data_5Z9E # _model_server_result.job_id 6XrFOUDZIWo3uutSLuQiNA _model_server_result.datetime_utc '2024-11-08 03:01:38' _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 5z9e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":303}' # _entry.id 5Z9E # _exptl.entry_id 5Z9E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 133.151 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1H-benzimidazol-2-amine _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 5Z9E _cell.length_a 61.379 _cell.length_b 68.558 _cell.length_c 102.701 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5Z9E _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,D,E,F,J 1 1 B,G,H,I,K 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id I _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C7 H7 N3' _chem_comp.formula_weight 133.151 _chem_comp.id AX7 _chem_comp.mon_nstd_flag . _chem_comp.name 1H-benzimidazol-2-amine _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 NAF CAI AX7 sing 98 n y NAF CAH AX7 sing 99 n y CAI CAD AX7 doub 100 n y CAI CAJ AX7 sing 101 n y CAD CAB AX7 sing 102 n y CAB CAC AX7 doub 103 n y CAC CAE AX7 sing 104 n y CAE CAJ AX7 doub 105 n y CAJ NAG AX7 sing 106 n y NAG CAH AX7 doub 107 n y CAH NAA AX7 sing 108 n n NAF HNAF AX7 sing 109 n n CAD HAD AX7 sing 110 n n CAB HAB AX7 sing 111 n n CAC HAC AX7 sing 112 n n CAE HAE AX7 sing 113 n n NAA HNAA AX7 sing 114 n n NAA HNAB AX7 sing 115 n n # _atom_sites.entry_id 5Z9E _atom_sites.fract_transf_matrix[1][1] 0.016292 _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] 0.014586 _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] 0.009737 _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 2 PO4 A 1 301 1 PO4 PO4 . D 2 PO4 A 1 302 2 PO4 PO4 . E 2 PO4 A 1 303 3 PO4 PO4 . F 3 27K A 1 304 2 27K HX1 . G 2 PO4 B 1 301 4 PO4 PO4 . H 3 27K B 1 302 1 27K HX1 . I 4 AX7 B 1 303 1 AX7 AX7 . J 5 HOH A 1 401 148 HOH HOH . J 5 HOH A 2 402 55 HOH HOH . J 5 HOH A 3 403 120 HOH HOH . J 5 HOH A 4 404 41 HOH HOH . J 5 HOH A 5 405 18 HOH HOH . J 5 HOH A 6 406 10 HOH HOH . J 5 HOH A 7 407 121 HOH HOH . J 5 HOH A 8 408 133 HOH HOH . J 5 HOH A 9 409 34 HOH HOH . J 5 HOH A 10 410 64 HOH HOH . J 5 HOH A 11 411 130 HOH HOH . J 5 HOH A 12 412 96 HOH HOH . J 5 HOH A 13 413 100 HOH HOH . J 5 HOH A 14 414 2 HOH HOH . J 5 HOH A 15 415 143 HOH HOH . J 5 HOH A 16 416 147 HOH HOH . J 5 HOH A 17 417 25 HOH HOH . J 5 HOH A 18 418 70 HOH HOH . J 5 HOH A 19 419 29 HOH HOH . J 5 HOH A 20 420 74 HOH HOH . J 5 HOH A 21 421 43 HOH HOH . J 5 HOH A 22 422 13 HOH HOH . J 5 HOH A 23 423 82 HOH HOH . J 5 HOH A 24 424 119 HOH HOH . J 5 HOH A 25 425 60 HOH HOH . J 5 HOH A 26 426 27 HOH HOH . J 5 HOH A 27 427 134 HOH HOH . J 5 HOH A 28 428 136 HOH HOH . J 5 HOH A 29 429 88 HOH HOH . J 5 HOH A 30 430 3 HOH HOH . J 5 HOH A 31 431 35 HOH HOH . J 5 HOH A 32 432 9 HOH HOH . J 5 HOH A 33 433 37 HOH HOH . J 5 HOH A 34 434 81 HOH HOH . J 5 HOH A 35 435 49 HOH HOH . J 5 HOH A 36 436 21 HOH HOH . J 5 HOH A 37 437 31 HOH HOH . J 5 HOH A 38 438 94 HOH HOH . J 5 HOH A 39 439 33 HOH HOH . J 5 HOH A 40 440 47 HOH HOH . J 5 HOH A 41 441 137 HOH HOH . J 5 HOH A 42 442 146 HOH HOH . J 5 HOH A 43 443 78 HOH HOH . J 5 HOH A 44 444 140 HOH HOH . J 5 HOH A 45 445 84 HOH HOH . J 5 HOH A 46 446 142 HOH HOH . J 5 HOH A 47 447 65 HOH HOH . J 5 