data_7YU4 # _entry.id 7YU4 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.361 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 7YU4 pdb_00007yu4 10.2210/pdb7yu4/pdb WWPDB D_1300031581 ? ? EMDB EMD-34098 ? ? # _pdbx_database_related.db_name EMDB _pdbx_database_related.details 'Human Lysophosphatidic Acid Receptor 1 bound to ONO-0740556' _pdbx_database_related.db_id EMD-34098 _pdbx_database_related.content_type 'associated EM volume' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 7YU4 _pdbx_database_status.recvd_initial_deposition_date 2022-08-16 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Akasaka, H.' 1 0000-0003-2118-0912 'Shihoya, W.' 2 0000-0003-4813-5740 'Nureki, O.' 3 0000-0003-1813-7008 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nat Commun' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2041-1723 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 13 _citation.language ? _citation.page_first 5417 _citation.page_last 5417 _citation.title 'Structure of the active G i -coupled human lysophosphatidic acid receptor 1 complexed with a potent agonist.' _citation.year 2022 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1038/s41467-022-33121-2 _citation.pdbx_database_id_PubMed 36109516 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Akasaka, H.' 1 ? primary 'Tanaka, T.' 2 0000-0001-5728-7573 primary 'Sano, F.K.' 3 ? primary 'Matsuzaki, Y.' 4 ? primary 'Shihoya, W.' 5 0000-0003-4813-5740 primary 'Nureki, O.' 6 0000-0003-1813-7008 # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 7YU4 _cell.details ? _cell.formula_units_Z ? _cell.length_a 1.00 _cell.length_a_esd ? _cell.length_b 1.00 _cell.length_b_esd ? _cell.length_c 1.00 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB ? _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 7YU4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'Lysophosphatidic acid receptor 1' 42936.004 1 ? ? ? ? 2 non-polymer syn '[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate' 415.461 1 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'LPA receptor 1,LPA-1,Lysophosphatidic acid receptor Edg-2' # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;DYKDDDDAMGAAISTSIPVISQPQFTAMNEPQCFYNESIAFFYNRSGKHLATEWNTVSKLVMGLGITVCIFIMLANLLVM VAIYVNRRFHFPIYYLMANLAAADFFAGLAYFYLMFNTGPNTRRLTVSTWLLRQGLIDTSLTASVANLLAIAIERHITVF RMQLHTRMSNRRVVVVIVVIWTMAIVMGAIPSVGWNCICDIENCSNMAPLYSDSYLVFWAIFNLVTFVVMVVLYAHIFGY VRQRTMRMSRHSSGPRRNRDTMMSLLKTVVIVLGAFIICWTPGLVLLLLDVCCPQCDVLAYEKFFLLLAEFNSAMNPIIY SYRDKEMSATFRQILCCQRSENPTGPTEGSDRSASSLNHTILAGVHSNDHSVVENLYFQ ; _entity_poly.pdbx_seq_one_letter_code_can ;DYKDDDDAMGAAISTSIPVISQPQFTAMNEPQCFYNESIAFFYNRSGKHLATEWNTVSKLVMGLGITVCIFIMLANLLVM VAIYVNRRFHFPIYYLMANLAAADFFAGLAYFYLMFNTGPNTRRLTVSTWLLRQGLIDTSLTASVANLLAIAIERHITVF RMQLHTRMSNRRVVVVIVVIWTMAIVMGAIPSVGWNCICDIENCSNMAPLYSDSYLVFWAIFNLVTFVVMVVLYAHIFGY VRQRTMRMSRHSSGPRRNRDTMMSLLKTVVIVLGAFIICWTPGLVLLLLDVCCPQCDVLAYEKFFLLLAEFNSAMNPIIY SYRDKEMSATFRQILCCQRSENPTGPTEGSDRSASSLNHTILAGVHSNDHSVVENLYFQ ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ASP n 1 2 TYR n 1 3 LYS n 1 4 ASP n 1 5 ASP n 1 6 ASP n 1 7 ASP n 1 8 ALA n 1 9 MET n 1 10 GLY n 1 11 ALA n 1 12 ALA n 1 13 ILE n 1 14 SER n 1 15 THR n 1 16 SER n 1 17 ILE n 1 18 PRO n 1 19 VAL n 1 20 ILE n 1 21 SER n 1 22 GLN n 1 23 PRO n 1 24 GLN n 1 25 PHE n 1 26 THR n 1 27 ALA n 1 28 MET n 1 29 ASN n 1 30 GLU n 1 31 PRO n 1 32 GLN n 1 33 CYS n 1 34 PHE n 1 35 TYR n 1 36 ASN n 1 37 GLU n 1 38 SER n 1 39 ILE n 1 40 ALA n 1 41 PHE n 1 42 PHE n 1 43 TYR n 1 44 ASN n 1 45 ARG n 1 46 SER n 1 47 GLY n 1 48 LYS n 1 49 HIS n 1 50 LEU n 1 51 ALA n 1 52 THR n 1 53 GLU n 1 54 TRP n 1 55 ASN n 1 56 THR n 1 57 VAL n 1 58 SER n 1 59 LYS n 1 60 LEU n 1 61 VAL n 1 62 MET n 1 63 GLY n 1 64 LEU n 1 65 GLY n 1 66 ILE n 1 67 THR n 1 68 VAL n 1 69 CYS n 1 70 ILE n 1 71 PHE n 1 72 ILE n 1 73 MET n 1 74 LEU n 1 75 ALA n 1 76 ASN n 1 77 LEU n 1 78 LEU n 1 79 VAL n 1 80 MET n 1 81 VAL n 1 82 ALA n 1 83 ILE n 1 84 TYR n 1 85 VAL n 1 86 ASN n 1 87 ARG n 1 88 ARG n 1 89 PHE n 1 90 HIS n 1 91 PHE n 1 92 PRO n 1 93 ILE n 1 94 TYR n 1 95 TYR n 1 96 LEU n 1 97 MET n 1 98 ALA n 1 99 ASN n 1 100 LEU n 1 101 ALA n 1 102 ALA n 1 103 ALA n 1 104 ASP n 1 105 PHE n 1 106 PHE n 1 107 ALA n 1 108 GLY n 1 109 LEU n 1 110 ALA n 1 111 TYR n 1 112 PHE n 1 113 TYR n 1 114 LEU n 1 115 MET n 1 116 PHE n 1 117 ASN n 1 118 THR n 1 119 GLY n 1 120 PRO n 1 121 ASN n 1 122 THR n 1 123 ARG n 1 124 ARG n 1 125 LEU n 1 126 THR n 1 127 VAL n 1 128 SER n 1 129 THR n 1 130 TRP n 1 131 LEU n 1 132 LEU n 1 133 ARG n 1 134 GLN n 1 135 GLY n 1 136 LEU n 1 137 ILE n 1 138 ASP n 1 139 THR n 1 140 SER n 1 141 LEU n 1 142 THR n 1 143 ALA n 1 144 SER n 1 145 VAL n 1 146 ALA n 1 147 ASN n 1 148 LEU n 1 149 LEU n 1 150 ALA n 1 151 ILE n 1 152 ALA n 1 153 ILE n 1 154 GLU n 1 155 ARG n 1 156 HIS n 1 157 ILE n 1 158 THR n 1 159 VAL n 1 160 PHE n 1 161 ARG n 1 162 MET n 1 163 GLN n 1 164 LEU n 1 165 HIS n 1 166 THR n 1 167 ARG n 1 168 MET n 1 169 SER n 1 170 ASN n 1 171 ARG n 1 172 ARG n 1 173 VAL n 1 174 VAL n 1 175 VAL n 1 176 VAL n 1 177 ILE n 1 178 VAL n 1 179 VAL n 1 180 ILE n 1 181 TRP n 1 182 THR n 1 183 MET n 1 184 ALA n 1 185 ILE n 1 186 VAL n 1 187 MET n 1 188 GLY n 1 189 ALA n 1 190 ILE n 1 191 PRO n 1 192 SER n 1 193 VAL n 1 194 GLY n 1 195 TRP n 1 196 ASN n 1 197 CYS n 1 198 ILE n 1 199 CYS n 1 200 ASP n 1 201 ILE n 1 202 GLU n 1 203 ASN n 1 204 CYS n 1 205 SER n 1 206 ASN