data_3KAH # _model_server_result.job_id EwyLBLVZX3V70aNb7F5DUg _model_server_result.datetime_utc '2024-10-18 04:31:13' _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 3kah # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":165}' # _entry.id 3KAH # _exptl.entry_id 3KAH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 389.407 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-(1H-benzimidazol-2-yl)-N-[(1-methyl-3-phenyl-1H-pyrazol-5-yl)carbonyl]-D-alanine _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 120 _cell.entry_id 3KAH _cell.length_a 69.893 _cell.length_b 69.893 _cell.length_c 79.027 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3KAH _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 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,D _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 C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C21 H19 N5 O3' _chem_comp.formula_weight 389.407 _chem_comp.id 4DH _chem_comp.mon_nstd_flag . _chem_comp.name 3-(1H-benzimidazol-2-yl)-N-[(1-methyl-3-phenyl-1H-pyrazol-5-yl)carbonyl]-D-alanine _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '(R)-3-(1H-Benzoimidazol-2-yl)-2-[(2-methyl-5-phenyl-2H-pyrazole-3-carbonyl)-amino]-propionic acid' # 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 C4 C1 4DH doub 87 n y C1 C2 4DH sing 88 n y C1 H1 4DH sing 89 n n C2 C3 4DH doub 90 n y C2 H2 4DH sing 91 n n C7 C3 4DH sing 92 n y C3 H3 4DH sing 93 n n C4 C6 4DH sing 94 n y C4 H4 4DH sing 95 n n N5 C9 4DH sing 96 n y N5 C6 4DH sing 97 n y C6 C7 4DH doub 98 n y N8 C7 4DH sing 99 n y C9 N8 4DH doub 100 n y C10 C9 4DH sing 101 n n C11 C10 4DH sing 102 n n C10 H10 4DH sing 103 n n C10 H10A 4DH sing 104 n n N15 C11 4DH sing 105 n n C12 C11 4DH sing 106 n n C11 H11 4DH sing 107 n n O13 C12 4DH doub 108 n n C12 O14 4DH sing 109 n n O14 HO14 4DH sing 110 n n C16 N15 4DH sing 111 n n N15 HN15 4DH sing 112 n n C17 C16 4DH sing 113 n n C16 O18 4DH doub 114 n n C22 C17 4DH doub 115 n y N19 C17 4DH sing 116 n y N20 N19 4DH sing 117 n y N19 C23 4DH sing 118 n n C21 N20 4DH doub 119 n y C24 C21 4DH sing 120 n y C21 C22 4DH sing 121 n y C22 H22 4DH sing 122 n n C23 H23 4DH sing 123 n n C23 H23A 4DH sing 124 n n C23 H23B 4DH sing 125 n n C25 C24 4DH doub 126 n y C29 C24 4DH sing 127 n y C26 C25 4DH sing 128 n y C25 H25 4DH sing 129 n n C27 C26 4DH doub 130 n y C26 H26 4DH sing 131 n n C27 C28 4DH sing 132 n y C27 H27 4DH sing 133 n n C28 C29 4DH doub 134 n y C28 H28 4DH sing 135 n n C29 H29 4DH sing 136 n n N5 HN5 4DH sing 137 n n # _atom_sites.entry_id 3KAH _atom_sites.fract_transf_matrix[1][1] 0.014308 _atom_sites.fract_transf_matrix[1][2] 0.008261 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016521 _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] 0.012654 _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 12P A 1 164 1 12P 12P . C 3 4DH A 1 165 1 4DH 4DH . D 4 HOH A 1 166 1 HOH HOH . D 4 HOH A 2 167 2 HOH HOH . D 4 HOH A 3 168 3 HOH HOH . D 4 HOH A 4 169 4 HOH HOH . D 4 HOH A 5 170 5 HOH HOH . D 4 HOH A 6 171 6 HOH HOH . D 4 HOH A 7 172 7 HOH HOH . D 4 HOH A 8 173 9 HOH HOH . D 4 HOH A 9 174 10 HOH HOH . D 4 HOH A 10 175 11 HOH HOH . D 4 HOH A 11 176 13 HOH HOH . D 4 HOH A 12 177 15 HOH HOH . D 4 HOH A 13 178 16 HOH HOH . D 4 HOH A 14 179 17 HOH HOH . D 4 HOH A 15 180 18 HOH HOH . D 4 HOH A 16 181 19 HOH HOH . D 4 HOH A 17 182 20 HOH HOH . D 4 HOH A 18 183 21 HOH HOH . D 4 HOH A 19 184 22 HOH HOH . D 4 HOH A 20 185 23 HOH HOH . D 4 HOH A 21 186 26 HOH HOH . D 4 HOH A 22 187 27 HOH HOH . D 4 HOH A 23 188 28 HOH HOH . D 4 HOH A 24 189 29 HOH HOH . D 4 HOH A 25 190 30 HOH HOH . D 4 HOH A 26 191 31 HOH HOH . D 4 HOH A 27 192 32 HOH HOH . D 4 HOH A 28 193 33 HOH HOH . D 4 HOH A 29 194 34 HOH HOH . D 4 HOH A 30 195 35 HOH HOH . D 4 HOH A 31 196 36 HOH HOH . D 4 HOH A 32 197 37 HOH HOH . D 4 HOH A 33 198 39 HOH HOH . D 4 HOH A 34 199 40 HOH HOH . D 4 HOH A 35 200 41 HOH HOH . D 4 HOH A 36 201 42 HOH HOH . D 4 HOH A 37 202 43 HOH HOH . D 4 HOH A 38 203 44 HOH HOH . D 4 HOH A 39 204 45 HOH HOH . D 4 HOH A 40 205 46 HOH HOH . D 4 HOH A 41 206 47 HOH HOH . D 4 HOH A 42 207 48 HOH HOH . D 4 HOH A 43 208 49 HOH HOH . D 4 HOH A 44 209 50 HOH HOH . D 4 HOH A 45 210 52 HOH HOH . D 4 HOH A 46 211 55 HOH HOH . D 4 HOH A 47 212 56 HOH HOH . D 4 HOH A 48 213 58 HOH HOH . D 4 HOH A 49 214 60 HOH HOH . D 4 HOH A 50 215 61 HOH HOH . D 4 HOH A 51 216 63 HOH HOH . D 4 HOH A 52 217 66 HOH HOH . D 4 HOH A 53 218 67 HOH HOH . D 4 HOH A 54 219 69 HOH HOH . D 4 HOH A 55 220 72 HOH HOH . D 4 HOH A 56 221 75 HOH HOH . D 4 HOH A 57 222 77 HOH HOH . D 4 HOH A 58 223 78 HOH HOH . D 4 HOH A 59 224 79 HOH HOH . D 4 HOH A 60 225 81 HOH HOH . D 4 HOH A 61 226 82 HOH HOH . D 4 HOH A 62 227 83 HOH HOH . D 4 HOH A 63 228 85 HOH HOH . D 4 HOH A 64 229 86 HOH HOH . D 4 HOH A 65 230 89 HOH HOH . D 4 HOH A 66 231 90 HOH HOH . D 4 HOH A 67 232 91 HOH HOH . D 4 HOH A 68 233 93 HOH HOH . D 4 HOH A 69 234 94 HOH HOH . D 4 HOH A 70 235 95 HOH HOH . D 4 HOH A 71 236 98 HOH HOH . D 4 HOH A 72 237 100 HOH HOH . D 4 HOH A 73 238 102 HOH HOH . D 4 HOH A 74 239 104 HOH HOH . D 4 HOH A 75 240 106 HOH HOH . D 4 HOH A 76 241 107 HOH HOH . D 4 HOH A 77 242 110 HOH HOH . D 4 HOH A 78 243 111 HOH HOH . D 4 HOH A 79 244 112 HOH HOH . D 4 HOH A 80 245 113 HOH HOH . D 4 HOH A 81 246 114 HOH HOH . D 4 HOH A 82 247 115 HOH HOH . D 4 HOH A 83 248 116 HOH HOH . D 4 HOH A 84 249 117 HOH HOH . D 4 HOH A 85 250 120 HOH HOH . D 4 HOH A 86 251 122 HOH HOH . D 4 HOH A 87 252 123 HOH HOH . D 4 HOH A 88 253 124 HOH HOH . D 4 HOH A 89 254 125 HOH HOH . D 4 HOH A 90 255 126 HOH HOH . D 4 HOH A 91 256 128 HOH HOH . D 4 HOH A 92 257 129 HOH HOH . D 4 HOH A 93 258 130 HOH HOH . D 4 HOH A 94 259 131 HOH HOH . D 4 HOH A 95 260 132 HOH HOH . D 4 HOH A 96 261 133 HOH HOH . D 