data_5HBM # _model_server_result.job_id oQSLXK5sLWtandhuGLL-OQ _model_server_result.datetime_utc '2024-10-19 06:34:32' _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 5hbm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 5HBM # _exptl.entry_id 5HBM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 266.298 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "11-CYCLOPROPYL-5,11-DIHYDRO-4-METHYL-6H-DIPYRIDO[3,2-B:2',3'-E][1,4]DIAZEPIN-6-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 100.62 _cell.angle_gamma 90 _cell.entry_id 5HBM _cell.length_a 103.931 _cell.length_b 69.472 _cell.length_c 219.344 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5HBM _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 1 2 1' # _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 _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 OD2 ASP 445 A ASP 443 1_555 E MN MN . A MN 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? metalc ? metalc2 A OD1 ASP 445 A ASP 443 1_555 F MN MN . A MN 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.159 ? metalc ? metalc3 A OE2 GLU 480 A GLU 478 1_555 F MN MN . A MN 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc4 A OD1 ASP 500 A ASP 498 1_555 F MN MN . A MN 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.139 ? metalc ? metalc5 A OD2 ASP 500 A ASP 498 1_555 F MN MN . A MN 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? metalc ? metalc6 A OD1 ASP 551 A ASP 549 1_555 E MN MN . A MN 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc7 D O1 F95 . A F95 602 1_555 E MN MN . A MN 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? metalc ? metalc8 D O2 F95 . A F95 602 1_555 E MN MN . A MN 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? metalc ? metalc9 D O1 F95 . A F95 602 1_555 F MN MN . A MN 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc10 D O3 F95 . A F95 602 1_555 F MN MN . A MN 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? metalc ? metalc11 E MN MN . A MN 603 1_555 G O HOH . A HOH 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? # _chem_comp.formula 'C15 H14 N4 O' _chem_comp.formula_weight 266.298 _chem_comp.id NVP _chem_comp.mon_nstd_flag . _chem_comp.name "11-CYCLOPROPYL-5,11-DIHYDRO-4-METHYL-6H-DIPYRIDO[3,2-B:2',3'-E][1,4]DIAZEPIN-6-ONE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'NON-NUCLEOSIDE RT INHIBITOR NEVIRAPINE' # 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 N1 CA NVP sing 263 n n N1 C2 NVP sing 264 n n N1 C15 NVP sing 265 n n CA CB NVP sing 266 n n CA CC NVP sing 267 n n CA HCA NVP sing 268 n n CB CC NVP sing 269 n n CB HCB1 NVP sing 270 n n CB HCB2 NVP sing 271 n n CC HCC1 NVP sing 272 n n CC HCC2 NVP sing 273 n n N3 C4 NVP doub 274 n y N3 C2 NVP sing 275 n y C4 C5 NVP sing 276 n y C4 HC4 NVP sing 277 n n C5 C6 NVP doub 278 n y C5 HC5 NVP sing 279 n n C6 CD NVP sing 280 n n C6 C7 NVP sing 281 n y CD HCD1 NVP sing 282 n n CD HCD2 NVP sing 283 n n CD HCD3 NVP sing 284 n n C2 C7 NVP doub 285 n y C7 N8 NVP sing 286 n n N8 C9 NVP sing 287 n n N8 HN8 NVP sing 288 n n C9 OE NVP doub 289 n n C9 C10 NVP sing 290 n n C10 C15 NVP doub 291 n y C10 C11 NVP sing 292 n y C15 N14 NVP sing 293 n y C11 C12 NVP doub 294 n y C11 H11 NVP sing 295 n n C12 C13 NVP sing 296 n y C12 H12 NVP sing 297 n n C13 N14 NVP doub 298 n y C13 H13 NVP sing 299 n n # _atom_sites.entry_id 5HBM _atom_sites.fract_transf_matrix[1][1] 0.009622 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001803 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014394 _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] 0.004638 _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 NVP A 1 601 560 NVP NVP . D 4 F95 A 1 602 561 F95 F95 . E 5 MN A 1 603 562 MN MN . F 5 MN A 1 604 563 MN MN . G 6 HOH A 1 701 564 HOH HOH . G 6 HOH A 2 702 565 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 N N1 NVP . . . C 3 3.141 -44.96 266.645 1 55.71 ? N1 NVP 601 A 1 HETATM 2 C CA NVP . . . C 3 4.571 -44.652 266.785 1 51.14 ? CA NVP 601 A 1 HETATM 3 C CB NVP . . . C 3 5.737 -45.558 267.188 1 54.81 ? CB NVP 601 A 1 HETATM 4 C CC NVP . . . C 3 5.392 -44.336 268.039 1 51.7 ? CC NVP 601 A 1 HETATM 5 N N3 NVP . . . C 3 2.641 -42.582 266.315 1 57.64 ? N3 NVP 601 A 1 HETATM 6 C C4 NVP . . . C 3 1.845 -41.518 266.417 1 55.6 ? C4 NVP 601 A 1 HETATM 7 C C5 NVP . . . C 3 0.562 -41.612 267.001 1 56.73 ? C5 NVP 601 A 1 HETATM 8 C C6 NVP . . . C 3 0.138 -42.859 267.482 1 58.32 ? C6 NVP 601 A 1 HETATM 9 C CD NVP . . . C 3 -1.249 -43.014 268.13 1 60.5 ? CD NVP 601 A 1 HETATM 10 C C2 NVP . . . C 3 2.239 -43.798 266.78 1 56.84 ? C2 NVP 601 A 1 HETATM 11 C C7 NVP . . . C 3 0.996 -43.98 267.363 1 57.46 ? C7 NVP 601 A 1 HETATM 12 N N8 NVP . . . C 3 0.551 -45.302 267.853 1 57.04 ? N8 NVP 601 A 1 HETATM 13 C C9 NVP . . . C 3 0.833 -46.641 267.362 1 56.13 ? C9 NVP 601 A 1 HETATM 14 O OE NVP . . . C 3 0.334 -47.559 267.924 1 57.57 ? OE NVP 601 A 1 HETATM 15 C C10 NVP . . . C 3 1.746 -46.929 266.146 1 54.85 ? C10 NVP 601 A 1 HETATM 16 C C15 NVP . . . C 3 2.832 -46.145 265.833 1 55.61 ? C15 NVP 601 A 1 HETATM 17 C C11 NVP . . . C 3 1.477 -48.064 265.327 1 59.92 ? C11 NVP 601 A 1 HETATM 18 C C12 NVP . . . C 3 2.32 -48.312 264.24 1 64.75 ? C12 NVP 601 A 1 HETATM 19 C C13 NVP . . . C 3 3.402 -47.46 263.974 1 59.61 ? C13 NVP 601 A 1 HETATM 20 N N14 NVP . . . C 3 3.63 -46.412 264.759 1 57.85 ? N14 NVP 601 A 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 334 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 20 #