n 1 207 MET n 1 208 ALA n 1 209 PRO n 1 210 LEU n 1 211 TYR n 1 212 SER n 1 213 ASP n 1 214 SER n 1 215 TYR n 1 216 LEU n 1 217 VAL n 1 218 PHE n 1 219 TRP n 1 220 ALA n 1 221 ILE n 1 222 PHE n 1 223 ASN n 1 224 LEU n 1 225 VAL n 1 226 THR n 1 227 PHE n 1 228 VAL n 1 229 VAL n 1 230 MET n 1 231 VAL n 1 232 VAL n 1 233 LEU n 1 234 TYR n 1 235 ALA n 1 236 HIS n 1 237 ILE n 1 238 PHE n 1 239 GLY n 1 240 TYR n 1 241 VAL n 1 242 ARG n 1 243 GLN n 1 244 ARG n 1 245 THR n 1 246 MET n 1 247 ARG n 1 248 MET n 1 249 SER n 1 250 ARG n 1 251 HIS n 1 252 SER n 1 253 SER n 1 254 GLY n 1 255 PRO n 1 256 ARG n 1 257 ARG n 1 258 ASN n 1 259 ARG n 1 260 ASP n 1 261 THR n 1 262 MET n 1 263 MET n 1 264 SER n 1 265 LEU n 1 266 LEU n 1 267 LYS n 1 268 THR n 1 269 VAL n 1 270 VAL n 1 271 ILE n 1 272 VAL n 1 273 LEU n 1 274 GLY n 1 275 ALA n 1 276 PHE n 1 277 ILE n 1 278 ILE n 1 279 CYS n 1 280 TRP n 1 281 THR n 1 282 PRO n 1 283 GLY n 1 284 LEU n 1 285 VAL n 1 286 LEU n 1 287 LEU n 1 288 LEU n 1 289 LEU n 1 290 ASP n 1 291 VAL n 1 292 CYS n 1 293 CYS n 1 294 PRO n 1 295 GLN n 1 296 CYS n 1 297 ASP n 1 298 VAL n 1 299 LEU n 1 300 ALA n 1 301 TYR n 1 302 GLU n 1 303 LYS n 1 304 PHE n 1 305 PHE n 1 306 LEU n 1 307 LEU n 1 308 LEU n 1 309 ALA n 1 310 GLU n 1 311 PHE n 1 312 ASN n 1 313 SER n 1 314 ALA n 1 315 MET n 1 316 ASN n 1 317 PRO n 1 318 ILE n 1 319 ILE n 1 320 TYR n 1 321 SER n 1 322 TYR n 1 323 ARG n 1 324 ASP n 1 325 LYS n 1 326 GLU n 1 327 MET n 1 328 SER n 1 329 ALA n 1 330 THR n 1 331 PHE n 1 332 ARG n 1 333 GLN n 1 334 ILE n 1 335 LEU n 1 336 CYS n 1 337 CYS n 1 338 GLN n 1 339 ARG n 1 340 SER n 1 341 GLU n 1 342 ASN n 1 343 PRO n 1 344 THR n 1 345 GLY n 1 346 PRO n 1 347 THR n 1 348 GLU n 1 349 GLY n 1 350 SER n 1 351 ASP n 1 352 ARG n 1 353 SER n 1 354 ALA n 1 355 SER n 1 356 SER n 1 357 LEU n 1 358 ASN n 1 359 HIS n 1 360 THR n 1 361 ILE n 1 362 LEU n 1 363 ALA n 1 364 GLY n 1 365 VAL n 1 366 HIS n 1 367 SER n 1 368 ASN n 1 369 ASP n 1 370 HIS n 1 371 SER n 1 372 VAL n 1 373 VAL n 1 374 GLU n 1 375 ASN n 1 376 LEU n 1 377 TYR n 1 378 PHE n 1 379 GLN n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type 'Biological sequence' _entity_src_gen.pdbx_beg_seq_num 1 _entity_src_gen.pdbx_end_seq_num 379 _entity_src_gen.gene_src_common_name human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'LPAR1, EDG2, LPA1' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Spodoptera frugiperda' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 7108 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code LPAR1_HUMAN _struct_ref.pdbx_db_accession Q92633 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;AAISTSIPVISQPQFTAMNEPQCFYNESIAFFYNRSGKHLATEWNTVSKLVMGLGITVCIFIMLANLLVMVAIYVNRRFH