data_4DWK # _model_server_result.job_id y3HJXOElMSam3Kr90Xa5-w _model_server_result.datetime_utc '2024-11-30 04:40:22' _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 4dwk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1101}' # _entry.id 4DWK # _exptl.entry_id 4DWK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 402.444 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'methyl N-(carboxymethyl)-N-(3-phenylpropyl)glycyl-L-histidinate' _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 120 _cell.entry_id 4DWK _cell.length_a 261.511 _cell.length_b 261.511 _cell.length_c 91.721 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4DWK _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 ? dimeric 2 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 1 A,B,C,D,E,F,G,H 3 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 # 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 E N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A NE2 HIS 79 A HIS 108 1_555 D ZN ZN . A ZN 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.936 ? metalc ? metalc2 A NE2 HIS 83 A HIS 112 1_555 D ZN ZN . A ZN 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.814 ? metalc ? metalc3 A OE2 GLU 160 A GLU 189 1_555 D ZN ZN . A ZN 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.776 ? metalc ? metalc4 A OE1 GLU 160 A GLU 189 1_555 D ZN ZN . A ZN 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.829 ? metalc ? metalc5 D ZN ZN . A ZN 1102 1_555 G O HOH . A HOH 1234 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.863 ? metalc ? metalc6 B NE2 HIS 79 B HIS 108 1_555 F ZN ZN . B ZN 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.95 ? metalc ? metalc7 B NE2 HIS 83 B HIS 112 1_555 F ZN ZN . B ZN 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc8 B OE1 GLU 160 B GLU 189 1_555 F ZN ZN . B ZN 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? metalc ? metalc9 F ZN ZN . B ZN 1102 1_555 H O HOH . B HOH 1207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.98 ? # _chem_comp.formula 'C20 H26 N4 O5' _chem_comp.formula_weight 402.444 _chem_comp.id MGK _chem_comp.mon_nstd_flag . _chem_comp.name 'methyl N-(carboxymethyl)-N-(3-phenylpropyl)glycyl-L-histidinate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '((S)-2-{2-[Carboxymethyl-(3-phenyl-propyl)-amino]-acetylamino}-3-(1H-imidazol-4-yl)-propionic acid methyl ester' # 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 N11 C10 MGK sing 237 n y C10 N09 MGK doub 238 n y C10 H10 MGK sing 239 n n C05 N12 MGK sing 240 n n C13 N12 MGK sing 241 n n N12 HN12 MGK sing 242 n n C15 C13 MGK sing 243 n n C13 O14 MGK doub 244 n n C15 N16 MGK sing 245 n n C15 H15 MGK sing 246 n n C15 H15A MGK sing 247 n n C18 C17 MGK sing 248 n n N16 C17 MGK sing 249 n n C17 H17 MGK sing 250 n n C17 H17A MGK sing 251 n n C25 C20 MGK doub 252 n y C20 C19 MGK sing 253 n n C20 C21 MGK sing 254 n y C22 C21 MGK doub 255 n y C21 H21 MGK sing 256 n n C23 C22 MGK sing 257 n y C22 H22 MGK sing 258 n n C24 C25 MGK sing 259 n y C24 C23 MGK doub 260 n y C24 H24 MGK sing 261 n n N16 C26 MGK sing 262 n n C26 C27 MGK sing 263 n n C26 H26 MGK sing 264 n n C26 H26A MGK sing 265 n n C27 O29 MGK sing 266 n n O29 HO29 MGK sing 267 n n C27 O28 MGK doub 268 n n C18 C19 MGK sing 269 n n C18 H18 MGK sing 270 n n C18 H18A MGK sing 271 n n C19 H19 MGK sing 272 n n C19 H19A MGK sing 273 n n C25 