data_6HPW # _model_server_result.job_id bb4qO6bbguANZVfXNr_24A _model_server_result.datetime_utc '2024-11-06 07:34:13' _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 6hpw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":209}' # _entry.id 6HPW # _exptl.entry_id 6HPW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 474.338 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 3-iodanyl-4-methyl-~{N}-[2-(piperidin-1-ylmethyl)-3~{H}-benzimidazol-5-yl]benzamide _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 6HPW _cell.length_a 48.738 _cell.length_b 48.738 _cell.length_c 131.623 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6HPW _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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,D,E,F,G,H,I,J,K _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 J _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C21 H23 I N4 O' _chem_comp.formula_weight 474.338 _chem_comp.id GKT _chem_comp.mon_nstd_flag . _chem_comp.name 3-iodanyl-4-methyl-~{N}-[2-(piperidin-1-ylmethyl)-3~{H}-benzimidazol-5-yl]benzamide _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 C C1 GKT sing 92 n n C2 C1 GKT doub 93 n y C2 C3 GKT sing 94 n y C1 C6 GKT sing 95 n y C3 C4 GKT doub 96 n y C6 I GKT sing 97 n n C6 C5 GKT doub 98 n y O C7 GKT doub 99 n n C4 C5 GKT sing 100 n y C4 C7 GKT sing 101 n n C7 N GKT sing 102 n n N C8 GKT sing 103 n n C20 C8 GKT doub 104 n y C20 C19 GKT sing 105 n y C8 C9 GKT sing 106 n y N3 C19 GKT sing 107 n y N3 C12 GKT sing 108 n y C19 C11 GKT doub 109 n y C9 C10 GKT doub 110 n y C12 C13 GKT sing 111 n n C12 N1 GKT doub 112 n y C11 C10 GKT sing 113 n y C11 N1 GKT sing 114 n y C13 N2 GKT sing 115 n n N2 C18 GKT sing 116 n n N2 C14 GKT sing 117 n n C18 C17 GKT sing 118 n n C17 C16 GKT sing 119 n n C14 C15 GKT sing 120 n n C16 C15 GKT sing 121 n n C2 H1 GKT sing 122 n n C3 H2 GKT sing 123 n n C5 H3 GKT sing 124 n n C H4 GKT sing 125 n n C H5 GKT sing 126 n n C H6 GKT sing 127 n n N H7 GKT sing 128 n n C20 H8 GKT sing 129 n n C10 H9 GKT sing 130 n n C9 H10 GKT sing 131 n n N3 H11 GKT sing 132 n n C13 H13 GKT sing 133 n n C13 H14 GKT sing 134 n n C18 H16 GKT sing 135 n n C18 H17 GKT sing 136 n n C17 H18 GKT sing 137 n n C17 H19 GKT sing 138 n n C16 H20 GKT sing 139 n n C16 H21 GKT sing 140 n n C15 H22 GKT sing 141 n n C15 H23 GKT sing 142 n n C14 H24 GKT sing 143 n n C14 H25 GKT sing 144 n n # _atom_sites.entry_id 6HPW _atom_sites.fract_transf_matrix[1][1] 0.020518 _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] 0.020518 _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] 0.007597 _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 EDO A 1 201 150 EDO EDO . C 2 EDO A 1 202 151 EDO EDO . D 2 EDO A 1 203 152 EDO EDO . E 2 EDO A 1 204 153 EDO EDO . F 2 EDO A 1 205 154 EDO EDO . G 2 EDO A 1 206 155 EDO EDO . H 2 EDO A 1 207 156 EDO EDO . I 2 EDO A 1 208 157 EDO EDO . J 3 GKT A 1 209 1 GKT MMA . K 4 HOH A 1 301 32 HOH HOH . K 4 HOH A 2 302 49 HOH HOH . K 4 HOH A 3 303 28 HOH HOH . K 4 HOH A 4 304 8 HOH HOH . K 4 HOH A 5 305 39 HOH HOH . K 4 HOH A 6 306 21 HOH HOH . K 4 HOH A 7 307 11 HOH HOH . K 4 HOH A 8 308 65 HOH HOH . K 4 HOH A 9 309 58 HOH HOH . K 4 HOH A 10 310 63 HOH HOH . K 4 HOH A 11 311 15 HOH HOH . K 4 HOH A 12 312 41 HOH HOH . K 4 HOH A 13 313 35 HOH HOH . K 4 HOH A 14 314 40 HOH HOH . K 4 HOH A 15 315 1 HOH HOH . K 4 HOH A 16 316 45 HOH HOH . K 4 HOH A 17 317 54 