FPIYYLMANLAAADFFAGLAYFYLMFNTGPNTRRLTVSTWLLRQGLIDTSLTASVANLLAIAIERHITVFRMQLHTRMSN RRVVVVIVVIWTMAIVMGAIPSVGWNCICDIENCSNMAPLYSDSYLVFWAIFNLVTFVVMVVLYAHIFGYVRQRTMRMSR HSSGPRRNRDTMMSLLKTVVIVLGAFIICWTPGLVLLLLDVCCPQCDVLAYEKFFLLLAEFNSAMNPIIYSYRDKEMSAT FRQILCCQRSENPTGPTEGSDRSASSLNHTILAGVHSNDHSVV ; _struct_ref.pdbx_align_begin 2 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 7YU4 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 11 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 373 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q92633 _struct_ref_seq.db_align_beg 2 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 364 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 2 _struct_ref_seq.pdbx_auth_seq_align_end 364 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 7YU4 ASP A 1 ? UNP Q92633 ? ? 'expression tag' -8 1 1 7YU4 TYR A 2 ? UNP Q92633 ? ? 'expression tag' -7 2 1 7YU4 LYS A 3 ? UNP Q92633 ? ? 'expression tag' -6 3 1 7YU4 ASP A 4 ? UNP Q92633 ? ? 'expression tag' -5 4 1 7YU4 ASP A 5 ? UNP Q92633 ? ? 'expression tag' -4 5 1 7YU4 ASP A 6 ? UNP Q92633 ? ? 'expression tag' -3 6 1 7YU4 ASP A 7 ? UNP Q92633 ? ? 'expression tag' -2 7 1 7YU4 ALA A 8 ? UNP Q92633 ? ? 'expression tag' -1 8 1 7YU4 MET A 9 ? UNP Q92633 ? ? 'expression tag' 0 9 1 7YU4 GLY A 10 ? UNP Q92633 ? ? 'expression tag' 1 10 1 7YU4 GLU A 374 ? UNP Q92633 ? ? 'expression tag' 365 11 1 7YU4 ASN A 375 ? UNP Q92633 ? ? 'expression tag' 366 12 1 7YU4 LEU A 376 ? UNP Q92633 ? ? 'expression tag' 367 13 1 7YU4 TYR A 377 ? UNP Q92633 ? ? 'expression tag' 368 14 1 7YU4 PHE A 378 ? UNP Q92633 ? ? 'expression tag' 369 15 1 7YU4 GLN A 379 ? UNP Q92633 ? ? 'expression tag' 370 16 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 K6L non-polymer . '[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate' ? 'C20 H34 N O6 P' 415.461 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 7YU4 _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean 99.316 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.803 _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 7YU4 _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 3.30 _refine.ls_d_res_low 88.44 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 24712 _refine.ls_number_reflns_R_free ? _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 100.00 _refine.ls_percent_reflns_R_free ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.47393 _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.47393 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'PARAMETERS FOR MASK CACLULATION' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.592 _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id ? _refine.overall_SU_B 32.341 _refine.overall_SU_ML 0.472 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine_hist.cycle_id 1 _refine_hist.details ? _refine_hist.d_res_high . _refine_hist.d_res_low . _refine_hist.number_atoms_solvent ? _refine_hist.number_atoms_total 2251 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein ? _refine_hist.pdbx_number_atoms_nucleic_acid ? _refine_hist.pdbx_number_atoms_ligand ? _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'ELECTRON MICROSCOPY' ? 0.008 0.013 2308 ? r_bond_refined_d ? ? 'ELECTRON MICROSCOPY' ? 0.001 0.017 2180 ? r_bond_other_d ? ? 'ELECTRON MICROSCOPY' ? 1.223 1.621 3153 ? r_angle_refined_deg ? ? 'ELECTRON MICROSCOPY' ? 1.635 1.557 4948 ? r_angle_other_deg ? ? 'ELECTRON MICROSCOPY' ? 5.310 5.000 288 ? r_dihedral_angle_1_deg ? ? 'ELECTRON MICROSCOPY' ? 35.787 20.957 94 ? r_dihedral_angle_2_deg ? ? 'ELECTRON MICROSCOPY' ? 15.164 15.000 339 ? r_dihedral_angle_3_deg ? ? 'ELECTRON MICROSCOPY' ? 9.795 15.000 10 ? r_dihedral_angle_4_deg ? ? 'ELECTRON MICROSCOPY' ? 0.074 0.200 318 ? r_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.006 0.020 2573 ? r_gen_planes_refined ? ? 'ELECTRON MICROSCOPY' ? 0.003 0.020 569 ? r_gen_planes_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbd_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbd_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbtor_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbtor_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_xyhbond_nbd_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_xyhbond_nbd_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_metal_ion_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_metal_ion_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_vdw_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_vdw_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_hbond_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_hbond_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_metal_ion_refined ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_metal_ion_other ? ? 'ELECTRON MICROSCOPY' ? 9.833 10.293 1158 ? r_mcbond_it ? ? 'ELECTRON MICROSCOPY' ? 9.815 10.294 1157 ? r_mcbond_other ? ? 'ELECTRON MICROSCOPY' ? 16.832 15.404 1444 ? r_mcangle_it ? ? 'ELECTRON MICROSCOPY' ? 16.831 15.405 1445 ? r_mcangle_other ? ? 'ELECTRON MICROSCOPY' ? 9.952 11.671 1150 ? r_scbond_it ? ? 'ELECTRON MICROSCOPY' ? 9.954 11.664 1147 ? r_scbond_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_scangle_it ? ? 'ELECTRON MICROSCOPY' ? 17.194 16.933 1710 ? r_scangle_other ? ? 'ELECTRON MICROSCOPY' ? 33.841 ? 9527 ? r_long_range_B_refined ? ? 'ELECTRON MICROSCOPY' ? 33.839 ? 