data_7LBT # _model_server_result.job_id n2cD1HYLMljN2ysBq5khHA _model_server_result.datetime_utc '2024-11-26 23:07:05' _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 7lbt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":501}' # _entry.id 7LBT # _exptl.entry_id 7LBT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 638.802 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 11-cyclopentyl-2-({2-ethoxy-4-[4-(4-methylpiperazin-1-yl)piperidine-1-carbonyl]phenyl}amino)-5-methyl-5,11-dihydro-6H-pyrimido[4,5-b][1,4]benzodiazepin-6-one _entity.pdbx_number_of_molecules 4 _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 7LBT _cell.length_a 100.29 _cell.length_b 165.19 _cell.length_c 108.69 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7LBT _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # 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 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,I 1 1 B,F,J 2 1 C,G,K 3 1 D,H,L 4 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 ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N # _chem_comp.formula 'C36 H46 N8 O3' _chem_comp.formula_weight 638.802 _chem_comp.id VYJ _chem_comp.mon_nstd_flag . _chem_comp.name 11-cyclopentyl-2-({2-ethoxy-4-[4-(4-methylpiperazin-1-yl)piperidine-1-carbonyl]phenyl}amino)-5-methyl-5,11-dihydro-6H-pyrimido[4,5-b][1,4]benzodiazepin-6-one _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 C21 C22 VYJ sing 376 n n C21 C13 VYJ sing 377 n n C22 N10 VYJ sing 378 n n C18 C19 VYJ sing 379 n n C18 N17 VYJ sing 380 n n C20 N17 VYJ sing 381 n n N14 C19 VYJ sing 382 n n N14 C13 VYJ sing 383 n n N14 C15 VYJ sing 384 n n C16 N17 VYJ sing 385 n n C16 C15 VYJ sing 386 n n C13 C12 VYJ sing 387 n n O23 C09 VYJ doub 388 n n N10 C09 VYJ sing 389 n n N10 C11 VYJ sing 390 n n C09 C08 VYJ sing 391 n n C12 C11 VYJ sing 392 n n C08 C07 VYJ doub 393 n y C08 C24 VYJ sing 394 n y C39 C40 VYJ sing 395 n n C39 C38 VYJ sing 396 n n C40 C41 VYJ sing 397 n n C07 C06 VYJ sing 398 n y C24 C04 VYJ doub 399 n y C41 C37 VYJ sing 400 n n C38 C37 VYJ sing 401 n n C06 C05 VYJ doub 402 n y C04 C05 VYJ sing 403 n y C04 O03 VYJ sing 404 n n C02 O03 VYJ sing 405 n n C02 C01 VYJ sing 406 n n C37 N34 VYJ sing 407 n n C05 N25 VYJ sing 408 n n N25 C26 VYJ sing 409 n n N34 C35 VYJ sing 410 n n N34 C33 VYJ sing 411 n n N36 C26 VYJ doub 412 n y N36 C35 VYJ sing 413 n y C42 C33 VYJ doub 414 n y C42 C43 VYJ sing 415 n y C26 N27 VYJ sing 416 n y C35 C29 VYJ doub 417 n y C33 C32 VYJ sing 418 n y C43 C44 VYJ doub 419 n y N27 C28 VYJ doub 420 n y C29 C28 VYJ sing 421 n y C29 