HOH HOH . K 4 HOH A 18 318 12 HOH HOH . K 4 HOH A 19 319 44 HOH HOH . K 4 HOH A 20 320 22 HOH HOH . K 4 HOH A 21 321 62 HOH HOH . K 4 HOH A 22 322 34 HOH HOH . K 4 HOH A 23 323 60 HOH HOH . K 4 HOH A 24 324 29 HOH HOH . K 4 HOH A 25 325 46 HOH HOH . K 4 HOH A 26 326 67 HOH HOH . K 4 HOH A 27 327 47 HOH HOH . K 4 HOH A 28 328 9 HOH HOH . K 4 HOH A 29 329 3 HOH HOH . K 4 HOH A 30 330 51 HOH HOH . K 4 HOH A 31 331 69 HOH HOH . K 4 HOH A 32 332 19 HOH HOH . K 4 HOH A 33 333 14 HOH HOH . K 4 HOH A 34 334 42 HOH HOH . K 4 HOH A 35 335 26 HOH HOH . K 4 HOH A 36 336 43 HOH HOH . K 4 HOH A 37 337 31 HOH HOH . K 4 HOH A 38 338 64 HOH HOH . K 4 HOH A 39 339 53 HOH HOH . K 4 HOH A 40 340 38 HOH HOH . K 4 HOH A 41 341 16 HOH HOH . K 4 HOH A 42 342 25 HOH HOH . K 4 HOH A 43 343 24 HOH HOH . K 4 HOH A 44 344 5 HOH HOH . K 4 HOH A 45 345 23 HOH HOH . K 4 HOH A 46 346 18 HOH HOH . K 4 HOH A 47 347 13 HOH HOH . K 4 HOH A 48 348 70 HOH HOH . K 4 HOH A 49 349 66 HOH HOH . K 4 HOH A 50 350 36 HOH HOH . K 4 HOH A 51 351 17 HOH HOH . K 4 HOH A 52 352 2 HOH HOH . K 4 HOH A 53 353 20 HOH HOH . K 4 HOH A 54 354 33 HOH HOH . K 4 HOH A 55 355 68 HOH HOH . K 4 HOH A 56 356 4 HOH HOH . K 4 HOH A 57 357 10 HOH HOH . K 4 HOH A 58 358 57 HOH HOH . K 4 HOH A 59 359 7 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 C1 GKT . . . J 3 3.914 14.926 12.282 1 38.47 ? C1 GKT 209 A 1 HETATM 2 C C2 GKT . . . J 3 2.904 14.008 11.987 1 41.24 ? C2 GKT 209 A 1 HETATM 3 C C3 GKT . . . J 3 1.692 14.01 12.655 1 37.13 ? C3 GKT 209 A 1 HETATM 4 C C4 GKT . . . J 3 1.444 14.932 13.66 1 37.8 ? C4 GKT 209 A 1 HETATM 5 C C5 GKT . . . J 3 2.441 15.853 13.984 1 37.95 ? C5 GKT 209 A 1 HETATM 6 C C6 GKT . . . J 3 3.643 15.868 13.28 1 41.42 ? C6 GKT 209 A 1 HETATM 7 C C7 GKT . . . J 3 0.087 14.976 14.283 1 33.56 ? C7 GKT 209 A 1 HETATM 8 O O GKT . . . J 3 -0.922 14.786 13.614 1 35.36 ? O GKT 209 A 1 HETATM 9 I I GKT . . . J 3 4.957 17.529 13.566 1 62.2 ? I GKT 209 A 1 HETATM 10 C C GKT . . . J 3 5.231 14.842 11.559 1 40.02 ? C GKT 209 A 1 HETATM 11 N N GKT . . . J 3 0.057 15.235 15.602 1 31.89 ? N GKT 209 A 1 HETATM 12 C C8 GKT . . . J 3 -1.066 15.274 16.438 1 33.44 ? C8 GKT 209 A 1 HETATM 13 C C20 GKT . . . J 3 -2.297 14.754 16.029 1 33.98 ? C20 GKT 209 A 1 HETATM 14 C C19 GKT . . . J 3 -3.335 14.694 16.949 1 35.59 ? C19 GKT 209 A 1 HETATM 15 C C11 GKT . . . J 3 -3.144 15.172 18.24 1 39.87 ? C11 GKT 209 A 1 HETATM 16 C C10 GKT . . . J 3 -1.935 15.707 18.652 1 35.42 ? C10 GKT 209 A 1 HETATM 17 C C9 GKT . . . J 3 -0.896 15.758 17.737 1 37.09 ? C9 GKT 209 A 1 HETATM 18 N N3 GKT . . . J 3 -4.627 14.206 16.822 1 38.56 ? N3 GKT 209 A 1 HETATM 19 C C12 GKT . . . J 3 -5.187 14.407 18.001 1 43.58 ? C12 GKT 209 A 1 HETATM 20 N N1 GKT . . . J 3 -4.344 14.974 18.89 1 40.01 ? N1 GKT 209 A 1 HETATM 21 C C13 GKT . . . J 3 -6.626 14.152 18.317 1 46.25 ? C13 GKT 209 A 1 HETATM 22 N N2 GKT . . . J 3 -6.829 12.91 19.074 1 48.26 ? N2 GKT 209 A 1 HETATM 23 C C18 GKT . . . J 3 -8.276 12.62 19.205 1 53.34 ? C18 GKT 209 A 1 HETATM 24 C C17 GKT . . . J 3 -8.54 11.266 19.833 1 57.17 ? C17 GKT 209 A 1 HETATM 25 C C16 GKT . . . J 3 -7.661 11.046 21.05 1 55.99 ? C16 GKT 209 A 1 HETATM 26 C C15 GKT . . . J 3 -7.057 12.355 21.513 1 54.92 ? C15 GKT 209 A 1 HETATM 27 C C14 GKT . . . J 3 -6.223 13.003 20.413 1 52.78 ? C14 GKT 209 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 340 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #