data_8STV # _model_server_result.job_id BYJethN0jDDhbXjpFbR-hg _model_server_result.datetime_utc '2024-11-30 23:57:24' _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 8stv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":604}' # _entry.id 8STV # _exptl.entry_id 8STV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 399.399 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-{2-[2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)ethoxy]phenoxy}naphthalene-2-carbonitrile _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 97.73 _cell.angle_gamma 90 _cell.entry_id 8STV _cell.length_a 111.591 _cell.length_b 73.222 _cell.length_c 170.655 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8STV _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H,L,M 1 1 C,D,I,J,K,N,O 2 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 ? 5 H N N ? 5 K N 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 C OD1 ASP 445 C ASP 443 1_555 I MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.743 ? metalc ? metalc2 C OD2 ASP 445 C ASP 443 1_555 I MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.615 ? metalc ? metalc3 C OD2 ASP 551 C ASP 549 1_555 I MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.847 ? # _chem_comp.formula 'C23 H17 N3 O4' _chem_comp.formula_weight 399.399 _chem_comp.id 3LQ _chem_comp.mon_nstd_flag . _chem_comp.name 5-{2-[2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)ethoxy]phenoxy}naphthalene-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 3LQ doub 1 n y C01 C02 3LQ sing 2 n y C00 C05 3LQ sing 3 n y C02 C03 3LQ doub 4 n y O0Q C0K 3LQ doub 5 n n C0D O0B 3LQ sing 6 n n C0D C0E 3LQ sing 7 n n C05 O0B 3LQ sing 8 n n C05 C04 3LQ doub 9 n y C03 C04 3LQ sing 10 n y C04 O0A 3LQ sing 11 n n C0E N0H 3LQ sing 12 n n C0K N0H 3LQ sing 13 n n C0K N0M 3LQ sing 14 n n N0H C0P 3LQ sing 15 n n N0M C0N 3LQ sing 16 n n O0A CAH 3LQ sing 17 n n CAM CAH 3LQ doub 18 n y CAM CAL 3LQ sing 19 n y C0P C0O 3LQ doub 20 n n C0N O0S 3LQ doub 21 n n C0N C0O 3LQ sing 22 n n CAH CAI 3LQ sing 23 n y CAL CAK 3LQ doub 24 n y CAI CAY 3LQ doub 25 n y CAI CAJ 3LQ sing 26 n y CAY CAZ 3LQ sing 27 n y CAK CAJ 3LQ sing 28 n y CAJ CBB 3LQ doub 29 n y CAZ CBA 3LQ doub 30 n y CBB CBA 3LQ sing 31 n y CBA CBC 3LQ sing 32 n n CBC NBD 3LQ trip 33 n n C00 H1 3LQ sing 34 n n C01 H2 3LQ sing 35 n n C02 H3 3LQ sing 36 n n C03 H4 3LQ sing 37 n n C0D H5 3LQ sing 38 n n C0D H6 3LQ sing 39 n n C0E H7 3LQ sing 40 n n C0E H8 3LQ sing 41 n n N0M H9 3LQ sing 42 n n C0O H10 3LQ sing 43 n n C0P H11 3LQ sing 44 n n CAY H12 3LQ sing 45 n n CAZ H13 3LQ sing 46 n n CBB H14 3LQ sing 47 n n CAK H15 3LQ sing 48 n n CAL H16 3LQ sing 49 n n CAM H17 3LQ sing 50 n n # _atom_sites.entry_id 8STV _atom_sites.fract_transf_matrix[1][1] 0.008961 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001216 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013657 _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] 0.005914 _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 3 SO4 A 1 601 1 SO4 SO4 . F 3 SO4 A 1 602 2 SO4 SO4 . G 4 EDO A 1 603 603 EDO EDO . H 5 3LQ A 1 604 1 3LQ 3LQ . I 6 MG C 1 601 1 MG MG . J 4 EDO C 1 602 601 EDO EDO . K 5 3LQ C 1 603 2 3LQ 3LQ . L 7 HOH A 1 701 25 HOH HOH . L 7 HOH A 2 702 45 HOH HOH . L 7 HOH A 3 703 68 HOH HOH . L 7 HOH A 4 704 61 HOH HOH . L 7 HOH A 5 705 63 HOH HOH . L 7 HOH A 6 706 58 HOH HOH . L 7 HOH A 7 707 35 HOH HOH . L 7 HOH A 8 708 2 HOH HOH . L 7 HOH A 9 709 50 HOH HOH . L 7 HOH A 10 710 10 HOH HOH . L 7 HOH A 11 711 15 HOH HOH . L 7 HOH A 12 712 64 HOH HOH . L 7 HOH A 13 713 7 HOH HOH . L 7 HOH A 14 714 46 HOH HOH . L 7 HOH A 15 715 24 HOH HOH . L 7 HOH A 16 716 33 HOH HOH . L 7 HOH A 17 717 9 HOH HOH . L 7 HOH A 18 718 19 HOH HOH . L 7 HOH A 19 719 74 HOH HOH . L 7 HOH A 20 720 1 HOH HOH . L 7 HOH A 21 721 47 HOH HOH . L 7 HOH A 22 722 51 HOH HOH . L 7 HOH A 23 723 43 HOH HOH . L 7 HOH A 24 724 28 HOH HOH . L 7 HOH A 25 725 30 HOH HOH . L 7 HOH A 26 726 14 HOH HOH . L 7 HOH A 27 727 42 HOH HOH . L 7 HOH A 28 728 29 HOH HOH . L 7 HOH A 29 729 23 HOH HOH . L 7 HOH A 30 730 75 HOH HOH . L 7 HOH A 31 731 70 HOH HOH . M 7 HOH B 1 501 13 HOH HOH . M 7 HOH B 2 502 54 HOH HOH . M 7 HOH B 3 503 21 HOH HOH . M 7 HOH B 4 504 17 HOH HOH . M 7 HOH B 5 505 26 HOH HOH . M 7 HOH B 6 506 4 HOH HOH . M 7 HOH B 7 507 11 HOH HOH . M 7 HOH B 8 508 60 HOH HOH . M 7 HOH B 9 509 48 HOH HOH . M 7 HOH B 10 510 49 HOH HOH . M 7 HOH B 11 511 6 HOH HOH . M 7 HOH B 12 512 3 HOH HOH . M 7 HOH B 13 513 67 HOH HOH . M 7 HOH B 14 514 44 HOH HOH . M 7 HOH B 15 515 52 HOH HOH . M 7 HOH B 16 516 20 HOH HOH . M 7 HOH B 17 517 8 HOH HOH . M 7 HOH B 18 518 22 HOH HOH . M 7 HOH B 19 519 34 HOH HOH . M 7 HOH B 20 520 31 HOH HOH . M 7 HOH B 21 521 5 HOH HOH . M 7 HOH B 22 522 39 HOH HOH . M 7 HOH B 23 523 73 HOH HOH . M 7 HOH B 24 524 41 HOH HOH . M 7 HOH B 25 525 69 HOH HOH . M 7 HOH B 26 526 57 HOH HOH . M 7 HOH B 27 527 72 HOH HOH . M 7 HOH B 28 528 32 HOH HOH . M 7 HOH B 29 529 40 HOH HOH . N 7 HOH C 1 701 65 HOH HOH . N 7 HOH C 2 702 71 HOH HOH . N 7 HOH C 3 703 27 HOH HOH . O 7 HOH D 1 501 38 HOH HOH . O 7 HOH D 2 502 59 HOH HOH . O 7 HOH D 3 503 56 HOH HOH . O 7 HOH D 4 504 66 