data_6C3E # _model_server_result.job_id K_seJaMqYJ4jNMX9iDbGwA _model_server_result.datetime_utc '2025-02-17 05:55:58' _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 6c3e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 6C3E # _exptl.entry_id 6C3E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 253.256 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-benzyl-5-nitro-1H-benzimidazole _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 90 _cell.angle_gamma 90 _cell.entry_id 6C3E _cell.length_a 42.262 _cell.length_b 95.094 _cell.length_c 134.444 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6C3E _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 1 2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x+1/2,-y,z+1/2 -1 0 0 0 -1 0 0 0 1 21.131 0 67.222 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # _chem_comp.formula 'C14 H11 N3 O2' _chem_comp.formula_weight 253.256 _chem_comp.id EJY _chem_comp.mon_nstd_flag . _chem_comp.name 2-benzyl-5-nitro-1H-benzimidazole _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 C17 C16 EJY doub 83 n y C17 C12 EJY sing 84 n y C11 C12 EJY sing 85 n n C11 C10 EJY sing 86 n n C16 C15 EJY sing 87 n y N8 C10 EJY sing 88 n y N8 C7 EJY sing 89 n y C12 C13 EJY doub 90 n y C15 C14 EJY doub 91 n y C13 C14 EJY sing 92 n y C10 N18 EJY doub 93 n y C6 C7 EJY doub 94 n y C6 C5 EJY sing 95 n y C7 C19 EJY sing 96 n y N18 C19 EJY sing 97 n y C5 C4 EJY doub 98 n y C19 C20 EJY doub 99 n y C4 C20 EJY sing 100 n y C4 N2 EJY sing 101 n n N2 O3 EJY sing 102 n n N2 O1 EJY doub 103 n n C5 H1 EJY sing 104 n n C6 H2 EJY sing 105 n n C13 H3 EJY sing 106 n n C15 H4 EJY sing 107 n n C17 H5 EJY sing 108 n n C20 H6 EJY sing 109 n n N8 H7 EJY sing 110 n n C11 H8 EJY sing 111 n n C11 H9 EJY sing 112 n n C14 H10 EJY sing 113 n n C16 H11 EJY sing 114 n n # _atom_sites.entry_id 6C3E _atom_sites.fract_transf_matrix[1][1] 0.023662 _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] 0.010516 _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] 0.007438 _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 EJY A 1 301 1 EJY LIG . D 2 EJY B 1 301 2 EJY LIG . E 3 HOH A 1 401 28 HOH HOH . E 3 HOH A 2 402 13 HOH HOH . E 3 HOH A 3 403 31 HOH HOH . E 3 HOH A 4 404 10 HOH HOH . E 3 HOH A 5 405 15 HOH HOH . E 3 HOH A 6 406 4 HOH HOH . E 3 HOH A 7 407 14 HOH HOH . E 3 HOH A 8 408 23 HOH HOH . E 3 HOH A 9 409 16 HOH HOH . E 3 HOH A 10 410 8 HOH HOH . E 3 HOH A 11 411 17 HOH HOH . E 3 HOH A 12 412 32 HOH HOH . E 3 HOH A 13 413 12 HOH HOH . E 3 HOH A 14 414 21 HOH HOH . E 3 HOH A 15 415 25 HOH HOH . E 3 HOH A 16 416 24 HOH HOH . E 3 HOH A 17 417 6 HOH HOH . E 3 HOH A 18 418 33 HOH HOH . E 3 HOH A 19 419 37 HOH HOH . E 3 HOH A 20 420 29 HOH HOH . F 3 HOH B 1 401 36 HOH HOH . F 3 HOH B 2 402 2 HOH HOH . F 3 HOH B 3 403 18 HOH HOH . F 3 HOH B 4 404 30 HOH HOH . F 3 HOH B 5 405 26 HOH HOH . F 3 HOH B 6 406 19 HOH HOH . F 3 HOH B 7 407 34 HOH HOH . F 3 HOH B 8 408 11 HOH HOH . F 3 HOH B 9 409 3 HOH HOH . F 3 HOH B 10 410 5 HOH HOH . F 3 HOH B 11 411 35 HOH HOH . F 3 HOH B 12 412 27 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 C4 EJY . . . D 2 17.968 6.93 -57.948 1 55.73 ? C4 EJY 301 B 1 HETATM 2 C C5 EJY . . . D 2 17.012 7.721 -57.316 1 53.3 ? C5 EJY 301 B 1 HETATM 3 C C6 EJY . . . D 2 16.206 7.183 -56.334 1 50.71 ? C6 EJY 301 B 1 HETATM 4 C C7 EJY . . . D 2 16.365 5.846 -55.98 1 50.12 ? C7 EJY 301 B 1 HETATM 5 C C10 EJY . . . D 2 16.324 3.799 -55.156 1 48.51 ? C10 EJY 301 B 1 HETATM 6 C C13 EJY . . . D 2 15.985 0.297 -55.203 1 47.34 ? C13 EJY 301 B 1 HETATM 7 C C15 EJY . . . D 2 14.296 -0.499 -56.713 1 49.21 ? C15 EJY 301 B 1 HETATM 8 C C17 EJY . . . D 2 14.191 1.742 -55.877 1 47.81 ? C17 EJY 301 B 1 HETATM 9 C C20 EJY . . . D 2 18.135 5.61 -57.612 1 54.71 ? C20 EJY 301 B 1 HETATM 10 O O1 EJY . . . D 2 19.705 6.88 -59.528 1 61.87 ? O1 EJY 301 B 1 HETATM 11 N N2 EJY . . . D 2 18.818 7.53 -58.997 1 59.36 ? N2 EJY 301 B 1 HETATM 12 O O3 EJY . . . D 2 18.635 8.687 -59.326 1 61.09 ? O3 EJY 301 B 1 HETATM 13 N N8 EJY . . . D 2 15.747 5.025 -55.064 1 48.15 ? N8 EJY 301 B 1 HETATM 14 C C11 EJY . . . D 2 15.924 2.621 -54.304 1 46.38 ? C11 EJY 301 B 1 HETATM 15 C C12 EJY . . . D 2 15.35 1.524 -55.153 1 46.98 ? C12 EJY 301 B 1 HETATM 16 C C14 EJY . . . D 2 15.452 -0.713 -55.984 1 48.54 ? C14 EJY 301 B 1 HETATM 17 C C16 EJY . . . D 2 13.664 0.73 -56.662 1 49.09 ? C16 EJY 301 B 1 HETATM 18 N N18 EJY . . . D 2 17.256 3.808 -56.068 1 50.76 ? N18 EJY 301 B 1 HETATM 19 C C19 EJY . . . D 2 17.334 5.045 -56.617 1 51.86 ? C19 EJY 301 B 1 # _model_server_stats.io_time_ms 105 _model_server_stats.parse_time_ms 38 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 1240 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 19 #