HOH A 48 448 28 HOH HOH . J 5 HOH A 49 449 73 HOH HOH . J 5 HOH A 50 450 56 HOH HOH . J 5 HOH A 51 451 69 HOH HOH . J 5 HOH A 52 452 141 HOH HOH . J 5 HOH A 53 453 138 HOH HOH . J 5 HOH A 54 454 144 HOH HOH . J 5 HOH A 55 455 66 HOH HOH . J 5 HOH A 56 456 145 HOH HOH . J 5 HOH A 57 457 112 HOH HOH . J 5 HOH A 58 458 67 HOH HOH . J 5 HOH A 59 459 131 HOH HOH . J 5 HOH A 60 460 126 HOH HOH . J 5 HOH A 61 461 139 HOH HOH . J 5 HOH A 62 462 51 HOH HOH . K 5 HOH B 1 401 1 HOH HOH . K 5 HOH B 2 402 24 HOH HOH . K 5 HOH B 3 403 7 HOH HOH . K 5 HOH B 4 404 16 HOH HOH . K 5 HOH B 5 405 17 HOH HOH . K 5 HOH B 6 406 110 HOH HOH . K 5 HOH B 7 407 97 HOH HOH . K 5 HOH B 8 408 59 HOH HOH . K 5 HOH B 9 409 80 HOH HOH . K 5 HOH B 10 410 71 HOH HOH . K 5 HOH B 11 411 79 HOH HOH . K 5 HOH B 12 412 109 HOH HOH . K 5 HOH B 13 413 99 HOH HOH . K 5 HOH B 14 414 4 HOH HOH . K 5 HOH B 15 415 12 HOH HOH . K 5 HOH B 16 416 92 HOH HOH . K 5 HOH B 17 417 11 HOH HOH . K 5 HOH B 18 418 20 HOH HOH . K 5 HOH B 19 419 23 HOH HOH . K 5 HOH B 20 420 36 HOH HOH . K 5 HOH B 21 421 48 HOH HOH . K 5 HOH B 22 422 32 HOH HOH . K 5 HOH B 23 423 90 HOH HOH . K 5 HOH B 24 424 5 HOH HOH . K 5 HOH B 25 425 85 HOH HOH . K 5 HOH B 26 426 111 HOH HOH . K 5 HOH B 27 427 132 HOH HOH . K 5 HOH B 28 428 62 HOH HOH . K 5 HOH B 29 429 15 HOH HOH . K 5 HOH B 30 430 95 HOH HOH . K 5 HOH B 31 431 6 HOH HOH . K 5 HOH B 32 432 58 HOH HOH . K 5 HOH B 33 433 61 HOH HOH . K 5 HOH B 34 434 86 HOH HOH . K 5 HOH B 35 435 44 HOH HOH . K 5 HOH B 36 436 30 HOH HOH . K 5 HOH B 37 437 93 HOH HOH . K 5 HOH B 38 438 39 HOH HOH . K 5 HOH B 39 439 8 HOH HOH . K 5 HOH B 40 440 40 HOH HOH . K 5 HOH B 41 441 87 HOH HOH . K 5 HOH B 42 442 45 HOH HOH . K 5 HOH B 43 443 63 HOH HOH . K 5 HOH B 44 444 57 HOH HOH . K 5 HOH B 45 445 50 HOH HOH . K 5 HOH B 46 446 106 HOH HOH . K 5 HOH B 47 447 113 HOH HOH . K 5 HOH B 48 448 46 HOH HOH . K 5 HOH B 49 449 53 HOH HOH . K 5 HOH B 50 450 52 HOH HOH . K 5 HOH B 51 451 105 HOH HOH . K 5 HOH B 52 452 38 HOH HOH . K 5 HOH B 53 453 14 HOH HOH . K 5 HOH B 54 454 89 HOH HOH . K 5 HOH B 55 455 91 HOH HOH . K 5 HOH B 56 456 75 HOH HOH . K 5 HOH B 57 457 116 HOH HOH . K 5 HOH B 58 458 19 HOH HOH . K 5 HOH B 59 459 135 HOH HOH . K 5 HOH B 60 460 76 HOH HOH . K 5 HOH B 61 461 129 HOH HOH . K 5 HOH B 62 462 114 HOH HOH . K 5 HOH B 63 463 98 HOH HOH . K 5 HOH B 64 464 26 HOH HOH . K 5 HOH B 65 465 22 HOH HOH . K 5 HOH B 66 466 122 HOH HOH . K 5 HOH B 67 467 101 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 N NAF AX7 . . . I 4 17.423 -0.465 14.611 1 22.44 ? NAF AX7 303 B 1 HETATM 2 C CAI AX7 . . . I 4 16.614 0.581 14.162 1 22.37 ? CAI AX7 303 B 1 HETATM 3 C CAD AX7 . . . I 4 15.597 1.277 14.81 1 21.82 ? CAD AX7 303 B 1 HETATM 4 C CAB AX7 . . . I 4 14.929 2.286 14.126 1 22.8 ? CAB AX7 303 B 1 HETATM 5 C CAC AX7 . . . I 4 15.268 2.604 12.816 1 22.44 ? CAC AX7 303 B 1 HETATM 6 C CAE AX7 . . . I 4 16.29 1.928 12.166 1 22.37 ? CAE AX7 303 B 1 HETATM 7 C CAJ AX7 . . . I 4 16.951 0.918 12.852 1 22.12 ? CAJ AX7 303 B 1 HETATM 8 N NAG AX7 . . . I 4 17.979 0.071 12.497 1 23.35 ? NAG AX7 303 B 1 HETATM 9 C CAH AX7 . . . I 4 18.23 -0.732 13.576 1 23.25 ? CAH AX7 303 B 1 HETATM 10 N NAA AX7 . . . I 4 19.191 -1.655 13.57 1 24.36 ? NAA AX7 303 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 10 #