9528 ? r_long_range_B_other ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_rigid_bond_restr ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_sphericity_free ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine_ls_shell.d_res_high 3.301 _refine_ls_shell.d_res_low 3.387 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 0 _refine_ls_shell.number_reflns_R_work 1782 _refine_ls_shell.percent_reflns_obs 100.00 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_obs ? _refine_ls_shell.R_factor_R_free 0.000 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 1.384 _refine_ls_shell.redundancy_reflns_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.wR_factor_all ? _refine_ls_shell.wR_factor_obs ? _refine_ls_shell.wR_factor_R_free ? _refine_ls_shell.wR_factor_R_work ? _refine_ls_shell.pdbx_R_complete ? _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 7YU4 _struct.title 'Human Lysophosphatidic Acid Receptor 1-Gi complex bound to ONO-0740556, focused on receptor' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 7YU4 _struct_keywords.text 'GPCR, MEMBRANE PROTEIN' _struct_keywords.pdbx_keywords 'MEMBRANE PROTEIN' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 AA1 SER A 38 ? SER A 46 ? SER A 29 SER A 37 1 ? 9 HELX_P HELX_P2 AA2 ASN A 55 ? ASN A 86 ? ASN A 46 ASN A 77 1 ? 32 HELX_P HELX_P3 AA3 ILE A 93 ? MET A 115 ? ILE A 84 MET A 106 1 ? 23 HELX_P HELX_P4 AA4 THR A 118 ? LEU A 125 ? THR A 109 LEU A 116 5 ? 8 HELX_P HELX_P5 AA5 THR A 126 ? VAL A 159 ? THR A 117 VAL A 150 1 ? 34 HELX_P HELX_P6 AA6 ASN A 170 ? GLY A 194 ? ASN A 161 GLY A 185 1 ? 25 HELX_P HELX_P7 AA7 SER A 212 ? GLY A 239 ? SER A 203 GLY A 230 1 ? 28 HELX_P HELX_P8 AA8 LEU A 266 ? CYS A 293 ? LEU A 257 CYS A 284 1 ? 28 HELX_P HELX_P9 AA9 TYR A 301 ? TYR A 320 ? TYR A 292 TYR A 311 1 ? 20 HELX_P HELX_P10 AB1 ASP A 324 ? PHE A 331 ? ASP A 315 PHE A 322 1 ? 8 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_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_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role disulf1 disulf ? ? A CYS 33 SG ? ? ? 1_555 A CYS 199 SG ? ? A CYS 24 A CYS 190 1_555 ? ? ? ? ? ? ? 2.045 ? ? disulf2 disulf ? ? A CYS 197 SG ? ? ? 1_555 A CYS 204 SG ? ? A CYS 188 A CYS 195 1_555 ? ? ? ? ? ? ? 2.054 ? ? disulf3 disulf ? ? A CYS 293 SG ? ? ? 1_555 A CYS 296 SG ? ? A CYS 284 A CYS 287 1_555 ? ? ? ? ? ? ? 