data_7B10 # _model_server_result.job_id -dGju9_TwU09Y92nxHBgQw _model_server_result.datetime_utc '2024-11-06 15:24:29' _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 7b10 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 7B10 # _exptl.entry_id 7B10 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 474.338 _entity.id 2 _entity.src_method syn _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 125.58 _cell.angle_gamma 90 _cell.entry_id 7B10 _cell.length_a 91.111 _cell.length_b 39.357 _cell.length_c 53.111 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7B10 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomer _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,L,M,N,O _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 '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 7B10 _atom_sites.fract_transf_matrix[1][1] 0.010976 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007851 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.025408 _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] 0.023149 _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 GKT A 1 201 1 GKT MMA . C 3 IOD A 1 202 2 IOD IOD . D 4 EDO A 1 203 1 EDO EDO . E 4 EDO A 1 204 2 EDO EDO . F 4 EDO A 1 205 3 EDO EDO . G 4 EDO A 1 206 4 EDO EDO . H 4 EDO A 1 207 5 EDO EDO . I 4 EDO A 1 208 6 EDO EDO . J 4 EDO A 1 209 7 EDO EDO . K 4 EDO A 1 210 8 EDO EDO . L 4 EDO A 1 211 9 EDO EDO . M 4 EDO A 1 212 10 EDO EDO . N 4 EDO A 1 213 11 EDO EDO . O 5 HOH A 1 301 64 HOH HOH . O 5 HOH A 2 302 47 HOH HOH . O 5 HOH A 3 303 71 HOH HOH . O 5 HOH A 4 304 66 HOH HOH . O 5 HOH A 5 305 62 HOH HOH . O 5 HOH A 6 306 3 HOH HOH . O 5 HOH A 7 307 19 HOH HOH . O 5 HOH A 8 308 40 HOH HOH . O 5 HOH A 9 309 6 HOH HOH . O 5 HOH A 10 310 68 HOH HOH . O 5 HOH A 11 311 49 HOH HOH . O 5 HOH A 12 312 9 HOH HOH . O 5 HOH A 13 313 13 HOH HOH . O 5 HOH A 14 314 44 HOH HOH . O 5 HOH A 15 315 37 HOH HOH . O 5 HOH A 16 316 36 HOH HOH . O 5 HOH A 17 317 38 HOH HOH . O 5 HOH A 18 318 16 HOH HOH . O 5 HOH A 19 319 31 HOH HOH . O 5 HOH A 20 320 25 HOH HOH . O 5 HOH A 21 321 35 HOH HOH . O 5 HOH A 22 322 39 HOH HOH . O 5 HOH A 23 323 27 HOH HOH . O 5 HOH A 24 324 28 HOH HOH . O 5 HOH A 25 325 20 HOH HOH . O 5 HOH A 26 326 72 HOH HOH . O 5 HOH A 27 327 67 HOH HOH . O 5 HOH A 28 328 73 HOH HOH . O 5 HOH A 29 329 42 HOH HOH . O 5 HOH A 30 330 23 HOH HOH . O 5 HOH A 31 331 45 HOH HOH . O 5 HOH A 32 332 26 HOH HOH . O 5 HOH A 33 333 50 HOH HOH . O 5 HOH A 34 334 34 HOH HOH . O 5 HOH A 35 335 46 