data_3UPX # _model_server_result.job_id NTLycSXCqOv83rO_hHpbNw _model_server_result.datetime_utc '2024-11-15 20:39:27' _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 3upx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1}' # _entry.id 3UPX # _exptl.entry_id 3UPX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 334.415 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[2-amino-1-(piperidin-4-ylmethyl)-1H-benzimidazol-6-yl](phenyl)methanone' _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 101.02 _cell.angle_gamma 90 _cell.entry_id 3UPX _cell.length_a 48.29 _cell.length_b 72.93 _cell.length_c 66.92 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3UPX _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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 'C20 H22 N4 O' _chem_comp.formula_weight 334.415 _chem_comp.id B6A _chem_comp.mon_nstd_flag . _chem_comp.name '[2-amino-1-(piperidin-4-ylmethyl)-1H-benzimidazol-6-yl](phenyl)methanone' _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 CAK NAQ B6A sing 70 n n CAK CAM B6A sing 71 n n NAQ CAL B6A sing 72 n n CAM CAX B6A sing 73 n n CAL CAN B6A sing 74 n n CAX CAN B6A sing 75 n n CAX CAO B6A sing 76 n n NAA CAU B6A sing 77 n n NAP CAU B6A doub 78 n y NAP CAV B6A sing 79 n y CAU NAY B6A sing 80 n y CAV CAI B6A doub 81 n y CAV CAW B6A sing 82 n y NAY CAO B6A sing 83 n n NAY CAW B6A sing 84 n y CAI CAH B6A sing 85 n y CAW CAJ B6A doub 86 n y CAH CAT B6A doub 87 n y OAB CAR B6A doub 88 n n CAJ CAT B6A sing 89 n y CAT CAR B6A sing 90 n n CAR CAS B6A sing 91 n n CAF CAS B6A doub 92 n y CAF CAD B6A sing 93 n y CAS CAG B6A sing 94 n y CAD CAC B6A doub 95 n y CAG CAE B6A doub 96 n y CAC CAE B6A sing 97 n y CAM H1 B6A sing 98 n n CAM H2 B6A sing 99 n n CAK H3 B6A sing 100 n n CAK H4 B6A sing 101 n n NAQ H5 B6A sing 102 n n CAL H7 B6A sing 103 n n CAL H8 B6A sing 104 n n CAN H9 B6A sing 105 n n CAN H10 B6A sing 106 n n CAX H11 B6A sing 107 n n CAO H12 B6A sing 108 n n CAO H13 B6A sing 109 n n CAJ H14 B6A sing 110 n n NAA H15 B6A sing 111 n n NAA H16 B6A sing 112 n n CAI H17 B6A sing 113 n n CAH H18 B6A sing 114 n n CAF H19 B6A sing 115 n n CAD H20 B6A sing 116 n n CAC H21 B6A sing 117 n n CAE H22 B6A sing 118 n n CAG H23 B6A sing 119 n n # _atom_sites.entry_id 3UPX _atom_sites.fract_transf_matrix[1][1] 0.020708 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004033 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013712 _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] 0.015224 _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 B6A A 1 1 1 B6A B6A . C 3 HOH A 1 2 2 HOH HOH . C 3 HOH A 2 3 3 HOH HOH . C 3 HOH A 3 4 4 HOH HOH . C 3 HOH A 4 5 5 HOH HOH . C 3 HOH A 5 6 6 HOH HOH . C 3 HOH A 6 7 7 HOH HOH . C 3 HOH A 7 8 8 HOH HOH . C 3 HOH A 8 