N30 VYJ sing 422 n n C32 C31 VYJ sing 423 n n C32 C45 VYJ doub 424 n y C44 C45 VYJ sing 425 n y N30 C31 VYJ sing 426 n n N30 C47 VYJ sing 427 n n C31 O46 VYJ doub 428 n n C13 H1 VYJ sing 429 n n C15 H2 VYJ sing 430 n n C15 H3 VYJ sing 431 n n C20 H4 VYJ sing 432 n n C20 H5 VYJ sing 433 n n C20 H6 VYJ sing 434 n n C21 H7 VYJ sing 435 n n C21 H8 VYJ sing 436 n n C22 H9 VYJ sing 437 n n C22 H10 VYJ sing 438 n n C24 H11 VYJ sing 439 n n C28 H12 VYJ sing 440 n n C01 H13 VYJ sing 441 n n C01 H14 VYJ sing 442 n n C01 H15 VYJ sing 443 n n C02 H16 VYJ sing 444 n n C02 H17 VYJ sing 445 n n C06 H18 VYJ sing 446 n n C07 H19 VYJ sing 447 n n C11 H20 VYJ sing 448 n n C11 H21 VYJ sing 449 n n C12 H22 VYJ sing 450 n n C12 H23 VYJ sing 451 n n C16 H24 VYJ sing 452 n n C16 H25 VYJ sing 453 n n C18 H26 VYJ sing 454 n n C18 H27 VYJ sing 455 n n C19 H28 VYJ sing 456 n n C19 H29 VYJ sing 457 n n C37 H30 VYJ sing 458 n n C38 H31 VYJ sing 459 n n C38 H32 VYJ sing 460 n n C39 H33 VYJ sing 461 n n C39 H34 VYJ sing 462 n n C40 H35 VYJ sing 463 n n C40 H36 VYJ sing 464 n n C41 H37 VYJ sing 465 n n C41 H38 VYJ sing 466 n n C42 H39 VYJ sing 467 n n C43 H40 VYJ sing 468 n n C44 H41 VYJ sing 469 n n C45 H42 VYJ sing 470 n n C47 H43 VYJ sing 471 n n C47 H44 VYJ sing 472 n n C47 H45 VYJ sing 473 n n N25 H48 VYJ sing 474 n n # _atom_sites.entry_id 7LBT _atom_sites.fract_transf_matrix[1][1] 0.009971 _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] 0.006054 _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] 0.0092 _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 E 2 VYJ A 1 501 3 VYJ ERK . F 2 VYJ B 1 501 1 VYJ ERK . G 2 VYJ C 1 501 2 VYJ ERK . H 2 VYJ D 1 501 4 VYJ ERK . I 3 HOH A 1 601 54 HOH HOH . I 3 HOH A 2 602 30 HOH HOH . I 3 HOH A 3 603 50 HOH HOH . I 3 HOH A 4 604 44 HOH HOH . I 3 HOH A 5 605 31 HOH HOH . I 3 HOH A 6 606 38 HOH HOH . I 3 HOH A 7 607 39 HOH HOH . I 3 HOH A 8 608 14 HOH HOH . I 3 HOH A 9 609 10 HOH HOH . I 3 HOH A 10 610 45 HOH HOH . I 3 HOH A 11 611 56 HOH HOH . I 3 HOH A 12 612 21 HOH HOH . I 3 HOH A 13 613 26 HOH HOH . I 3 HOH A 14 614 67 HOH HOH . I 3 HOH A 15 615 46 HOH HOH . I 3 HOH A 16 616 57 HOH HOH . I 3 HOH A 17 617 24 HOH HOH . I 3 HOH A 18 618 40 HOH HOH . I 3 HOH A 19 619 20 HOH HOH . I 3 HOH A 20 620 55 HOH HOH . I 3 HOH A 21 621 11 HOH HOH . J 3 HOH B 1 601 36 HOH HOH . J 3 HOH B 2 602 41 HOH HOH . J 3 HOH B 3 603 8 HOH HOH . J 3 HOH B 4 604 3 HOH HOH . J 3 HOH B 5 605 33 HOH HOH . J 3 HOH B 6 606 68 HOH HOH . J 3 HOH B 7 607 6 HOH HOH . J 3 HOH B 8 608 62 HOH HOH . J 3 HOH B 9 609 25 HOH HOH . J 3 HOH B 10 610 