data_3KAG # _model_server_result.job_id eFF-uRqAQrIcIHbU-CChFg _model_server_result.datetime_utc '2024-11-14 17:05:44' _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 3kag # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":164}' # _entry.id 3KAG # _exptl.entry_id 3KAG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 313.308 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-(1H-benzimidazol-2-yl)-N-[(2-methylfuran-3-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 3KAG _cell.length_a 68.504 _cell.length_b 68.504 _cell.length_c 79.56 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3KAG _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C16 H15 N3 O4' _chem_comp.formula_weight 313.308 _chem_comp.id 4D7 _chem_comp.mon_nstd_flag . _chem_comp.name 3-(1H-benzimidazol-2-yl)-N-[(2-methylfuran-3-yl)carbonyl]-D-alanine _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '(R)-3-(1H-Benzoimidazol-2-yl)-2-[(2-methyl-furan-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 C2 C1 4D7 doub 87 n y C1 C4 4D7 sing 88 n y C1 H1 4D7 sing 89 n n C3 C2 4D7 sing 90 n y C2 H2 4D7 sing 91 n n C3 C7 4D7 doub 92 n y C3 H3 4D7 sing 93 n n C6 C4 4D7 doub 94 n y C4 H4 4D7 sing 95 n n C9 N5 4D7 sing 96 n y C6 N5 4D7 sing 97 n y C7 C6 4D7 sing 98 n y N8 C7 4D7 sing 99 n y N8 C9 4D7 doub 100 n y C10 C9 4D7 sing 101 n n C11 C10 4D7 sing 102 n n C10 H10 4D7 sing 103 n n C10 H10A 4D7 sing 104 n n N15 C11 4D7 sing 105 n n C12 C11 4D7 sing 106 n n C11 H11 4D7 sing 107 n n O14 C12 4D7 doub 108 n n C12 O13 4D7 sing 109 n n O13 HO13 4D7 sing 110 n n C16 N15 4D7 sing 111 n n N15 HN15 4D7 sing 112 n n C17 C16 4D7 sing 113 n n C16 O18 4D7 doub 114 n n C19 C17 4D7 doub 115 n y C22 C17 4D7 sing 116 n y O20 C19 4D7 sing 117 n y C19 C23 4D7 sing 118 n n O20 C21 4D7 sing 119 n y C21 C22 4D7 doub 120 n y C21 H21 4D7 sing 121 n n C22 H22 4D7 sing 122 n n C23 H23 4D7 sing 123 n n C23 H23A 4D7 sing 124 n n C23 H23B 4D7 sing 125 n n N5 HN5 4D7 sing 126 n n # _atom_sites.entry_id 3KAG _atom_sites.fract_transf_matrix[1][1] 0.014598 _atom_sites.fract_transf_matrix[1][2] 0.008428 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016856 _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] 0.012569 _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 4D7 A 1 164 1 4D7 4D7 . C 3 12P A 1 165 1 12P 12P . 