SCM A 1 305 501 SCM SCM . H 2 NA B 1 301 255 NA NA . I 3 MG B 1 302 256 MG MG . J 4 ATP B 1 303 401 ATP ATP . K 5 SCM B 1 304 501 SCM SCM . L 6 HOH A 1 401 8 HOH HOH . L 6 HOH A 2 402 6 HOH HOH . L 6 HOH A 3 403 1 HOH HOH . L 6 HOH A 4 404 4 HOH HOH . L 6 HOH A 5 405 10 HOH HOH . L 6 HOH A 6 406 7 HOH HOH . L 6 HOH A 7 407 5 HOH HOH . M 6 HOH B 1 401 3 HOH HOH . M 6 HOH B 2 402 9 HOH HOH . M 6 HOH B 3 403 12 HOH HOH . M 6 HOH B 4 404 11 HOH HOH . M 6 HOH B 5 405 2 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 O O1 SCM . . . G 5 6.001 15.879 38.852 1 41.09 ? O1 SCM 305 A 1 HETATM 2 C C2 SCM . . . G 5 4.772 15.944 39.601 1 38.17 ? C2 SCM 305 A 1 HETATM 3 C C2M SCM . . . G 5 3.659 15.624 38.638 1 39.36 ? C2M SCM 305 A 1 HETATM 4 C C3 SCM . . . G 5 4.647 17.316 40.232 1 39.49 ? C3 SCM 305 A 1 HETATM 5 C C4 SCM . . . G 5 5.897 17.648 41 1 41.83 ? C4 SCM 305 A 1 HETATM 6 O O4 SCM . . . G 5 5.861 18.023 42.148 1 44.85 ? O4 SCM 305 A 1 HETATM 7 C C5 SCM . . . G 5 7.197 17.434 40.196 1 38.76 ? C5 SCM 305 A 1 HETATM 8 O O5 SCM . . . G 5 8.324 17.577 40.998 1 42.13 ? O5 SCM 305 A 1 HETATM 9 C C6 SCM . . . G 5 7.179 16.015 39.615 1 39.04 ? C6 SCM 305 A 1 HETATM 10 O O1B SCM . . . G 5 7.212 18.417 39.176 1 40.07 ? O1B SCM 305 A 1 HETATM 11 O O2B SCM . . . G 5 8.247 15.855 38.715 1 39.97 ? O2B SCM 305 A 1 HETATM 12 C C7 SCM . . . G 5 8.265 18.208 38.22 1 39.61 ? C7 SCM 305 A 1 HETATM 13 C C8 SCM . . . G 5 8.13 19.234 37.099 1 36.83 ? C8 SCM 305 A 1 HETATM 14 N N8 SCM . . . G 5 8.263 20.607 37.597 1 36.77 ? N8 SCM 305 A 1 HETATM 15 C C8M SCM . . . G 5 8.131 21.623 36.556 1 38.28 ? C8M SCM 305 A 1 HETATM 16 C C9 SCM . . . G 5 9.195 18.99 36.031 1 34.88 ? C9 SCM 305 A 1 HETATM 17 O O9 SCM . . . G 5 10.485 19.228 36.582 1 35.92 ? O9 SCM 305 A 1 HETATM 18 C C10 SCM . . . G 5 9.115 17.56 35.499 1 36.23 ? C10 SCM 305 A 1 HETATM 19 N N10 SCM . . . G 5 10.196 17.395 34.52 1 39.61 ? N10 SCM 305 A 1 HETATM 20 C C1M SCM . . . G 5 9.76 17.538 33.132 1 36.31 ? C1M SCM 305 A 1 HETATM 21 C C11 SCM . . . G 5 9.263 16.55 36.635 1 36.04 ? C11 SCM 305 A 1 HETATM 22 O O11 SCM . . . G 5 9.164 15.227 36.12 1 36.29 ? O11 SCM 305 A 1 HETATM 23 C C12 SCM . . . G 5 8.156 16.806 37.645 1 37.99 ? C12 SCM 305 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 245 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 23 #