64 HOH HOH . J 3 HOH B 11 611 2 HOH HOH . J 3 HOH B 12 612 4 HOH HOH . J 3 HOH B 13 613 35 HOH HOH . J 3 HOH B 14 614 23 HOH HOH . J 3 HOH B 15 615 9 HOH HOH . J 3 HOH B 16 616 49 HOH HOH . J 3 HOH B 17 617 48 HOH HOH . J 3 HOH B 18 618 7 HOH HOH . J 3 HOH B 19 619 43 HOH HOH . J 3 HOH B 20 620 65 HOH HOH . J 3 HOH B 21 621 75 HOH HOH . J 3 HOH B 22 622 32 HOH HOH . J 3 HOH B 23 623 12 HOH HOH . J 3 HOH B 24 624 19 HOH HOH . J 3 HOH B 25 625 74 HOH HOH . J 3 HOH B 26 626 47 HOH HOH . J 3 HOH B 27 627 59 HOH HOH . J 3 HOH B 28 628 42 HOH HOH . J 3 HOH B 29 629 77 HOH HOH . K 3 HOH C 1 601 76 HOH HOH . K 3 HOH C 2 602 15 HOH HOH . K 3 HOH C 3 603 16 HOH HOH . K 3 HOH C 4 604 1 HOH HOH . K 3 HOH C 5 605 22 HOH HOH . K 3 HOH C 6 606 66 HOH HOH . K 3 HOH C 7 607 78 HOH HOH . K 3 HOH C 8 608 17 HOH HOH . K 3 HOH C 9 609 5 HOH HOH . K 3 HOH C 10 610 53 HOH HOH . K 3 HOH C 11 611 60 HOH HOH . K 3 HOH C 12 612 73 HOH HOH . K 3 HOH C 13 613 71 HOH HOH . K 3 HOH C 14 614 13 HOH HOH . K 3 HOH C 15 615 28 HOH HOH . K 3 HOH C 16 616 27 HOH HOH . K 3 HOH C 17 617 37 HOH HOH . K 3 HOH C 18 618 29 HOH HOH . K 3 HOH C 19 619 63 HOH HOH . K 3 HOH C 20 620 69 HOH HOH . L 3 HOH D 1 601 34 HOH HOH . L 3 HOH D 2 602 18 HOH HOH . L 3 HOH D 3 603 72 HOH HOH . L 3 HOH D 4 604 51 HOH HOH . L 3 HOH D 5 605 58 HOH HOH . L 3 HOH D 6 606 61 HOH HOH . L 3 HOH D 7 607 70 HOH HOH . L 3 HOH D 8 608 52 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 C C13 VYJ . . . F 2 -13.289 -55.724 9.993 1 91.48 ? C13 VYJ 501 B 1 HETATM 2 C C15 VYJ . . . F 2 -12.025 -57.486 11.451 1 94.54 ? C15 VYJ 501 B 1 HETATM 3 C C20 VYJ . . . F 2 -8.268 -58.335 11.399 1 84.72 ? C20 VYJ 501 B 1 HETATM 4 C C21 VYJ . . . F 2 -14.659 -56.448 10.012 1 88.57 ? C21 VYJ 501 B 1 HETATM 5 C C22 VYJ . . . F 2 -15.859 -55.453 9.98 1 86.22 ? C22 VYJ 501 B 1 HETATM 6 C C24 VYJ . . . F 2 -15.527 -50.768 9.643 1 52.81 ? C24 VYJ 501 B 1 HETATM 7 C C26 VYJ . . . F 2 -13.853 -47.964 13.357 1 21.57 ? C26 VYJ 501 B 1 HETATM 8 C C28 VYJ . . . F 2 -12.875 -46.366 14.8 1 20.68 ? C28 VYJ 501 B 1 HETATM 9 C C01 VYJ . . . F 2 -13.25 -47.567 7.703 1 30.68 ? C01 VYJ 501 B 1 HETATM 10 C C02 VYJ . . . F 2 -13.365 -48.71 8.735 1 36.41 ? C02 VYJ 501 B 1 HETATM 11 C C04 VYJ . . . F 2 -14.944 -49.643 10.25 1 41.66 ? C04 VYJ 501 B 1 HETATM 12 C C05 VYJ . . . F 2 -14.739 -49.603 11.651 1 33.7 ? C05 VYJ 501 B 1 HETATM 13 C C06 VYJ . . . F 2 -15.118 -50.729 12.414 1 34.12 ? C06 VYJ 501 B 1 HETATM 14 C C07 VYJ . . . F 2 -15.691 -51.852 11.798 1 49.72 ? C07 VYJ 501 B 1 HETATM 15 C C08 VYJ . . . F 2 -15.93 -51.901 10.398 1 61.64 ? C08 VYJ 501 B 1 HETATM 16 C C09 VYJ . . . F 2 -16.497 -53.103 9.833 1 68.21 ? C09 VYJ 501 B 1 HETATM 17 C C11 VYJ . . . F 2 -14.439 -53.831 8.663 1 80.32 ? C11 VYJ 501 B 1 HETATM 18 C C12 VYJ . . . F 2 -13.242 -54.826 8.719 1 84.47 ? C12 VYJ 501 B 1 HETATM 19 C C16 VYJ . . . F 2 -10.586 -57.542 12.04 1 91.99 ? C16 VYJ 501 B 1 HETATM 20 C C18 VYJ . . . F 2 -9.597 -56.785 9.895 1 94.2 ? C18 VYJ 501 B 1 HETATM 21 C C19 VYJ . . . F 2 -10.991 -56.737 9.2 1 96.98 ? C19 VYJ 501 B 1 HETATM 22 C C29 VYJ . . . F 2 -13.221 -47.093 15.961 1 25.39 ? C29 VYJ 501 B 1 HETATM 23 C C31 VYJ . . . F 2 -13.761 -46.645 18.298 1 18.69 ? C31 VYJ 501 B 1 HETATM 24 C C32 VYJ . . . F 2 -15.008 -47.336 18.319 1 16.35 ? C32 VYJ 501 B 1 HETATM 25 C C33 VYJ . . . F 2 -15.285 -48.528 17.563 1 24.34 ? C33 VYJ 501 B 1 HETATM 26 C C35 VYJ . . . F 2 -13.915 -48.305 15.724 1 27.44 ? C35 VYJ 501 B 1 HETATM 27 C C37 VYJ . . . F 2 -14.262 -50.579 16.488 1 15.11 ? C37 VYJ 501 B 1 HETATM 28 C C38 VYJ . . . F 2 -14.524 -51.498 17.705 1 15.31 ? C38 VYJ 501 B 1 HETATM 29 C C39 VYJ . . . F 2 -13.895 -52.85 17.35 1 19.7 ? C39 VYJ 501 B 1 HETATM 30 C C40 VYJ . . . F 2 -12.635 -52.504 16.534 1 15.21 ? C40 VYJ 501 B 1 HETATM 31 C C41 VYJ . . . F 2 -12.892 -51.098 15.955 1 18.71 ? C41 VYJ 501 B 1 HETATM 32 C C42 VYJ . . . F 2 -16.591 -49.092 17.662 1 15.26 ? C42 VYJ 501 B 1 HETATM 33 C C43 VYJ . . . F 2 -17.579 -48.529 18.473 1 15.39 ? C43 VYJ 501 B 1 HETATM 34 C C44 VYJ . . . F 2 -17.298 -47.378 19.212 1 22.55 ? C44 VYJ 501 B 1 HETATM 35 C C45 VYJ . . . F 2 -16.028 -46.788 19.131 1 16.95 ? C45 VYJ 501 B 1 HETATM 36 C C47 VYJ . . . F 2 -11.566 -46.044 17.398 1 16.85 ? C47 VYJ 501 B 1 HETATM 37 N N10 VYJ . . . F 2 -15.724 -54.161 9.295 1 80.44 ? N10 VYJ 501 B 1 HETATM 38 N N14 VYJ . . . F 2 -12.165 -56.724 10.152 1 97.45 ? N14 VYJ 501 B 1 HETATM 39 N N17 VYJ . . . F 2 -9.606 -57.854 10.948 1 92.26 ? N17 VYJ 501 B 1 HETATM 40 N N25 VYJ . . . F 2 -14.185 -48.444 12.127 1 32.06 ? N25 VYJ 501 B 1 HETATM 41 N N27 VYJ . . . F 2 -13.186 -46.818 13.57 1 15.12 ? N27 VYJ 501 B 1 HETATM 42 N N30 VYJ . . . F 2 -12.884 -46.63 17.223 1 17.54 ? N30 VYJ 501 B 1 HETATM 43 N N34 VYJ . . . F 2 -14.344 -49.128 16.721 1 28.15 ? N34 VYJ 501 B 1 HETATM 44 N N36 VYJ . . . F 2 -14.205 -48.68 14.446 1 27.29 ? N36 VYJ 501 B 1 HETATM 45 O O03 VYJ . . . F 2 -14.616 -48.581 9.447 1 39.4 ? O03 VYJ 501 B 1 HETATM 46 O O23 VYJ . . . F 2 -17.77 -53.171 9.851 1 55.09 ? O23 VYJ 501 B 1 HETATM 47 O O46 VYJ . . . F 2 -13.478 -45.98 19.332 1 17.52 ? O46 VYJ 501 B 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 47 #