data_6MKG # _model_server_result.job_id jIXPb60mJB6L8ImYMs6U0g _model_server_result.datetime_utc '2024-11-29 13:00:01' _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 6mkg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":701}' # _entry.id 6MKG # _exptl.entry_id 6MKG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 336.406 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'OPEN FORM - PENICILLIN G' _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 6MKG _cell.length_a 192.315 _cell.length_b 192.315 _cell.length_c 156.094 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6MKG _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 63 2 2' # _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,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id OG _struct_conn.ptnr1_label_comp_id SER _struct_conn.ptnr1_label_seq_id 422 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id SER _struct_conn.ptnr1_auth_seq_id 422 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C7 _struct_conn.ptnr2_label_comp_id PNM _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id PNM _struct_conn.ptnr2_auth_seq_id 701 _struct_conn.ptnr2_symmetry 1_555 _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 1.396 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C16 H20 N2 O4 S' _chem_comp.formula_weight 336.406 _chem_comp.id PNM _chem_comp.mon_nstd_flag . _chem_comp.name 'OPEN FORM - PENICILLIN G' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 C7 PNM doub 247 n n C7 C6 PNM sing 248 n n C7 HC7 PNM sing 249 n n N4 C3 PNM sing 250 n n N4 C5 PNM sing 251 n n N4 H4 PNM sing 252 n n C3 C11 PNM sing 253 n n C3 C2 PNM sing 254 n n C3 HC3 PNM sing 255 n n C11 O13 PNM sing 256 n n C11 O12 PNM doub 257 n n O13 HXT PNM sing 258 n n C2 C10 PNM sing 259 n n C2 C9 PNM sing 260 n n C2 S1 PNM sing 261 n n C10 H101 PNM sing 262 n n C10 H102 PNM sing 263 n n C10 H103 PNM sing 264 n n C9 HC91 PNM sing 265 n n C9 HC92 PNM sing 266 n n C9 HC93 PNM sing 267 n n S1 C5 PNM sing 268 n n C5 C6 PNM sing 269 n n C5 HC5 PNM sing 270 n n C6 N14 PNM sing 271 n n C6 HC6 PNM sing 272 n n N14 C15 PNM sing 273 n n N14 H14 PNM sing 274 n n C15 O16 PNM doub 275 n n C15 C17 PNM sing 276 n n C17 C18 PNM sing 277 n n C17 H171 PNM sing 278 n n C17 H172 PNM sing 279 n n C18 C19 PNM doub 280 n y C18 C23 PNM sing 281 n y C19 C20 PNM sing 282 n y C19 H19 PNM sing 283 n n C20 C21 PNM doub 284 n y C20 H20 PNM sing 285 n n C21 C22 PNM sing 286 n y C21 H21 PNM sing 287 n n C22 C23 PNM doub 288 n y C22 H22 PNM sing 289 n n C23 H23 PNM sing 290 n n # _atom_sites.entry_id 6MKG _atom_sites.fract_transf_matrix[1][1] 0.0052 _atom_sites.fract_transf_matrix[1][2] 0.003002 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006004 _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] 0.006406 _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 B 2 PNM A 1 701 422 PNM PNM . C 3 SO4 A 1 702 1 SO4 SO4 . D 3 SO4 A 1 703 2 SO4 SO4 . E 3 SO4 A 1 704 3 SO4 SO4 . F 3 SO4 A 1 705 4 SO4 SO4 . G 3 SO4 A 1 706 5 SO4 SO4 . H 3 SO4 A 1 707 6 SO4 SO4 . I 3 SO4 A 1 708 7 SO4 SO4 . J 3 SO4 A 1 709 8 SO4 SO4 . K 3 SO4 A 1 710 9 SO4 SO4 . L 3 SO4 A 1 711 10 SO4 SO4 . M 3 SO4 A 1 712 11 SO4 SO4 . N 3 SO4 A 1 713 12 SO4 SO4 . O 3 SO4 A 1 714 13 SO4 SO4 . P 3 SO4 A 1 715 14 SO4 SO4 . Q 3 SO4 A 1 716 15 SO4 SO4 . R 3 SO4 A 1 717 