data_5GZA # _model_server_result.job_id Ql3b-VkTHE-wwAi0C_3MAQ _model_server_result.datetime_utc '2024-11-22 00:13:38' _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 5gza # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":405}' # _entry.id 5GZA # _exptl.entry_id 5GZA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 160.169 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-METHYL-2H-CHROMEN-2-ONE _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 120 _cell.entry_id 5GZA _cell.length_a 70.55 _cell.length_b 70.55 _cell.length_c 66.935 _cell.Z_PDB 3 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5GZA _symmetry.cell_setting ? _symmetry.Int_Tables_number 145 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32' # _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 _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 G _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 NAG MAN C1 O1 . O4 HO4 . sing 2 ? 2 3 2 NGA NAG C1 O1 . O3 HO3 . 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 B MAN 1 B 1 MAN A 401 MAN 2 n B NAG 2 B 2 NAG A 402 NAG 2 n B NGA 3 B 3 NGA A 403 NGA # 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 1 A CYS 53 1_555 A SG CYS 14 A CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 20 A CYS 72 1_555 A SG CYS 87 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 149 A CYS 201 1_555 A SG CYS 189 A CYS 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 G C1 ZZ1 . A ZZ1 405 1_555 B O1 MAN . B MAN 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.375 ? covale ? covale2 B O4 MAN . B MAN 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.401 ? covale ? covale3 B O3 NAG . B NAG 2 1_555 B C1 NGA . B NGA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.312 ? metalc ? metalc1 A OD1 ASP 173 A ASP 225 1_555 D MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? metalc ? metalc2 A OD2 ASP 173 A ASP 225 1_555 D MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc3 A OD2 ASP 173 A ASP 225 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc4 A OD2 ASP 175 A ASP 227 1_555 D MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc5 C O2B ADP . A ADP 401 1_555 D MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.861 ? metalc ? metalc6 C O1B ADP . A ADP 401 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc7 C O1A ADP . A ADP 401 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? # _chem_comp.formula 'C10 H8 O2' _chem_comp.formula_weight 160.169 _chem_comp.id ZZ1 _chem_comp.mon_nstd_flag . _chem_comp.name 4-METHYL-2H-CHROMEN-2-ONE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 4-METHYLUMBELLIFERYL # 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 O8 C8 ZZ1 doub 505 n n C8 O1 ZZ1 sing 506 n y C8 C7 ZZ1 sing 507 n y O1 C11 ZZ1 sing 508 n y C11 C10 ZZ1 doub 509 n y C11 C4 ZZ1 sing 510 n y C10 C1 ZZ1 sing 511 n y C10 H10 ZZ1 sing 512 n n C1 C2 ZZ1 doub 513 n y C1 H1 ZZ1 sing 514 n n C2 C3 ZZ1 sing 515 n y C2 H2 ZZ1 sing 516 n n C3 C4 ZZ1 doub 517 n y C3 H3 ZZ1 sing 518 n n C4 C5 ZZ1 sing 519 n y C5 C6 ZZ1 sing 520 n n C5 C7 ZZ1 doub 521 n y C6 H6C1 ZZ1 sing 522 n n C6 H6C2 ZZ1 sing 523 n n C6 H6C3 ZZ1 sing 524 n n C7 H7 ZZ1 sing 525 n n # _atom_sites.entry_id 5GZA _atom_sites.fract_transf_matrix[1][1] 0.014174 _atom_sites.fract_transf_matrix[1][2] 0.008184 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016367 _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] 0.01494 _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 3 ADP A 1 401 381 ADP ADP . D 4 MG A 1 402 391 MG MG . E 4 MG A 1 403 392 MG MG . F 5 AF3 A 1 404 395 AF3 AF3 . G 6 ZZ1 A 1 405 400 ZZ1 ZZ1 . # 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 O8 ZZ1 . . . G 6 47.002 23.865 -5.88 1 64.82 ? O8 ZZ1 405 A 1 HETATM 2 C C8 ZZ1 . . . G 6 47.6 23.628 -6.897 1 64.37 ? C8 ZZ1 405 A 1 HETATM 3 O O1 ZZ1 . . . G 6 47.627 24.474 -8.002 1 62.75 ? O1 ZZ1 405 A 1 HETATM 4 C C11 ZZ1 . . . G 6 48.206 24.021 -9.254 1 61.56 ? C11 ZZ1 405 A 1 HETATM 5 C C10 ZZ1 . . . G 6 48.182 24.817 -10.415 1 59.49 ? C10 ZZ1 405 A 1 HETATM 6 C C1 ZZ1 . . . G 6 48.81 24.458 -11.622 1 58.46 ? C1 ZZ1 405 A 1 HETATM 7 C C2 ZZ1 . . . G 6 49.439 23.219 -11.711 1 60.55 ? C2 ZZ1 405 A 1 HETATM 8 C C3 ZZ1 . . . G 6 49.428 22.401 -10.586 1 62.04 ? C3 ZZ1 405 A 1 HETATM 9 C C4 ZZ1 . . . G 6 48.811 22.824 -9.354 1 62.78 ? C4 ZZ1 405 A 1 HETATM 10 C C5 ZZ1 . . . G 6 48.79 21.984 -8.229 1 65.43 ? C5 ZZ1 405 A 1 HETATM 11 C C6 ZZ1 . . . G 6 48.574 20.472 -8.188 1 67.84 ? C6 ZZ1 405 A 1 HETATM 12 C C7 ZZ1 . . . G 6 48.307 22.42 -6.998 1 65.43 ? C7 ZZ1 405 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 12 #