data_5TVT # _model_server_result.job_id 3N1CTJ-7Iixajh4ik_POwg _model_server_result.datetime_utc '2024-12-21 16:57:55' _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 5tvt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5TVT # _exptl.entry_id 5TVT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 514.447 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 9-(3,5-dichloro-4-hydroxyphenyl)-1-{trans-4-[(dimethylamino)methyl]cyclohexyl}-3-methyl-3,4-dihydropyrimido[5,4-c][1,5]naphthyridin-2(1H)-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 90 _cell.entry_id 5TVT _cell.length_a 56.69 _cell.length_b 68.65 _cell.length_c 105.04 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TVT _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 # _chem_comp.formula 'C26 H29 Cl2 N5 O2' _chem_comp.formula_weight 514.447 _chem_comp.id 7LV _chem_comp.mon_nstd_flag . _chem_comp.name 9-(3,5-dichloro-4-hydroxyphenyl)-1-{trans-4-[(dimethylamino)methyl]cyclohexyl}-3-methyl-3,4-dihydropyrimido[5,4-c][1,5]naphthyridin-2(1H)-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 C13 N3 7LV doub 1 n y C13 C12 7LV sing 2 n y C11 C12 7LV sing 3 n n C11 N2 7LV sing 4 n n C10 N2 7LV sing 5 n n N3 C14 7LV sing 6 n y C12 C19 7LV doub 7 n y N2 C9 7LV sing 8 n n C14 C15 7LV doub 9 n y C14 C18 7LV sing 10 n y C19 C18 7LV sing 11 n y C19 N1 7LV sing 12 n n C15 C16 7LV sing 13 n y C9 O 7LV doub 14 n n C9 N1 7LV sing 15 n n C18 N4 7LV doub 16 n y N1 C6 7LV sing 17 n n C16 C17 7LV doub 18 n y N4 C17 7LV sing 19 n y C5 C6 7LV sing 20 n n C5 C4 7LV sing 21 n n C6 C7 7LV sing 22 n n C17 C20 7LV sing 23 n n C4 C3 7LV sing 24 n n C7 C8 7LV sing 25 n n C20 C21 7LV doub 26 n y C20 C25 7LV sing 27 n y C21 C22 7LV sing 28 n y C25 C24 7LV doub 29 n y C3 C8 7LV sing 30 n n C3 C2 7LV sing 31 n n C22 CL 7LV sing 32 n n C22 C23 7LV doub 33 n y C24 C23 7LV sing 34 n y C24 CL1 7LV sing 35 n n C2 N 7LV sing 36 n n C23 O1 7LV sing 37 n n C1 N 7LV sing 38 n n N C 7LV sing 39 n n C1 H1 7LV sing 40 n n C1 H2 7LV sing 41 n n C1 H3 7LV sing 42 n n C2 H4 7LV sing 43 n n C2 H5 7LV sing 44 n n C3 H6 7LV sing 45 n n C4 H7 7LV sing 46 n n C4 H8 7LV sing 47 n n C5 H9 7LV sing 48 n n C5 H10 7LV sing 49 n n C6 H11 7LV sing 50 n n O1 H12 7LV sing 51 n n C7 H13 7LV sing 52 n n C7 H14 7LV sing 53 n n C8 H15 7LV sing 54 n n C8 H16 7LV sing 55 n n C21 H17 7LV sing 56 n n C25 H18 7LV sing 57 n n C16 H19 7LV sing 58 n n C15 H20 7LV sing 59 n n C13 H21 7LV sing 60 n n C11 H22 7LV sing 61 n n C11 H23 7LV sing 62 n n C10 H24 7LV sing 63 n n C10 H25 7LV sing 64 n n C10 H26 7LV sing 65 n n C H28 7LV sing 66 n n C H29 7LV sing 67 n n C H30 7LV sing 68 n n # _atom_sites.entry_id 5TVT _atom_sites.fract_transf_matrix[1][1] 0.01764 _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] 0.014567 _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] 0.00952 _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 7LV A 1 401 334 7LV ZYX . C 3 HOH A 1 501 68 HOH HOH . C 3 HOH A 2 502 71 HOH HOH . C 3 HOH A 3 503 79 HOH HOH . C 3 HOH A 4 504 28 HOH HOH . C 3 HOH A 5 505 10 HOH HOH . C 3 HOH A 6 506 6 HOH HOH . C 3 HOH A 7 507 23 HOH HOH . C 3 HOH A 8 508 65 HOH HOH . C 3 HOH A 9 509 7 HOH HOH . C 3 HOH A 10 510 77 HOH HOH . C 3 HOH A 11 511 9 HOH HOH . C 3 HOH A 12 512 16 HOH HOH . C 3 HOH A 13 513 94 HOH HOH . C 3 HOH A 14 514 11 HOH HOH . C 3 HOH A 15 515 29 HOH HOH . C 3 HOH A 16 516 18 HOH HOH . C 3 HOH A 17 517 89 HOH HOH . C 3 HOH A 18 518 26 HOH HOH . C 3 HOH A 19 519 66 HOH HOH . C 3 HOH A 20 520 2 HOH HOH . C 3 HOH A 21 521 5 HOH HOH . C 3 HOH A 22 522 32 HOH HOH . C 3 HOH A 23 523 12 HOH HOH . C 3 HOH A 24 524 14 HOH HOH . C 3 HOH A 25 525 17 HOH HOH . C 3 HOH A 26 526 60 HOH HOH . C 3 HOH A 27 527 81 HOH HOH . C 3 HOH A 28 528 62 HOH HOH . C 3 HOH A 29 529 45 HOH HOH . C 3 HOH A 30 530 56 HOH HOH . C 3 HOH A 31 531 46 HOH HOH . C 3 HOH A 32 532 4 HOH HOH . C 3 HOH A 33 533 15 HOH HOH . C 3 HOH A 34 534 22 HOH HOH . C 3 HOH A 35 535 61 HOH HOH . C 3 HOH A 36 536 1 HOH HOH . C 3 HOH A 37 537 72 HOH HOH . C 3 HOH A 38 538 70 HOH HOH . C 3 HOH A 39 539 20 HOH HOH . C 3 HOH A 40 540 37 HOH HOH . C 3 HOH A 41 541 34 HOH HOH . C 3 HOH A 42 542 24 HOH HOH . C 3 HOH A 43 543 88 HOH HOH . C 3 HOH A 44 544 41 HOH HOH . C 3 HOH A 45 545 39 HOH HOH . C 3 HOH A 46 546 57 HOH HOH . C 3 HOH A 47 547 13 HOH HOH . C 3 HOH A 48 548 30 HOH HOH . C 3 HOH A 49 549 58 HOH HOH . C 3 HOH A 50 550 59 HOH HOH . C 3 HOH A 51 551 51 HOH HOH . C 3 HOH A 52 552 25 HOH HOH . C 3 HOH A 53 553 75 HOH HOH . C 3 HOH A 54 554 50 HOH HOH . C 3 HOH A 55 555 8 HOH HOH . C 3 HOH A 56 556 36 HOH HOH . C 3 HOH A 57 557 73 HOH HOH . C 3 HOH A 58 558 27 HOH HOH . C 3 HOH A 59 559 21 HOH HOH . C 3 HOH A 60 560 3 HOH HOH . C 3 HOH A 61 561 48 HOH HOH . C 3 HOH A 62 562 35 HOH HOH . C 3 HOH A 63 563 91 HOH HOH . C 3 HOH A 64 564 95 HOH HOH . C 3 HOH A 65 565 93 HOH HOH . C 3 HOH A 66 566 64 HOH HOH . C 3 HOH A 67 567 52 HOH HOH . C 3 HOH A 68 568 83 HOH HOH . C 3 HOH A 69 569 96 HOH HOH . C 3 HOH A 70 570 42 HOH HOH . C 3 HOH A 71 571 69 HOH HOH . C 3 HOH A 72 572 49 HOH HOH . C 3 HOH A 73 573 33 HOH HOH . C 3 HOH A 74 574 19 HOH HOH . C 3 HOH A 75 575 63 HOH HOH . C 3 HOH A 76 576 53 HOH HOH . C 3 HOH A 77 577 90 HOH HOH . C 3 HOH A 78 578 76 HOH HOH . C 3 HOH A 79 579 55 HOH HOH . C 3 HOH A 80 580 40 HOH HOH . C 3 HOH A 81 581 82 HOH HOH . C 3 HOH A 82 582 86 HOH HOH . C 3 HOH A 83 583 31 HOH HOH . C 3 HOH A 84 584 54 HOH HOH . C 3 HOH A 85 585 80 HOH HOH . C 3 HOH A 86 586 44 HOH HOH . C 3 HOH A 87 587 97 HOH HOH . C 3 HOH A 88 588 85 HOH HOH . C 3 HOH A 89 589 78 HOH HOH . C 3 HOH A 90 590 87 HOH HOH . C 3 HOH A 91 591 92 HOH HOH . C 3 HOH A 92 592 74 HOH HOH . C 3 HOH A 93 593 84 HOH HOH . C 3 HOH A 94 594 47 HOH HOH . C 3 HOH A 95 595 43 HOH HOH . C 3 HOH A 96 596 38 HOH HOH . C 3 HOH A 97 597 67 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 C1 7LV . . . B 2 3.745 84.706 7.217 1 88.51 ? C1 7LV 401 A 1 HETATM 2 C C2 7LV . . . B 2 4.723 82.511 7.037 1 84.71 ? C2 7LV 401 A 1 HETATM 3 C C3 7LV . . . B 2 3.918 82.282 5.762 1 67.96 ? C3 7LV 401 A 1 HETATM 4 C C4 7LV . . . B 2 4.887 81.954 4.632 1 61.39 ? C4 7LV 401 A 1 HETATM 5 C C5 7LV . . . B 2 4.141 81.742 3.322 1 58.43 ? C5 7LV 401 A 1 HETATM 6 C C6 7LV . . . B 2 3.177 80.575 3.496 1 50.05 ? C6 7LV 401 A 1 HETATM 7 O O1 7LV . . . B 2 8.254 77.387 8.195 1 49.65 ? O1 7LV 401 A 1 HETATM 8 N N1 7LV . . . B 2 2.458 80.231 2.255 1 55.64 ? N1 7LV 401 A 1 HETATM 9 C C7 7LV . . . B 2 2.201 80.835 4.648 1 55.74 ? C7 7LV 401 A 1 HETATM 10 C C8 7LV . . . B 2 2.936 81.131 5.952 1 54.97 ? C8 7LV 401 A 1 HETATM 11 N N2 7LV . . . B 2 0.831 80.884 0.51 1 65.44 ? N2 7LV 401 A 1 HETATM 12 CL CL1 7LV . . . B 2 7.581 74.437 7.486 1 47.57 ? CL1 7LV 401 A 1 HETATM 13 C C24 7LV . . . B 2 7.088 75.906 6.587 1 48.48 ? C24 7LV 401 A 1 HETATM 14 C C23 7LV . . . B 2 7.499 77.241 7.074 1 44.9 ? C23 7LV 401 A 1 HETATM 15 C C22 7LV . . . B 2 7.068 78.42 6.295 1 49.54 ? C22 7LV 401 A 1 HETATM 16 CL CL 7LV . . . B 2 7.528 80.061 6.824 1 49.15 ? CL 7LV 401 A 1 HETATM 17 C C21 7LV . . . B 2 6.304 78.241 5.154 1 50.41 ? C21 7LV 401 A 1 HETATM 18 C C25 7LV . . . B 2 6.321 75.82 5.43 1 42.01 ? C25 7LV 401 A 1 HETATM 19 C C20 7LV . . . B 2 5.947 76.967 4.732 1 46.64 ? C20 7LV 401 A 1 HETATM 20 C C17 7LV . . . B 2 5.116 76.85 3.511 1 50.3 ? C17 7LV 401 A 1 HETATM 21 C C16 7LV . . . B 2 5.159 75.68 2.763 1 43.64 ? C16 7LV 401 A 1 HETATM 22 C C15 7LV . . . B 2 4.378 75.564 1.625 1 48.71 ? C15 7LV 401 A 1 HETATM 23 N N4 7LV . . . B 2 4.33 77.896 3.163 1 34.35 ? N4 7LV 401 A 1 HETATM 24 C C18 7LV . . . B 2 3.535 77.86 2.069 1 38.55 ? C18 7LV 401 A 1 HETATM 25 C C14 7LV . . . B 2 3.563 76.621 1.247 1 39.42 ? C14 7LV 401 A 1 HETATM 26 N N3 7LV . . . B 2 2.808 76.495 0.14 1 44.09 ? N3 7LV 401 A 1 HETATM 27 C C13 7LV . . . B 2 1.996 77.464 -0.285 1 40.1 ? C13 7LV 401 A 1 HETATM 28 C C19 7LV . . . B 2 2.63 78.969 1.616 1 43.45 ? C19 7LV 401 A 1 HETATM 29 C C12 7LV . . . B 2 1.859 78.678 0.374 1 45.9 ? C12 7LV 401 A 1 HETATM 30 C C11 7LV . . . B 2 0.937 79.626 -0.218 1 56.49 ? C11 7LV 401 A 1 HETATM 31 C C10 7LV . . . B 2 -0.077 81.905 -0.017 1 75.24 ? C10 7LV 401 A 1 HETATM 32 C C9 7LV . . . B 2 1.555 81.164 1.684 1 69.15 ? C9 7LV 401 A 1 HETATM 33 O O 7LV . . . B 2 1.362 82.286 2.2 1 82.9 ? O 7LV 401 A 1 HETATM 34 N N 7LV . . . B 2 4.045 83.457 7.934 1 89.5 ? N 7LV 401 A 1 HETATM 35 C C 7LV . . . B 2 4.935 83.758 9.065 1 86.48 ? C 7LV 401 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 35 #