9 9 HOH HOH . C 3 HOH A 9 10 10 HOH HOH . C 3 HOH A 10 11 11 HOH HOH . C 3 HOH A 11 12 12 HOH HOH . C 3 HOH A 12 13 13 HOH HOH . C 3 HOH A 13 14 14 HOH HOH . C 3 HOH A 14 15 15 HOH HOH . C 3 HOH A 15 16 16 HOH HOH . C 3 HOH A 16 17 17 HOH HOH . C 3 HOH A 17 18 18 HOH HOH . C 3 HOH A 18 19 19 HOH HOH . C 3 HOH A 19 20 20 HOH HOH . C 3 HOH A 20 21 21 HOH HOH . C 3 HOH A 21 22 22 HOH HOH . C 3 HOH A 22 23 23 HOH HOH . C 3 HOH A 23 508 1 HOH HOH . C 3 HOH A 24 509 24 HOH HOH . C 3 HOH A 25 510 25 HOH HOH . C 3 HOH A 26 511 26 HOH HOH . C 3 HOH A 27 512 27 HOH HOH . C 3 HOH A 28 513 28 HOH HOH . C 3 HOH A 29 514 29 HOH HOH . C 3 HOH A 30 515 30 HOH HOH . C 3 HOH A 31 516 31 HOH HOH . C 3 HOH A 32 517 32 HOH HOH . C 3 HOH A 33 518 33 HOH HOH . C 3 HOH A 34 519 34 HOH HOH . C 3 HOH A 35 520 35 HOH HOH . C 3 HOH A 36 521 36 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 CAM B6A . . . B 2 28.637 14.551 28.356 1 43.46 ? CAM B6A 1 A 1 HETATM 2 C CAK B6A . . . B 2 28.729 15.552 27.211 1 44.81 ? CAK B6A 1 A 1 HETATM 3 N NAQ B6A . . . B 2 29.482 16.725 27.674 1 44.18 ? NAQ B6A 1 A 1 HETATM 4 C CAL B6A . . . B 2 28.71 17.442 28.685 1 44.48 ? CAL B6A 1 A 1 HETATM 5 C CAN B6A . . . B 2 28.585 16.545 29.912 1 45.28 ? CAN B6A 1 A 1 HETATM 6 C CAX B6A . . . B 2 27.946 15.19 29.553 1 42.5 ? CAX B6A 1 A 1 HETATM 7 C CAO B6A . . . B 2 28.085 14.264 30.749 1 43.06 ? CAO B6A 1 A 1 HETATM 8 N NAY B6A . . . B 2 27.263 13.048 30.64 1 41.92 ? NAY B6A 1 A 1 HETATM 9 C CAW B6A . . . B 2 25.949 12.967 30.782 1 41.32 ? CAW B6A 1 A 1 HETATM 10 C CAJ B6A . . . B 2 24.964 13.907 31.049 1 40.59 ? CAJ B6A 1 A 1 HETATM 11 C CAU B6A . . . B 2 27.74 11.847 30.39 1 41.55 ? CAU B6A 1 A 1 HETATM 12 N NAA B6A . . . B 2 29.027 11.587 30.185 1 41.87 ? NAA B6A 1 A 1 HETATM 13 N NAP B6A . . . B 2 26.741 10.961 30.368 1 43.56 ? NAP B6A 1 A 1 HETATM 14 C CAV B6A . . . B 2 25.613 11.629 30.611 1 42.1 ? CAV B6A 1 A 1 HETATM 15 C CAI B6A . . . B 2 24.285 11.229 30.72 1 41.65 ? CAI B6A 1 A 1 HETATM 16 C CAH B6A . . . B 2 23.292 12.171 30.991 1 40.99 ? CAH B6A 1 A 1 HETATM 17 C CAT B6A . . . B 2 23.638 13.508 31.158 1 38.28 ? CAT B6A 1 A 1 HETATM 18 C CAR B6A . . . B 2 22.593 14.562 31.44 1 38.42 ? CAR B6A 1 A 1 HETATM 19 O OAB B6A . . . B 2 22.773 15.715 31.043 1 40.16 ? OAB B6A 1 A 1 HETATM 20 C CAS B6A . . . B 2 21.338 14.2 32.224 1 35.9 ? CAS B6A 1 A 1 HETATM 21 C CAF B6A . . . B 2 20.112 14.737 31.853 1 35.81 ? CAF B6A 1 A 1 HETATM 22 C CAD B6A . . . B 2 18.963 14.404 32.565 1 35.78 ? CAD B6A 1 A 1 HETATM 23 C CAC B6A . . . B 2 19.063 13.549 33.664 1 34.99 ? CAC B6A 1 A 1 HETATM 24 C CAE B6A . . . B 2 20.293 13.019 34.029 1 32.62 ? CAE B6A 1 A 1 HETATM 25 C CAG B6A . . . B 2 21.43 13.344 33.314 1 34.54 ? CAG B6A 1 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 25 #