data_6X4B # _model_server_result.job_id fy3auE37OdT02B1gw9x5ag _model_server_result.datetime_utc '2024-12-27 02:37:03' _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 6x4b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 6X4B # _exptl.entry_id 6X4B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 431.416 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 7-{2-[2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)ethoxy]phenoxy}-5-fluoro-8-methylnaphthalene-2-carbonitrile _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 107.77 _cell.angle_gamma 90 _cell.entry_id 6X4B _cell.length_a 221.253 _cell.length_b 67.396 _cell.length_c 102.907 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6X4B _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 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,H,I,J _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 OD1 ASP 445 A ASP 443 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.892 ? metalc ? metalc2 A OE2 GLU 480 A GLU 478 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.475 ? metalc ? metalc3 A OD1 ASP 500 A ASP 498 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc4 A OD2 ASP 500 A ASP 498 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.916 ? # _chem_comp.formula 'C24 H18 F N3 O4' _chem_comp.formula_weight 431.416 _chem_comp.id UMY _chem_comp.mon_nstd_flag . _chem_comp.name 7-{2-[2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)ethoxy]phenoxy}-5-fluoro-8-methylnaphthalene-2-carbonitrile _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 C01 C00 UMY doub 362 n y C01 C02 UMY sing 363 n y C00 C05 UMY sing 364 n y C02 C03 UMY doub 365 n y C05 O0B UMY sing 366 n n C05 C04 UMY doub 367 n y O0Q C0K UMY doub 368 n n C0D O0B UMY sing 369 n n C0D C0E UMY sing 370 n n C03 C04 UMY sing 371 n y C04 O0A UMY sing 372 n n C0E N0H UMY sing 373 n n C0K N0H UMY sing 374 n n C0K N0M UMY sing 375 n n N0H C0P UMY sing 376 n n N0M C0N UMY sing 377 n n O0A CAL UMY sing 378 n n CAM CAL UMY doub 379 n y CAM CAH UMY sing 380 n y CAL CAK UMY sing 381 n y C0P C0O UMY doub 382 n n C0N O0S UMY doub 383 n n C0N C0O UMY sing 384 n n F32 CAH UMY sing 385 n n CAH CAI UMY doub 386 n y CAK C31 UMY sing 387 n n CAK CAJ UMY doub 388 n y CAI CAJ UMY sing 389 n y CAI CAY UMY sing 390 n y CAJ CBB UMY sing 391 n y CBB CBA UMY doub 392 n y CAY CAZ UMY doub 393 n y CAZ CBA UMY sing 394 n y CBA CBC UMY sing 395 n n CBC NBD UMY trip 396 n n CAM H1 UMY sing 397 n n CAY H2 UMY sing 398 n n CAZ H3 UMY sing 399 n n CBB H4 UMY sing 400 n n C0P H5 UMY sing 401 n n C00 H6 UMY sing 402 n n C0D H7 UMY sing 403 n n C0D H8 UMY sing 404 n n C0E H9 UMY sing 405 n n C0E H10 UMY sing 406 n n C0O H11 UMY sing 407 n n N0M H12 UMY sing 408 n n C01 H13 UMY sing 409 n n C02 H14 UMY sing 410 n n C03 H15 UMY sing 411 n n C31 H16 UMY sing 412 n n C31 H17 UMY sing 413 n n C31 H18 UMY sing 414 n n # _atom_sites.entry_id 6X4B _atom_sites.fract_transf_matrix[1][1] 0.00452 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001449 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014838 _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] 0.010204 _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 UMY A 1 601 1 UMY 655 . D 4 SO4 A 1 602 1 SO4 SO4 . E 4 SO4 A 1 603 2 SO4 SO4 . F 4 SO4 A 1 604 3 SO4 SO4 . G 5 MG A 1 605 1 MG MG . H 4 SO4 B 1 501 4 SO4 SO4 . I 6 HOH A 1 701 1 HOH HOH . I 6 HOH A 2 702 42 HOH HOH . I 6 HOH A 3 703 23 HOH HOH . I 6 HOH A 4 704 26 HOH HOH . I 6 HOH A 5 705 21 HOH HOH . I 6 HOH A 6 706 6 HOH HOH . I 6 HOH A 7 707 24 HOH HOH . I 6 HOH A 8 708 20 HOH HOH . I 6 HOH A 9 709 