HOH HOH . O 5 HOH A 36 336 74 HOH HOH . O 5 HOH A 37 337 65 HOH HOH . O 5 HOH A 38 338 33 HOH HOH . O 5 HOH A 39 339 5 HOH HOH . O 5 HOH A 40 340 52 HOH HOH . O 5 HOH A 41 341 8 HOH HOH . O 5 HOH A 42 342 22 HOH HOH . O 5 HOH A 43 343 12 HOH HOH . O 5 HOH A 44 344 2 HOH HOH . O 5 HOH A 45 345 15 HOH HOH . O 5 HOH A 46 346 63 HOH HOH . O 5 HOH A 47 347 76 HOH HOH . O 5 HOH A 48 348 24 HOH HOH . O 5 HOH A 49 349 17 HOH HOH . O 5 HOH A 50 350 11 HOH HOH . O 5 HOH A 51 351 77 HOH HOH . O 5 HOH A 52 352 75 HOH HOH . O 5 HOH A 53 353 10 HOH HOH . O 5 HOH A 54 354 29 HOH HOH . O 5 HOH A 55 355 60 HOH HOH . O 5 HOH A 56 356 41 HOH HOH . O 5 HOH A 57 357 70 HOH HOH . O 5 HOH A 58 358 18 HOH HOH . O 5 HOH A 59 359 55 HOH HOH . O 5 HOH A 60 360 58 HOH HOH . O 5 HOH A 61 361 69 HOH HOH . O 5 HOH A 62 362 56 HOH HOH . O 5 HOH A 63 363 59 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 . A . B 2 -13.002 15.853 6.659 0.5 42.6 ? C1 GKT 201 A 1 HETATM 2 C C1 GKT . B . B 2 -13.069 16.196 6.722 0.5 35.27 ? C1 GKT 201 A 1 HETATM 3 C C2 GKT . A . B 2 -12.143 16.251 7.679 0.5 42.69 ? C2 GKT 201 A 1 HETATM 4 C C2 GKT . B . B 2 -12.229 16.61 7.751 0.5 35.27 ? C2 GKT 201 A 1 HETATM 5 C C3 GKT . A . B 2 -10.867 16.71 7.419 0.5 38.95 ? C3 GKT 201 A 1 HETATM 6 C C3 GKT . B . B 2 -10.924 16.985 7.514 0.5 33.97 ? C3 GKT 201 A 1 HETATM 7 C C4 GKT . A . B 2 -10.4 16.792 6.12 0.5 38.65 ? C4 GKT 201 A 1 HETATM 8 C C4 GKT . B . B 2 -10.411 16.976 6.231 0.5 33.11 ? C4 GKT 201 A 1 HETATM 9 C C5 GKT . A . B 2 -11.241 16.399 5.083 0.5 42.44 ? C5 GKT 201 A 1 HETATM 10 C C5 GKT . B . B 2 -11.229 16.559 5.188 0.5 36.6 ? C5 GKT 201 A 1 HETATM 11 C C6 GKT . A . B 2 -12.522 15.946 5.355 0.5 42.03 ? C6 GKT 201 A 1 HETATM 12 C C6 GKT . B . B 2 -12.53 16.176 5.434 0.5 32.59 ? C6 GKT 201 A 1 HETATM 13 C C7 GKT . A . B 2 -9.026 17.319 5.873 0.5 36.02 ? C7 GKT 201 A 1 HETATM 14 C C7 GKT . B . B 2 -9.027 17.48 6.012 0.5 33.08 ? C7 GKT 201 A 1 HETATM 15 O O GKT . A . B 2 -8.611 18.289 6.492 0.5 36.09 ? O GKT 201 A 1 HETATM 16 O O GKT . B . B 2 -8.568 18.354 6.732 0.5 32.89 ? O GKT 201 A 1 HETATM 17 I I GKT . A . B 2 -13.798 15.435 3.764 0.5 46.92 ? I GKT 201 A 1 HETATM 18 C C GKT . A . B 2 -14.382 15.347 6.984 0.5 43.22 ? C GKT 201 A 1 HETATM 19 C C GKT . B . B 2 -14.485 15.791 7.027 0.5 35.24 ? C GKT 201 A 1 HETATM 20 N N GKT . A . B 2 -8.29 16.635 4.965 0.5 33.79 ? N GKT 201 A 1 HETATM 21 N N GKT . B . B 2 -8.34 16.89 5.006 0.5 32.01 ? N GKT 201 A 1 HETATM 22 C C8 GKT . A . B 2 -6.955 16.876 4.54 0.5 33.79 ? C8 GKT 201 A 1 HETATM 23 C C8 GKT . B . B 2 -6.985 17.081 4.62 0.5 33.6 ? C8 GKT 201 A 1 HETATM 24 C C20 GKT . A . B 2 -6.047 17.613 5.306 0.5 34.08 ? C20 GKT 201 A 1 HETATM 25 C C20 GKT . B . B 2 -6.058 17.781 5.401 0.5 33.93 ? C20 GKT 201 A 1 HETATM 26 C C19 GKT . A . B 2 -4.71 17.664 4.908 0.5 31.98 ? C19 GKT 201 A 1 HETATM 27 C C19 GKT . B . B 2 -4.723 17.822 4.992 0.5 32.46 ? C19 GKT 201 A 1 HETATM 28 C C11 GKT . A . B 2 -4.311 16.999 3.755 0.5 34 ? C11 GKT 201 A 1 HETATM 29 C C11 GKT . B . B 2 -4.345 17.185 3.817 0.5 34.41 ? C11 GKT 201 A 1 HETATM 30 C C10 GKT . A . B 2 -5.211 16.296 2.967 0.5 33.4 ? C10 GKT 201 A 1 HETATM 31 C C10 GKT . B . B 2 -5.261 16.51 3.023 0.5 33.65 ? C10 GKT 201 A 1 HETATM 32 C C9 GKT . A . B 2 -6.537 16.246 3.364 0.5 31.59 ? C9 GKT 201 A 1 HETATM 33 C C9 GKT . B . B 2 -6.583 16.466 3.431 0.5 30.9 ? C9 GKT 201 A 1 HETATM 34 N N3 GKT . A . B 2 -3.61 18.312 5.475 0.5 31.2 ? N3 GKT 201 A 1 HETATM 35 N N3 GKT . B . B 2 -3.608 18.443 5.562 0.5 32.27 ? N3 GKT 201 A 1 HETATM 36 C C12 GKT . A . B 2 -2.598 18.04 4.669 0.5 33.67 ? C12 GKT 201 A 1 HETATM 37 C C12 GKT . B . B 2 -2.61 18.188 4.732 0.5 34.63 ? C12 GKT 201 A 1 HETATM 38 N N1 GKT . A . B 2 -2.955 17.252 3.628 0.5 32.43 ? N1 GKT 201 A 1 HETATM 39 N N1 GKT . B . B 2 -2.989 17.43 3.676 0.5 32.94 ? N1 GKT 201 A 1 HETATM 40 C C13 GKT . A . B 2 -1.227 18.632 4.788 0.5 34.59 ? C13 GKT 201 A 1 HETATM 41 C C13 GKT . B . B 2 -1.241 18.786 4.833 0.5 35.94 ? C13 GKT 201 A 1 HETATM 42 N N2 GKT . A . B 2 -0.232 17.677 5.311 0.5 36.29 ? N2 GKT 201 A 1 HETATM 43 N N2 GKT . B . B 2 -0.233 17.833 5.327 0.5 38.4 ? N2 GKT 201 A 1 HETATM 44 C C18 GKT . A . B 2 1.002 18.384 5.694 0.5 36.4 ? C18 GKT 201 A 1 HETATM 45 C C18 GKT . B . B 2 1.002 18.54 5.703 0.5 38.76 ? C18 GKT 201 A 1 HETATM 46 C C17 GKT . A . B 2 2.06 17.45 6.254 0.5 35.54 ? C17 GKT 201 A 1 HETATM 47 C C17 GKT . B . B 2 2.061 17.6 6.249 0.5 37.82 ? C17 GKT 201 A 1 HETATM 48 C C16 GKT . A . B 2 2.405 16.363 5.26 0.5 37.74 ? C16 GKT 201 A 1 HETATM 49 C C16 GKT . B . B 2 2.405 16.527 5.242 0.5 39.95 ? C16 GKT 201 A 1 HETATM 50 C C15 GKT . A . B 2 1.15 15.65 4.8 0.5 35.95 ? C15 GKT 201 A 1 HETATM 51 C C15 GKT . B . B 2 1.148 15.817 4.775 0.5 38.8 ? C15 GKT 201 A 1 HETATM 52 C C14 GKT . A . B 2 0.101 16.647 4.304 0.5 37.91 ? C14 GKT 201 A 1 HETATM 53 C C14 GKT . B . B 2 0.092 16.819 4.302 0.5 40.63 ? C14 GKT 201 A 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 342 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 53 #