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 6 171 171 HOH HOH . D 4 HOH A 7 172 6 HOH HOH . D 4 HOH A 8 173 173 HOH HOH . D 4 HOH A 9 174 8 HOH HOH . D 4 HOH A 10 175 9 HOH HOH . D 4 HOH A 11 176 11 HOH HOH . D 4 HOH A 12 177 12 HOH HOH . D 4 HOH A 13 178 13 HOH HOH . D 4 HOH A 14 179 179 HOH HOH . D 4 HOH A 15 180 180 HOH HOH . D 4 HOH A 16 181 15 HOH HOH . D 4 HOH A 17 182 182 HOH HOH . D 4 HOH A 18 183 183 HOH HOH . D 4 HOH A 19 184 184 HOH HOH . D 4 HOH A 20 185 16 HOH HOH . D 4 HOH A 21 186 186 HOH HOH . D 4 HOH A 22 187 187 HOH HOH . D 4 HOH A 23 188 188 HOH HOH . D 4 HOH A 24 189 189 HOH HOH . D 4 HOH A 25 190 190 HOH HOH . D 4 HOH A 26 191 17 HOH HOH . D 4 HOH A 27 192 192 HOH HOH . D 4 HOH A 28 193 193 HOH HOH . D 4 HOH A 29 194 194 HOH HOH . D 4 HOH A 30 195 195 HOH HOH . D 4 HOH A 31 196 196 HOH HOH . D 4 HOH A 32 197 18 HOH HOH . D 4 HOH A 33 198 198 HOH HOH . D 4 HOH A 34 199 199 HOH HOH . D 4 HOH A 35 200 200 HOH HOH . D 4 HOH A 36 201 201 HOH HOH . D 4 HOH A 37 202 202 HOH HOH . D 4 HOH A 38 203 203 HOH HOH . D 4 HOH A 39 204 204 HOH HOH . D 4 HOH A 40 205 205 HOH HOH . D 4 HOH A 41 206 206 HOH HOH . D 4 HOH A 42 207 207 HOH HOH . D 4 HOH A 43 208 208 HOH HOH . D 4 HOH A 44 209 209 HOH HOH . D 4 HOH A 45 210 210 HOH HOH . D 4 HOH A 46 211 211 HOH HOH . D 4 HOH A 47 212 212 HOH HOH . D 4 HOH A 48 213 213 HOH HOH . D 4 HOH A 49 214 214 HOH HOH . D 4 HOH A 50 215 215 HOH HOH . D 4 HOH A 51 216 216 HOH HOH . D 4 HOH A 52 217 217 HOH HOH . D 4 HOH A 53 218 218 HOH HOH . D 4 HOH A 54 219 19 HOH HOH . D 4 HOH A 55 220 220 HOH HOH . D 4 HOH A 56 221 221 HOH HOH . D 4 HOH A 57 222 222 HOH HOH . D 4 HOH A 58 223 20 HOH HOH . D 4 HOH A 59 224 21 HOH HOH . D 4 HOH A 60 225 22 HOH HOH . D 4 HOH A 61 226 23 HOH HOH . D 4 HOH A 62 227 25 HOH HOH . D 4 HOH A 63 228 27 HOH HOH . D 4 HOH A 64 229 28 HOH HOH . D 4 HOH A 65 230 29 HOH HOH . D 4 HOH A 66 231 31 HOH HOH . D 4 HOH A 67 232 32 HOH HOH . D 4 HOH A 68 233 34 HOH HOH . D 4 HOH A 69 234 36 HOH HOH . D 4 HOH A 70 235 37 HOH HOH . D 4 HOH A 71 236 38 HOH HOH . D 4 HOH A 72 237 39 HOH HOH . D 4 HOH A 73 238 40 HOH HOH . D 4 HOH A 74 239 41 HOH HOH . D 4 HOH A 75 240 42 HOH HOH . D 4 HOH A 76 241 44 HOH HOH . D 4 HOH A 77 242 48 HOH HOH . D 4 HOH A 78 243 49 HOH HOH . D 4 HOH A 79 244 51 HOH HOH . D 4 HOH A 80 245 52 HOH HOH . D 4 HOH A 81 246 53 HOH HOH . D 4 HOH A 82 247 54 HOH HOH . D 4 HOH A 83 248 56 HOH HOH . D 4 HOH A 84 249 57 HOH HOH . D 4 HOH A 85 250 58 HOH HOH . D 4 HOH A 86 251 61 HOH HOH . D 4 HOH A 87 252 63 HOH HOH . D 4 HOH A 88 253 64 HOH HOH . D 4 HOH A 89 254 66 HOH HOH . D 4 HOH A 90 255 70 HOH HOH . D 4 HOH A 91 256 71 HOH HOH . D 4 HOH A 92 257 74 HOH HOH . D 4 HOH A 93 258 75 HOH HOH . D 4 HOH A 94 259 76 HOH HOH . D 4 HOH A 95 260 82 HOH HOH . D 4 HOH A 96 261 87 HOH HOH . D 4 HOH A 97 262 88 HOH HOH . D 4 HOH A 98 