41 HOH HOH . I 6 HOH A 10 710 43 HOH HOH . I 6 HOH A 11 711 13 HOH HOH . I 6 HOH A 12 712 5 HOH HOH . I 6 HOH A 13 713 16 HOH HOH . I 6 HOH A 14 714 17 HOH HOH . J 6 HOH B 1 601 40 HOH HOH . J 6 HOH B 2 602 31 HOH HOH . J 6 HOH B 3 603 39 HOH HOH . J 6 HOH B 4 604 35 HOH HOH . J 6 HOH B 5 605 7 HOH HOH . J 6 HOH B 6 606 22 HOH HOH . J 6 HOH B 7 607 2 HOH HOH . J 6 HOH B 8 608 9 HOH HOH . J 6 HOH B 9 609 27 HOH HOH . J 6 HOH B 10 610 38 HOH HOH . J 6 HOH B 11 611 3 HOH HOH . J 6 HOH B 12 612 28 HOH HOH . J 6 HOH B 13 613 14 HOH HOH . J 6 HOH B 14 614 4 HOH HOH . J 6 HOH B 15 615 30 HOH HOH . J 6 HOH B 16 616 44 HOH HOH . J 6 HOH B 17 617 32 HOH HOH . J 6 HOH B 18 618 25 HOH HOH . J 6 HOH B 19 619 8 HOH HOH . J 6 HOH B 20 620 37 HOH HOH . J 6 HOH B 21 621 34 HOH HOH . J 6 HOH B 22 622 36 HOH HOH . J 6 HOH B 23 623 10 HOH HOH . J 6 HOH B 24 624 11 HOH HOH . J 6 HOH B 25 625 29 HOH HOH . J 6 HOH B 26 626 12 HOH HOH . J 6 HOH B 27 627 18 HOH HOH . J 6 HOH B 28 628 45 HOH HOH . J 6 HOH B 29 629 33 HOH HOH . J 6 HOH B 30 630 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 C CAH UMY . . . C 3 457.387 5.497 121.651 1 54.02 ? CAH UMY 601 A 1 HETATM 2 C CAI UMY . . . C 3 458.076 5.125 122.84 1 52.3 ? CAI UMY 601 A 1 HETATM 3 C CAJ UMY . . . C 3 458.822 3.959 122.845 1 50.55 ? CAJ UMY 601 A 1 HETATM 4 C CAK UMY . . . C 3 458.886 3.165 121.676 1 47.03 ? CAK UMY 601 A 1 HETATM 5 C CAL UMY . . . C 3 458.204 3.537 120.509 1 48.73 ? CAL UMY 601 A 1 HETATM 6 C CAM UMY . . . C 3 457.449 4.707 120.492 1 46.33 ? CAM UMY 601 A 1 HETATM 7 C CAY UMY . . . C 3 458.015 5.939 124.043 1 48.87 ? CAY UMY 601 A 1 HETATM 8 C CAZ UMY . . . C 3 458.695 5.544 125.159 1 52.8 ? CAZ UMY 601 A 1 HETATM 9 C CBA UMY . . . C 3 459.468 4.332 125.161 1 49.42 ? CBA UMY 601 A 1 HETATM 10 C CBB UMY . . . C 3 459.538 3.544 124.023 1 47.54 ? CBB UMY 601 A 1 HETATM 11 C CBC UMY . . . C 3 460.214 3.917 126.415 1 52.56 ? CBC UMY 601 A 1 HETATM 12 N NBD UMY . . . C 3 460.784 3.595 127.371 1 54.58 ? NBD UMY 601 A 1 HETATM 13 C C0P UMY . . . C 3 455.166 0.555 120.514 1 51.41 ? C0P UMY 601 A 1 HETATM 14 C C00 UMY . . . C 3 457.018 3.748 115.997 1 50.29 ? C00 UMY 601 A 1 HETATM 15 C C0D UMY . . . C 3 454.765 2.121 117.403 1 50.67 ? C0D UMY 601 A 1 HETATM 16 C C0E UMY . . . C 3 454 1.344 118.509 1 46.48 ? C0E UMY 601 A 1 HETATM 17 C C0K UMY . . . C 3 455.164 -0.906 118.546 1 55.38 ? C0K UMY 601 A 1 HETATM 18 C C0N UMY . . . C 3 456.3 -1.606 120.582 1 55 ? C0N UMY 601 A 1 HETATM 19 C C0O UMY . . . C 3 455.897 -0.347 121.22 1 52.59 ? C0O UMY 601 A 1 HETATM 20 N N0H UMY . . . C 3 454.795 0.276 119.166 1 51.37 ? N0H UMY 601 A 1 HETATM 21 N N0M UMY . . . C 3 455.892 -1.766 119.3 1 51.95 ? N0M UMY 601 A 1 HETATM 22 O O0A UMY . . . C 3 458.277 2.715 119.321 1 47.63 ? O0A UMY 601 A 1 HETATM 23 O O0B UMY . . . C 3 456.052 2.427 117.931 1 50.68 ? O0B UMY 601 A 1 HETATM 24 O O0Q UMY . . . C 3 454.879 -1.208 117.387 1 56 ? O0Q UMY 601 A 1 HETATM 25 O O0S UMY . . . C 3 456.959 -2.479 121.139 1 60.55 ? O0S UMY 601 A 1 HETATM 26 C C01 UMY . . . C 3 458.146 4.453 115.513 1 52.96 ? C01 UMY 601 A 1 HETATM 27 C C02 UMY . . . C 3 459.312 4.581 116.296 1 49.39 ? C02 UMY 601 A 1 HETATM 28 C C03 UMY . . . C 3 459.359 3.995 117.579 1 48.98 ? C03 UMY 601 A 1 HETATM 29 C C04 UMY . . . C 3 458.234 3.283 118.075 1 50.53 ? C04 UMY 601 A 1 HETATM 30 C C05 UMY . . . C 3 457.053 3.149 117.298 1 53.5 ? C05 UMY 601 A 1 HETATM 31 C C31 UMY . . . C 3 459.708 1.902 121.713 1 49.3 ? C31 UMY 601 A 1 HETATM 32 F F32 UMY . . . C 3 456.663 6.619 121.627 1 61.68 ? F32 UMY 601 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 32 #