16 SO4 SO4 . S 3 SO4 A 1 718 17 SO4 SO4 . T 3 SO4 A 1 719 18 SO4 SO4 . U 3 SO4 A 1 720 19 SO4 SO4 . V 3 SO4 A 1 721 20 SO4 SO4 . W 3 SO4 A 1 722 21 SO4 SO4 . X 3 SO4 A 1 723 22 SO4 SO4 . Y 3 SO4 A 1 724 23 SO4 SO4 . Z 4 HOH A 1 801 3 HOH HOH . Z 4 HOH A 2 802 5 HOH HOH . Z 4 HOH A 3 803 10 HOH HOH . Z 4 HOH A 4 804 18 HOH HOH . Z 4 HOH A 5 805 4 HOH HOH . Z 4 HOH A 6 806 6 HOH HOH . Z 4 HOH A 7 807 38 HOH HOH . Z 4 HOH A 8 808 7 HOH HOH . Z 4 HOH A 9 809 17 HOH HOH . Z 4 HOH A 10 810 31 HOH HOH . Z 4 HOH A 11 811 37 HOH HOH . Z 4 HOH A 12 812 23 HOH HOH . Z 4 HOH A 13 813 39 HOH HOH . Z 4 HOH A 14 814 1 HOH HOH . Z 4 HOH A 15 815 22 HOH HOH . Z 4 HOH A 16 816 20 HOH HOH . Z 4 HOH A 17 817 11 HOH HOH . Z 4 HOH A 18 818 2 HOH HOH . Z 4 HOH A 19 819 25 HOH HOH . Z 4 HOH A 20 820 12 HOH HOH . Z 4 HOH A 21 821 9 HOH HOH . Z 4 HOH A 22 822 33 HOH HOH . Z 4 HOH A 23 823 27 HOH HOH . Z 4 HOH A 24 824 35 HOH HOH . Z 4 HOH A 25 825 28 HOH HOH . Z 4 HOH A 26 826 34 HOH HOH . Z 4 HOH A 27 827 21 HOH HOH . Z 4 HOH A 28 828 15 HOH HOH . Z 4 HOH A 29 829 13 HOH HOH . Z 4 HOH A 30 830 32 HOH HOH . Z 4 HOH A 31 831 14 HOH HOH . Z 4 HOH A 32 832 16 HOH HOH . Z 4 HOH A 33 833 24 HOH HOH . Z 4 HOH A 34 834 29 HOH HOH . Z 4 HOH A 35 835 30 HOH HOH . Z 4 HOH A 36 836 36 HOH HOH . Z 4 HOH A 37 837 8 HOH HOH . Z 4 HOH A 38 838 26 HOH HOH . Z 4 HOH A 39 839 19 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 O8 PNM . . . B 2 10.585 -87.238 -45.75 0.87 61.16 ? O8 PNM 701 A 1 HETATM 2 C C7 PNM . . . B 2 10.036 -87.05 -46.782 0.87 46.21 ? C7 PNM 701 A 1 HETATM 3 N N4 PNM . . . B 2 7.986 -85.323 -46.24 0.87 50.96 ? N4 PNM 701 A 1 HETATM 4 C C3 PNM . . . B 2 6.94 -85.215 -45.2 0.87 48.07 ? C3 PNM 701 A 1 HETATM 5 C C11 PNM . . . B 2 6.697 -83.854 -44.887 0.87 50.4 ? C11 PNM 701 A 1 HETATM 6 O O13 PNM . . . B 2 6.049 -83.553 -43.848 0.87 60.92 ? O13 PNM 701 A 1 HETATM 7 O O12 PNM . . . B 2 7.14 -82.949 -45.642 0.87 42.41 ? O12 PNM 701 A 1 HETATM 8 C C2 PNM . . . B 2 5.627 -85.934 -45.874 0.87 55.41 ? C2 PNM 701 A 1 HETATM 9 C C10 PNM . . . B 2 4.878 -84.962 -46.785 0.87 41.51 ? C10 PNM 701 A 1 HETATM 10 C C9 PNM . . . B 2 4.704 -86.494 -44.796 0.87 49.55 ? C9 PNM 701 A 1 HETATM 11 S S1 PNM . . . B 2 6.296 -87.18 -46.777 0.87 60.96 ? S1 PNM 701 A 1 HETATM 12 C C5 PNM . . . B 2 7.603 -86.666 -47.208 0.87 47.17 ? C5 PNM 701 A 1 HETATM 13 C C6 PNM . . . B 2 8.719 -87.745 -47.071 0.87 50.3 ? C6 PNM 701 A 1 HETATM 14 N N14 PNM . . . B 2 8.475 -88.68 -45.999 0.87 54.64 ? N14 PNM 701 A 1 HETATM 15 C C15 PNM . . . B 2 8.165 -90.061 -46.318 0.87 61.25 ? C15 PNM 701 A 1 HETATM 16 O O16 PNM . . . B 2 8.1 -90.397 -47.452 0.87 57.71 ? O16 PNM 701 A 1 HETATM 17 C C17 PNM . . . B 2 7.922 -91.082 -45.21 0.87 63.63 ? C17 PNM 701 A 1 HETATM 18 C C18 PNM . . . B 2 6.635 -90.777 -44.45 0.87 60.48 ? C18 PNM 701 A 1 HETATM 19 C C19 PNM . . . B 2 5.542 -90.248 -45.115 0.87 59.83 ? C19 PNM 701 A 1 HETATM 20 C C20 PNM . . . B 2 4.376 -89.975 -44.419 0.87 62.1 ? C20 PNM 701 A 1 HETATM 21 C C21 PNM . . . B 2 4.299 -90.23 -43.06 0.87 57.4 ? C21 PNM 701 A 1 HETATM 22 C C22 PNM . . . B 2 5.392 -90.762 -42.398 0.87 65.63 ? C22 PNM 701 A 1 HETATM 23 C C23 PNM . . . B 2 6.56 -91.035 -43.09 0.87 66.96 ? C23 PNM 701 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 608 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 23 #