H25 MGK sing 274 n n C23 H23 MGK sing 275 n n C06 C05 MGK sing 276 n n C05 C03 MGK sing 277 n n C05 H05 MGK sing 278 n n O02 C03 MGK sing 279 n n C03 O04 MGK doub 280 n n O02 C01 MGK sing 281 n n C01 H01 MGK sing 282 n n C01 H01A MGK sing 283 n n C01 H01B MGK sing 284 n n C06 C07 MGK sing 285 n n C06 H06 MGK sing 286 n n C06 H06A MGK sing 287 n n N11 C07 MGK sing 288 n y C07 C08 MGK doub 289 n y C08 N09 MGK sing 290 n y C08 H08 MGK sing 291 n n N11 HN11 MGK sing 292 n n # _atom_sites.entry_id 4DWK _atom_sites.fract_transf_matrix[1][1] 0.003824 _atom_sites.fract_transf_matrix[1][2] 0.002208 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004415 _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] 0.010903 _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 MGK A 1 1101 1 MGK MGK . D 3 ZN A 1 1102 1020 ZN ZN . E 2 MGK B 1 1101 1 MGK MGK . F 3 ZN B 1 1102 2 ZN ZN . G 4 HOH A 1 1201 2 HOH HOH . G 4 HOH A 2 1202 12 HOH HOH . G 4 HOH A 3 1203 16 HOH HOH . G 4 HOH A 4 1204 19 HOH HOH . G 4 HOH A 5 1205 22 HOH HOH . G 4 HOH A 6 1206 24 HOH HOH . G 4 HOH A 7 1207 27 HOH HOH . G 4 HOH A 8 1208 1021 HOH HOH . G 4 HOH A 9 1209 1022 HOH HOH . G 4 HOH A 10 1210 1023 HOH HOH . G 4 HOH A 11 1211 1024 HOH HOH . G 4 HOH A 12 1212 1025 HOH HOH . G 4 HOH A 13 1213 1026 HOH HOH . G 4 HOH A 14 1214 1027 HOH HOH . G 4 HOH A 15 1215 1028 HOH HOH . G 4 HOH A 16 1216 1029 HOH HOH . G 4 HOH A 17 1217 1030 HOH HOH . G 4 HOH A 18 1218 1031 HOH HOH . G 4 HOH A 19 1219 1032 HOH HOH . G 4 HOH A 20 1220 1033 HOH HOH . G 4 HOH A 21 1221 1034 HOH HOH . G 4 HOH A 22 1222 1035 HOH HOH . G 4 HOH A 23 1223 1036 HOH HOH . G 4 HOH A 24 1224 1037 HOH HOH . G 4 HOH A 25 1225 1038 HOH HOH . G 4 HOH A 26 1226 1039 HOH HOH . G 4 HOH A 27 1227 1040 HOH HOH . G 4 HOH A 28 1228 1041 HOH HOH . G 4 HOH A 29 1229 1042 HOH HOH . G 4 HOH A 30 1230 1043 HOH HOH . G 4 HOH A 31 1231 1044 HOH HOH . G 4 HOH A 32 1232 1045 HOH HOH . G 4 HOH A 33 1233 1046 HOH HOH . G 4 HOH A 34 1234 1047 HOH HOH . G 4 HOH A 35 1235 1048 HOH HOH . G 4 HOH A 36 1236 1049 HOH HOH . G 4 HOH A 37 1237 1050 HOH HOH . G 4 HOH A 38 1238 1051 HOH HOH . G 4 HOH A 39 1239 1052 HOH HOH . G 4 HOH A 40 1240 1053 HOH HOH . G 4 HOH A 41 1241 1054 HOH HOH . G 4 HOH A 42 1242 1055 HOH HOH . G 4 HOH A 43 1243 1056 HOH HOH . G 4 HOH A 44 1244 1057 HOH HOH . G 4 HOH A 45 1245 1058 HOH HOH . G 4 HOH A 46 1246 1059 HOH HOH . G 4 HOH A 47 1247 1060 HOH HOH . G 4 HOH A 48 1248 1061 HOH HOH . G 4 HOH A 49 1249 1062 HOH HOH . G 4 HOH A 50 1250 1063 HOH HOH . G 4 HOH A 51 1251 1064 HOH HOH . G 4 HOH A 52 1252 1065 HOH HOH . G 4 HOH A 53 1253 1066 HOH HOH . G 4 HOH A 54 1254 1067 HOH HOH . G 4 HOH A 55 1255 1068 HOH HOH . G 4 HOH A 56 1256 1069 HOH HOH . G 4 HOH A 57 1257 1070 HOH HOH . G 4 HOH A 58 1258 1071 HOH HOH . G 4 HOH A 59 1259 1072 HOH HOH . G 4 HOH A 60 1260 1073 HOH HOH . G 4 HOH A 61 1261 1074 HOH HOH . G 4 HOH A 62 1262 1075 HOH HOH . G 4 HOH A 63 1263 1076 HOH HOH . G 4 HOH A 64 1264 1077 HOH HOH . G 4 HOH A 65 1265 1078 HOH HOH . G 4 HOH A 66 1266 1079 HOH HOH . G 4 HOH A 67 1267 1080 HOH HOH . H 4 HOH B 1 1201 5 HOH HOH . H 4 HOH B 2 1202 7 HOH HOH . H 4 HOH B 3 1203 14 HOH HOH . H 4 HOH B 4 1204 15 HOH HOH . H 4 HOH B 5 1205 21 HOH HOH . H 4 HOH B 6 1206 1020 HOH HOH . H 4 HOH B 7 1207 1021 HOH HOH . H 4 HOH B 8 1208 1022 HOH HOH . H 4 HOH B 9 1209 1023 HOH HOH . H 4 HOH B 10 1210 1024 HOH HOH . H 4 HOH B 11 1211 1025 HOH HOH . H 4 HOH B 12 1212 1026 HOH HOH . H 4 HOH B 13 1213 1027 HOH HOH . H 4 HOH B 14 1214 1028 HOH HOH . H 4 HOH B 15 1215 1029 HOH HOH . H 4 HOH B 16 1216 1030 HOH HOH . H 4 HOH B 17 1217 1031 HOH HOH . H 4 HOH B 18 1218 1032 HOH HOH . H 4 HOH B 19 1219 1033 HOH HOH . H 4 HOH B 20 1220 1034 HOH HOH . H 4 HOH B 21 1221 1035 HOH HOH . H 4 HOH B 22 1222 1036 HOH HOH . H 4 HOH B 23 1223 1037 HOH HOH . H 4 HOH B 24 1224 1038 HOH HOH . H 4 HOH B 25 1225 1039 HOH HOH . H 4 HOH B 26 1226 1040 HOH HOH . H 4 HOH B 27 1227 1041 HOH HOH . H 4 HOH B 28 1228 1042 HOH HOH . H 4 HOH B 29 1229 1043 HOH HOH . H 4 HOH B 30 1230 1044 HOH HOH . H 4 HOH B 31 1231 1045 HOH HOH . H 4 HOH B 32 1232 1046 HOH HOH . H 4 HOH B 33 1233 1047 HOH HOH . H 4 HOH B 34 1234 1048 HOH HOH . H 4 HOH B 35 1235 1049 HOH HOH . H 4 HOH B 36 1236 1050 HOH HOH . H 4 HOH B 37 1237 1051 HOH HOH . H 4 HOH B 38 1238 1052 HOH HOH . H 4 HOH B 39 1239 1053 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 C10 MGK . . . E 2 61.292 -98.669 32.955 1 75 ? C10 MGK 1101 B 1 HETATM 2 N N12 MGK . . . E 2 63.489 -95.888 35.502 1 80.45 ? N12 MGK 1101 B 1 HETATM 3 C C13 MGK . . . E 2 63.027 -95.308 36.623 1 80.16 ? C13 MGK 1101 B 1 HETATM 4 C C15 MGK . . . E 2 63.575 -95.827 37.941 1 81.21 ? C15 MGK 1101 B 1 HETATM 5 C C17 MGK . . . E 2 63.869 -95.276 40.325 1 87.04 ? C17 MGK 1101 B 1 HETATM 6 C C20 MGK . . . E 2 61.086 -97.095 42.365 1 99.44 ? C20 MGK 1101 B 1 HETATM 7 C C21 MGK . . . E 2 59.982 -97.514 41.564 1 100.9 ? C21 MGK 1101 B 1 HETATM 8 C C22 MGK . . . E 2 59.173 -98.606 41.95 1 101.18 ? C22 MGK 1101 B 1 HETATM 9 C C24 MGK . . . E 2 60.56 -98.877 43.953 1 100.14 ? C24 MGK 1101 B 1 HETATM 10 C C26 MGK . . . E 2 63.306 -93.402 38.666 1 83.43 ? C26 MGK 1101 B 1 HETATM 11 O O29 MGK . . . E 2 61.971 -92.193 40.311 1 81.91 ? O29 MGK 1101 B 1 HETATM 12 C C27 MGK . . . E 2 61.981 -92.995 39.343 1 82.86 ? C27 MGK 1101 B 1 HETATM 13 O O28 MGK . . . E 2 60.895 -93.442 38.92 1 81.69 ? O28 MGK 1101 B 1 HETATM 14 N N16 MGK . . . E 2 63.928 -94.769 38.913 1 84.34 ? N16 MGK 1101 B 1 HETATM 15 C C18 MGK . . . E 2 62.764 -96.28 40.666 1 90.58 ? C18 MGK 1101 B 1 HETATM 16 C C19 MGK . . . E 2 61.973 -95.92 41.937 1 95.27 ? C19 MGK 1101 B 1 HETATM 17 C C25 MGK . . . E 2 61.368 -97.788 43.568 1 99.61 ? C25 MGK 1101 B 1 HETATM 18 C C23 MGK . . . E 2 59.471 -99.284 43.149 1 101.12 ? C23 MGK 1101 B 1 HETATM 19 O O14 MGK . . . E 2 62.183 -94.441 36.629 1 78.98 ? O14 MGK 1101 B 1 HETATM 20 C C05 MGK . . . E 2 63.586 -95.357 34.136 1 79.99 ? C05 MGK 1101 B 1 HETATM 21 C C03 MGK . . . E 2 64.464 -94.13 33.928 1 82.48 ? C03 MGK 1101 B 1 HETATM 22 O O04 MGK . . . E 2 64.218 -93.403 32.974 1 81.75 ? O04 MGK 1101 B 1 HETATM 23 O O02 MGK . . . E 2 65.633 -93.807 34.793 1 85.32 ? O02 MGK 1101 B 1 HETATM 24 C C01 MGK . . . E 2 65.868 -92.539 35.45 1 85.75 ? C01 MGK 1101 B 1 HETATM 25 C C06 MGK . . . E 2 62.194 -95.174 33.537 1 78.03 ? C06 MGK 1101 B 1 HETATM 26 C C07 MGK . . . E 2 61.585 -96.529 33.223 1 77.39 ? C07 MGK 1101 B 1 HETATM 27 N N11 MGK . . . E 2 62.183 -97.741 33.373 1 75.76 ? N11 MGK 1101 B 1 HETATM 28 N N09 MGK . . . E 2 60.147 -98.066 32.564 1 73.91 ? N09 MGK 1101 B 1 HETATM 29 C C08 MGK . . . E 2 60.296 -96.74 32.723 1 75.33 ? C08 MGK 1101 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 63 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 29 #