data_8KCO # _model_server_result.job_id -_Y5GljpJHhhIUDXxmxFqQ _model_server_result.datetime_utc '2024-10-13 17:17:15' _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 8kco # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":501}' # _entry.id 8KCO # _exptl.entry_id 8KCO _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 469.405 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2,2-dimethyl-N-[(7S)-6-oxo-5,7-dihydrobenzo[d][1]benzazepin-7-yl]-N'-(2,2,3,3,3-pentafluoropropyl)propanediamide" _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 90 _cell.entry_id 8KCO _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8KCO _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_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 _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 ? _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 8 _struct_asym.id Q _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 5 oligosaccharide 6 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 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 6 4 3 BMA BMA C1 O1 . O3 HO3 . sing 5 ? 6 5 3 BMA BMA C1 O1 . O6 HO6 . 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 5 n E NAG 1 E 1 NAG A 1699 NAG 5 n E NAG 2 E 2 NAG A 1700 NAG 6 n F NAG 1 F 1 NAG A 1701 NAG 6 n F NAG 2 F 2 NAG A 1702 NAG 6 n F BMA 3 F 3 BMA A 1716 BMA 6 n F BMA 4 F 4 BMA A 1718 BMA 6 n F BMA 5 F 5 BMA A 1717 BMA 5 n G NAG 1 G 1 NAG A 1703 NAG 5 n G NAG 2 G 2 NAG A 1704 NAG 5 n H NAG 1 H 1 NAG A 1706 NAG 5 n H NAG 2 H 2 NAG A 1707 NAG 5 n I NAG 1 I 1 NAG A 1708 NAG 5 n I NAG 2 I 2 NAG A 1709 NAG 5 n J NAG 1 J 1 NAG A 1710 NAG 5 n J NAG 2 J 2 NAG A 1711 NAG # 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 50 A CYS 50 1_555 A SG CYS 62 A CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 A SG CYS 140 A CYS 140 1_555 A SG CYS 159 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf3 A SG CYS 230 A CYS 230 1_555 A SG CYS 248 A CYS 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf4 A SG CYS 586 A CYS 586 1_555 A SG CYS 620 A CYS 620 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? covale ? covale1 A ND2 ASN 45 A ASN 45 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale2 A ND2 ASN 55 A ASN 55 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale3 A ND2 ASN 187 A ASN 187 1_555 O C1 NAG . A NAG 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale4 A ND2 ASN 264 A ASN 264 1_555 N C1 NAG . A NAG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale5 A ND2 ASN 387 A ASN 387 1_555 K C1 NAG . A NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale6 A ND2 ASN 435 A ASN 435 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.419 ? covale ? covale7 A ND2 ASN 464 A ASN 464 1_555 L C1 NAG . A NAG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale8 A ND2 ASN 506 A ASN 506 1_555 M C1 NAG . A NAG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale9 A ND2 ASN 530 A ASN 530 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale10 A ND2 ASN 562 A ASN 562 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale11 A ND2 ASN 573 A ASN 573 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale12 A ND2 ASN 580 A ASN 580 1_555 P C1 NAG . A NAG 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale13 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale14 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale15 F O4 NAG . F NAG 2 1_555 F C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale16 F O3 BMA . F BMA 3 1_555 F C1 BMA . F BMA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale17 F O6 BMA . F BMA 3 1_555 F C1 BMA . F BMA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale18 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale19 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale20 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale21 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? # _chem_comp.formula 'C22 H20 F5 N3 O3' _chem_comp.formula_weight 469.405 _chem_comp.id N60 _chem_comp.mon_nstd_flag . _chem_comp.name "2,2-dimethyl-N-[(7S)-6-oxo-5,7-dihydrobenzo[d][1]benzazepin-7-yl]-N'-(2,2,3,3,3-pentafluoropropyl)propanediamide" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms RO4929097;KK8645V7LE # 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 C32 C31 N60 doub 336 n y C32 C28 N60 sing 337 n y C31 C26 N60 sing 338 n y C28 C22 N60 doub 339 n y C26 C21 N60 doub 340 n y C22 C21 N60 