4 HOH A 97 262 134 HOH HOH . D 4 HOH A 98 263 136 HOH HOH . D 4 HOH A 99 264 137 HOH HOH . D 4 HOH A 100 265 138 HOH HOH . D 4 HOH A 101 266 139 HOH HOH . D 4 HOH A 102 267 141 HOH HOH . D 4 HOH A 103 268 142 HOH HOH . D 4 HOH A 104 269 143 HOH HOH . D 4 HOH A 105 270 144 HOH HOH . D 4 HOH A 106 271 145 HOH HOH . D 4 HOH A 107 272 146 HOH HOH . D 4 HOH A 108 273 147 HOH HOH . D 4 HOH A 109 274 148 HOH HOH . D 4 HOH A 110 275 149 HOH HOH . D 4 HOH A 111 276 150 HOH HOH . D 4 HOH A 112 277 151 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 4DH . . . C 3 32.015 -24.045 -15.613 1 24 ? C1 4DH 165 A 1 HETATM 2 C C2 4DH . . . C 3 32.173 -24.784 -14.446 1 22.95 ? C2 4DH 165 A 1 HETATM 3 C C3 4DH . . . C 3 33.36 -25.468 -14.211 1 23.84 ? C3 4DH 165 A 1 HETATM 4 C C4 4DH . . . C 3 33.043 -23.989 -16.546 1 23.3 ? C4 4DH 165 A 1 HETATM 5 N N5 4DH . . . C 3 35.353 -24.797 -17.006 1 26.73 ? N5 4DH 165 A 1 HETATM 6 C C6 4DH . . . C 3 34.229 -24.674 -16.309 1 26.79 ? C6 4DH 165 A 1 HETATM 7 C C7 4DH . . . C 3 34.387 -25.411 -15.146 1 25.43 ? C7 4DH 165 A 1 HETATM 8 N N8 4DH . . . C 3 35.6 -25.951 -15.185 1 29.21 ? N8 4DH 165 A 1 HETATM 9 C C9 4DH . . . C 3 36.19 -25.576 -16.32 1 28.19 ? C9 4DH 165 A 1 HETATM 10 C C10 4DH . . . C 3 37.598 -25.976 -16.764 1 32.98 ? C10 4DH 165 A 1 HETATM 11 C C11 4DH . . . C 3 37.55 -27.133 -17.764 1 38.83 ? C11 4DH 165 A 1 HETATM 12 C C12 4DH . . . C 3 38.974 -27.507 -18.181 1 42.62 ? C12 4DH 165 A 1 HETATM 13 O O13 4DH . . . C 3 39.333 -27.384 -19.351 1 44.27 ? O13 4DH 165 A 1 HETATM 14 O O14 4DH . . . C 3 39.775 -27.934 -17.35 1 44.21 ? O14 4DH 165 A 1 HETATM 15 N N15 4DH . . . C 3 36.782 -26.726 -18.949 1 41.46 ? N15 4DH 165 A 1 HETATM 16 C C16 4DH . . . C 3 35.52 -27.102 -19.133 1 37.5 ? C16 4DH 165 A 1 HETATM 17 C C17 4DH . . . C 3 34.874 -26.587 -20.421 1 33.88 ? C17 4DH 165 A 1 HETATM 18 O O18 4DH . . . C 3 34.89 -27.808 -18.348 1 40.12 ? O18 4DH 165 A 1 HETATM 19 N N19 4DH . . . C 3 33.576 -26.422 -20.624 1 33.4 ? N19 4DH 165 A 1 HETATM 20 N N20 4DH . . . C 3 33.379 -25.994 -21.761 1 32.27 ? N20 4DH 165 A 1 HETATM 21 C C21 4DH . . . C 3 34.561 -25.855 -22.371 1 31.51 ? C21 4DH 165 A 1 HETATM 22 C C22 4DH . . . C 3 35.517 -26.231 -21.522 1 31.23 ? C22 4DH 165 A 1 HETATM 23 C C23 4DH . . . C 3 32.518 -26.71 -19.629 1 31.8 ? C23 4DH 165 A 1 HETATM 24 C C24 4DH . . . C 3 34.759 -25.396 -23.668 1 29.97 ? C24 4DH 165 A 1 HETATM 25 C C25 4DH . . . C 3 35.915 -25.74 -24.358 1 30.57 ? C25 4DH 165 A 1 HETATM 26 C C26 4DH . . . C 3 36.112 -25.282 -25.656 1 30.2 ? C26 4DH 165 A 1 HETATM 27 C C27 4DH . . . C 3 35.153 -24.478 -26.262 1 28.69 ? C27 4DH 165 A 1 HETATM 28 C C28 4DH . . . C 3 33.997 -24.134 -25.572 1 28.43 ? C28 4DH 165 A 1 HETATM 29 C C29 4DH . . . C 3 33.8 -24.593 -24.274 1 28.83 ? C29 4DH 165 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 261 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 29 #