263 90 HOH HOH . D 4 HOH A 99 264 95 HOH HOH . D 4 HOH A 100 265 97 HOH HOH . D 4 HOH A 101 266 99 HOH HOH . D 4 HOH A 102 267 100 HOH HOH . D 4 HOH A 103 268 101 HOH HOH . D 4 HOH A 104 269 103 HOH HOH . D 4 HOH A 105 270 105 HOH HOH . D 4 HOH A 106 271 108 HOH HOH . D 4 HOH A 107 272 109 HOH HOH . D 4 HOH A 108 273 111 HOH HOH . D 4 HOH A 109 274 114 HOH HOH . D 4 HOH A 110 275 117 HOH HOH . D 4 HOH A 111 276 118 HOH HOH . D 4 HOH A 112 277 123 HOH HOH . D 4 HOH A 113 278 124 HOH HOH . D 4 HOH A 114 279 125 HOH HOH . D 4 HOH A 115 280 135 HOH HOH . D 4 HOH A 116 281 137 HOH HOH . D 4 HOH A 117 282 141 HOH HOH . D 4 HOH A 118 283 148 HOH HOH . D 4 HOH A 119 284 151 HOH HOH . D 4 HOH A 120 285 159 HOH HOH . D 4 HOH A 121 286 160 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 4D7 . . . B 2 -31.694 24.247 26.667 1 33.1 ? C1 4D7 164 A 1 HETATM 2 C C2 4D7 . . . B 2 -31.613 23.712 25.386 1 31.68 ? C2 4D7 164 A 1 HETATM 3 C C3 4D7 . . . B 2 -32.665 23.883 24.493 1 30.7 ? C3 4D7 164 A 1 HETATM 4 C C4 4D7 . . . B 2 -32.826 24.952 27.057 1 28.88 ? C4 4D7 164 A 1 HETATM 5 N N5 4D7 . . . B 2 -35.051 25.734 26.259 1 32.04 ? N5 4D7 164 A 1 HETATM 6 C C6 4D7 . . . B 2 -33.876 25.121 26.163 1 34.61 ? C6 4D7 164 A 1 HETATM 7 C C7 4D7 . . . B 2 -33.796 24.589 24.886 1 29.96 ? C7 4D7 164 A 1 HETATM 8 N N8 4D7 . . . B 2 -34.926 24.901 24.259 1 30.56 ? N8 4D7 164 A 1 HETATM 9 C C9 4D7 . . . B 2 -35.691 25.599 25.097 1 34.99 ? C9 4D7 164 A 1 HETATM 10 C C10 4D7 . . . B 2 -37.08 26.157 24.778 1 40.92 ? C10 4D7 164 A 1 HETATM 11 C C11 4D7 . . . B 2 -36.979 27.519 24.088 1 52.48 ? C11 4D7 164 A 1 HETATM 12 C C12 4D7 . . . B 2 -38.356 28.185 24.069 1 52.24 ? C12 4D7 164 A 1 HETATM 13 O O13 4D7 . . . B 2 -38.762 28.803 25.051 1 50.42 ? O13 4D7 164 A 1 HETATM 14 O O14 4D7 . . . B 2 -39.07 28.109 23.07 1 54.56 ? O14 4D7 164 A 1 HETATM 15 N N15 4D7 . . . B 2 -36.502 27.336 22.71 1 60.53 ? N15 4D7 164 A 1 HETATM 16 C C16 4D7 . . . B 2 -35.257 27.633 22.349 1 69.11 ? C16 4D7 164 A 1 HETATM 17 C C17 4D7 . . . B 2 -34.933 27.381 20.875 1 72.57 ? C17 4D7 164 A 1 HETATM 18 O O18 4D7 . . . B 2 -34.406 28.078 23.118 1 69.56 ? O18 4D7 164 A 1 HETATM 19 C C19 4D7 . . . B 2 -35.256 28.218 19.825 1 75.01 ? C19 4D7 164 A 1 HETATM 20 O O20 4D7 . . . B 2 -34.799 27.645 18.681 1 77.35 ? O20 4D7 164 A 1 HETATM 21 C C21 4D7 . . . B 2 -34.201 26.461 19.065 1 74.15 ? C21 4D7 164 A 1 HETATM 22 C C22 4D7 . . . B 2 -34.292 26.32 20.393 1 72.8 ? C22 4D7 164 A 1 HETATM 23 C C23 4D7 . . . B 2 -35.998 29.552 19.932 1 74.71 ? C23 4D7 164 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 23 #