sing 341 n y C22 N10 N60 sing 342 n n C21 C16 N60 sing 343 n n N10 C20 N60 sing 344 n n C16 C24 N60 doub 345 n y C16 C14 N60 sing 346 n y C24 C29 N60 sing 347 n y C20 O08 N60 doub 348 n n C20 C13 N60 sing 349 n n C13 C14 N60 sing 350 n n C13 N09 N60 sing 351 n n C14 C23 N60 doub 352 n y C29 C27 N60 doub 353 n y N09 C15 N60 sing 354 n n C23 C27 N60 sing 355 n y O06 C15 N60 doub 356 n n C15 C12 N60 sing 357 n n F04 C33 N60 sing 358 n n C18 C12 N60 sing 359 n n C12 C17 N60 sing 360 n n C12 C19 N60 sing 361 n n C33 F05 N60 sing 362 n n C33 F03 N60 sing 363 n n C33 C30 N60 sing 364 n n N11 C19 N60 sing 365 n n N11 C25 N60 sing 366 n n C19 O07 N60 doub 367 n n F01 C30 N60 sing 368 n n C30 C25 N60 sing 369 n n C30 F02 N60 sing 370 n n C13 H1 N60 sing 371 n n C17 H2 N60 sing 372 n n C17 H3 N60 sing 373 n n C17 H4 N60 sing 374 n n C24 H5 N60 sing 375 n n C26 H6 N60 sing 376 n n C28 H7 N60 sing 377 n n C18 H8 N60 sing 378 n n C18 H9 N60 sing 379 n n C18 H10 N60 sing 380 n n C23 H11 N60 sing 381 n n C25 H12 N60 sing 382 n n C25 H13 N60 sing 383 n n C27 H14 N60 sing 384 n n C29 H15 N60 sing 385 n n C31 H16 N60 sing 386 n n C32 H17 N60 sing 387 n n N09 H20 N60 sing 388 n n N10 H21 N60 sing 389 n n N11 H23 N60 sing 390 n n # _atom_sites.entry_id 8KCO _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 K 7 NAG A 1 801 1705 NAG NAG . L 7 NAG A 1 802 1712 NAG NAG . M 7 NAG A 1 803 1713 NAG NAG . N 7 NAG A 1 804 1714 NAG NAG . O 7 NAG A 1 805 1715 NAG NAG . P 7 NAG A 1 806 1719 NAG NAG . Q 8 N60 B 1 501 1 N60 LIG . R 9 PC1 B 1 502 501 PC1 PC1 . S 10 CLR C 1 301 301 CLR CLR . T 10 CLR C 1 302 401 CLR CLR . U 10 CLR C 1 303 501 CLR CLR . V 9 PC1 C 1 304 601 PC1 PC1 . # 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 C C13 N60 . . . Q 8 169.194 176.023 144.779 1 49.5 ? C13 N60 501 B 1 HETATM 2 C C15 N60 . . . Q 8 168.781 174.632 146.805 1 49.5 ? C15 N60 501 B 1 HETATM 3 C C17 N60 . . . Q 8 170.644 174.469 148.446 1 49.5 ? C17 N60 501 B 1 HETATM 4 C C20 N60 . . . Q 8 170.41 176.509 144.022 1 49.5 ? C20 N60 501 B 1 HETATM 5 C C21 N60 . . . Q 8 167.752 176.909 142.268 1 49.5 ? C21 N60 501 B 1 HETATM 6 C C22 N60 . . . Q 8 169.104 176.462 141.798 1 49.5 ? C22 N60 501 B 1 HETATM 7 C C24 N60 . . . Q 8 166.554 178.844 143.636 1 49.5 ? C24 N60 501 B 1 HETATM 8 C C26 N60 . . . Q 8 166.501 176.649 141.405 1 49.5 ? C26 N60 501 B 1 HETATM 9 C C28 N60 . . . Q 8 169.26 175.725 140.451 1 49.5 ? C28 N60 501 B 1 HETATM 10 C C12 N60 . . . Q 8 169.209 174.076 148.155 1 49.5 ? C12 N60 501 B 1 HETATM 11 C C14 N60 . . . Q 8 168.214 177.216 144.871 1 49.5 ? C14 N60 501 B 1 HETATM 12 C C16 N60 . . . Q 8 167.525 177.656 143.613 1 49.5 ? C16 N60 501 B 1 HETATM 13 C C18 N60 . . . Q 8 169.191 172.561 148.081 1 49.5 ? C18 N60 501 B 1 HETATM 14 C C19 N60 . . . Q 8 168.327 174.535 149.308 1 49.5 ? C19 N60 501 B 1 HETATM 15 C C23 N60 . . . Q 8 167.995 177.953 146.202 1 49.5 ? C23 N60 501 B 1 HETATM 16 C C25 N60 . . . Q 8 166.177 175.085 150.407 1 49.5 ? C25 N60 501 B 1 HETATM 17 C C27 N60 . . . Q 8 167.029 179.137 146.24 1 49.5 ? C27 N60 501 B 1 HETATM 18 C C29 N60 . . . Q 8 166.306 179.587 144.953 1 49.5 ? C29 N60 501 B 1 HETATM 19 C C30 N60 . . . Q 8 165.88 176.568 150.314 1 49.5 ? C30 N60 501 B 1 HETATM 20 C C31 N60 . . . Q 8 166.64 175.92 140.062 1 49.5 ? C31 N60 501 B 1 HETATM 21 C C32 N60 . . . Q 8 168.032 175.459 139.581 1 49.5 ? C32 N60 501 B 1 HETATM 22 C C33 N60 . . . Q 8 164.959 176.777 149.132 1 49.5 ? C33 N60 501 B 1 HETATM 23 F F01 N60 . . . Q 8 167.038 177.26 150.14 1 49.5 ? F01 N60 501 B 1 HETATM 24 F F02 N60 . . . Q 8 165.261 176.977 151.453 1 49.5 ? F02 N60 501 B 1 HETATM 25 F F03 N60 . . . Q 8 163.959 175.861 149.184 1 49.5 ? F03 N60 501 B 1 HETATM 26 F F04 N60 . . . Q 8 165.666 176.61 147.987 1 49.5 ? F04 N60 501 B 1 HETATM 27 F F05 N60 . . . Q 8 164.447 178.033 149.181 1 49.5 ? F05 N60 501 B 1 HETATM 28 N N09 N60 . . . Q 8 169.632 175.543 146.075 1 49.5 ? N09 N60 501 B 1 HETATM 29 N N10 N60 . . . Q 8 170.292 176.702 142.605 1 49.5 ? N10 N60 501 B 1 HETATM 30 N N11 N60 . . . Q 8 166.888 174.647 149.219 1 49.5 ? N11 N60 501 B 1 HETATM 31 O O06 N60 . . . Q 8 167.746 174.323 146.335 1 49.5 ? O06 N60 501 B 1 HETATM 32 O O07 N60 . . . Q 8 168.829 174.798 150.335 1 49.5 ? O07 N60 501 B 1 HETATM 33 O O08 N60 . . . Q 8 171.419 176.737 144.589 1 49.5 ? O08 N60 501 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 44 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 33 #