HOH HOH . O 7 HOH D 5 505 53 HOH HOH . O 7 HOH D 6 506 62 HOH HOH . O 7 HOH D 7 507 36 HOH HOH . O 7 HOH D 8 508 37 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 C00 3LQ . . . H 5 -30.09 -34.634 8.31 1 57.5 ? C00 3LQ 604 A 1 HETATM 2 C C01 3LQ . . . H 5 -30.247 -34.147 9.604 1 55.9 ? C01 3LQ 604 A 1 HETATM 3 C C02 3LQ . . . H 5 -31.492 -34.091 10.173 1 58.65 ? C02 3LQ 604 A 1 HETATM 4 C C03 3LQ . . . H 5 -32.607 -34.508 9.461 1 56.17 ? C03 3LQ 604 A 1 HETATM 5 C C04 3LQ . . . H 5 -32.448 -35 8.189 1 52.91 ? C04 3LQ 604 A 1 HETATM 6 C C05 3LQ . . . H 5 -31.197 -35.053 7.584 1 57.93 ? C05 3LQ 604 A 1 HETATM 7 O O0A 3LQ . . . H 5 -33.538 -35.425 7.45 1 60.69 ? O0A 3LQ 604 A 1 HETATM 8 O O0B 3LQ . . . H 5 -31.153 -35.556 6.315 1 63.39 ? O0B 3LQ 604 A 1 HETATM 9 C C0D 3LQ . . . H 5 -29.854 -35.698 5.731 1 51.86 ? C0D 3LQ 604 A 1 HETATM 10 C C0E 3LQ . . . H 5 -30.063 -36.353 4.385 1 69.03 ? C0E 3LQ 604 A 1 HETATM 11 N N0H 3LQ . . . H 5 -30.815 -37.616 4.505 1 76 ? N0H 3LQ 604 A 1 HETATM 12 C C0K 3LQ . . . H 5 -30.109 -38.789 4.696 1 77.83 ? C0K 3LQ 604 A 1 HETATM 13 N N0M 3LQ . . . H 5 -30.883 -39.921 4.791 1 71.25 ? N0M 3LQ 604 A 1 HETATM 14 C C0N 3LQ . . . H 5 -32.262 -39.987 4.716 1 69.25 ? C0N 3LQ 604 A 1 HETATM 15 C C0O 3LQ . . . H 5 -32.908 -38.722 4.516 1 74.01 ? C0O 3LQ 604 A 1 HETATM 16 C C0P 3LQ . . . H 5 -32.177 -37.619 4.42 1 68.69 ? C0P 3LQ 604 A 1 HETATM 17 O O0Q 3LQ . . . H 5 -28.892 -38.824 4.773 1 86.04 ? O0Q 3LQ 604 A 1 HETATM 18 O O0S 3LQ . . . H 5 -32.826 -41.078 4.82 1 68.89 ? O0S 3LQ 604 A 1 HETATM 19 C CAH 3LQ . . . H 5 -34.326 -34.506 6.755 1 64.95 ? CAH 3LQ 604 A 1 HETATM 20 C CAI 3LQ . . . H 5 -35.565 -35.012 6.326 1 61.65 ? CAI 3LQ 604 A 1 HETATM 21 C CAY 3LQ . . . H 5 -36.008 -36.319 6.642 1 61.88 ? CAY 3LQ 604 A 1 HETATM 22 C CAZ 3LQ . . . H 5 -37.237 -36.742 6.222 1 70.35 ? CAZ 3LQ 604 A 1 HETATM 23 C CBA 3LQ . . . H 5 -38.089 -35.879 5.5 1 72.7 ? CBA 3LQ 604 A 1 HETATM 24 C CBC 3LQ . . . H 5 -39.378 -36.369 5.071 1 64.15 ? CBC 3LQ 604 A 1 HETATM 25 N NBD 3LQ . . . H 5 -40.432 -36.724 4.798 1 78.68 ? NBD 3LQ 604 A 1 HETATM 26 C CBB 3LQ . . . H 5 -37.692 -34.603 5.189 1 67.8 ? CBB 3LQ 604 A 1 HETATM 27 C CAJ 3LQ . . . H 5 -36.427 -34.144 5.605 1 65.05 ? CAJ 3LQ 604 A 1 HETATM 28 C CAK 3LQ . . . H 5 -35.984 -32.83 5.302 1 62.37 ? CAK 3LQ 604 A 1 HETATM 29 C CAL 3LQ . . . H 5 -34.759 -32.411 5.714 1 55.2 ? CAL 3LQ 604 A 1 HETATM 30 C CAM 3LQ . . . H 5 -33.907 -33.259 6.442 1 62.61 ? CAM 3LQ 604 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 39 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 30 #