2.044 ? ? # _struct_conn_type.id disulf _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 7YU4 _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C N O P S # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 ASP 1 -8 ? ? ? A . n A 1 2 TYR 2 -7 ? ? ? A . n A 1 3 LYS 3 -6 ? ? ? A . n A 1 4 ASP 4 -5 ? ? ? A . n A 1 5 ASP 5 -4 ? ? ? A . n A 1 6 ASP 6 -3 ? ? ? A . n A 1 7 ASP 7 -2 ? ? ? A . n A 1 8 ALA 8 -1 ? ? ? A . n A 1 9 MET 9 0 ? ? ? A . n A 1 10 GLY 10 1 ? ? ? A . n A 1 11 ALA 11 2 ? ? ? A . n A 1 12 ALA 12 3 ? ? ? A . n A 1 13 ILE 13 4 ? ? ? A . n A 1 14 SER 14 5 ? ? ? A . n A 1 15 THR 15 6 ? ? ? A . n A 1 16 SER 16 7 ? ? ? A . n A 1 17 ILE 17 8 ? ? ? A . n A 1 18 PRO 18 9 ? ? ? A . n A 1 19 VAL 19 10 ? ? ? A . n A 1 20 ILE 20 11 ? ? ? A . n A 1 21 SER 21 12 ? ? ? A . n A 1 22 GLN 22 13 ? ? ? A . n A 1 23 PRO 23 14 ? ? ? A . n A 1 24 GLN 24 15 ? ? ? A . n A 1 25 PHE 25 16 ? ? ? A . n A 1 26 THR 26 17 ? ? ? A . n A 1 27 ALA 27 18 ? ? ? A . n A 1 28 MET 28 19 ? ? ? A . n A 1 29 ASN 29 20 ? ? ? A . n A 1 30 GLU 30 21 ? ? ? A . n A 1 31 PRO 31 22 ? ? ? A . n A 1 32 GLN 32 23 23 GLN GLN A . n A 1 33 CYS 33 24 24 CYS CYS A . n A 1 34 PHE 34 25 25 PHE PHE A . n A 1 35 TYR 35 26 26 TYR TYR A . n A 1 36 ASN 36 27 27 ASN ASN A . n A 1 37 GLU 37 28 28 GLU GLU A . n A 1 38 SER 38 29 29 SER SER A . n A 1 39 ILE 39 30 30 ILE ILE A . n A 1 40 ALA 40 31 31 ALA ALA A . n A 1 41 PHE 41 32 32 PHE PHE A . n A 1 42 PHE 42 33 33 PHE PHE A . n A 1 43 TYR 43 34 34 TYR TYR A . n A 1 44 ASN 44 35 35 ASN ASN A . n A 1 45 ARG 45 36 36 ARG ARG A . n A 1 46 SER 46 37 37 SER SER A . n A 1 47 GLY 47 38 38 GLY GLY A . n A 1 48 LYS 48 39 39 LYS LYS A . n A 1 49 HIS 49 40 40 HIS HIS A . n A 1 50 LEU 50 41 41 LEU LEU A . n A 1 51 ALA 51 42 42 ALA ALA A . n A 1 52 THR 52 43 43 THR THR A . n A 1 53 GLU 53 44 44 GLU GLU A . n A 1 54 TRP 54 45 45 TRP TRP A . n A 1 55 ASN 55 46 46 ASN ASN A . n A 1 56 THR 56 47 47 THR THR A . n A 1 57 VAL 57 48 48 VAL VAL A . n A 1 58 SER 58 49 49 SER SER A . n A 1 59 LYS 59 50 50 LYS LYS A . n A 1 60 LEU 60 51 51 LEU LEU A . n A 1 61 VAL 61 52 52 VAL VAL A . n A 1 62 MET 62 53 53 MET MET A . n A 1 63 GLY 63 54 54 GLY GLY A . n A 1 64 LEU 64 55 55 LEU LEU A . n A 1 65 GLY 65 56 56 GLY GLY A . n A 1 66 ILE 66 57 57 ILE ILE A . n A 1 67 THR 67 58 58 THR THR A . n A 1 68 VAL 68 59 59 VAL VAL A . n A 1 69 CYS 69 60 60 CYS CYS A . n A 1 70 ILE 70 61 61 ILE ILE A . n A 1 71 PHE 71 62 62 PHE PHE A . n A 1 72 ILE 72 63 63 ILE ILE A . n A 1 73 MET 73 64 64 MET MET A . n A 1 74 LEU 74 65 65 LEU LEU A . n A 1 75 ALA 75 66 66 ALA ALA A . n A 1 76 ASN 76 67 67 ASN ASN A . n A 1 77 LEU 77 68 68 LEU LEU A . n A 1 78 LEU 78 69 69 LEU LEU A . n A 1 79 VAL 79 70 70 VAL VAL A . n A 1 80 MET 80 71 71 MET MET A . n A 1 81 VAL 81 72 72 VAL VAL A . n A 1 82 ALA 82 73 73 ALA ALA A . n A 1 83 ILE 83 74 74 ILE ILE A . n A 1 84 TYR 84 75 75 TYR TYR A . n A 1 85 VAL 85 76 76 VAL VAL A . n A 1 86 ASN 86 77 77 ASN ASN A . n A 1 87 ARG 87 78 78 ARG ARG A . n A 1 88 ARG 88 79 79 ARG ARG A . n A 1 89 PHE 89 80 80 PHE PHE A . n A 1 90 HIS 90 81 81 HIS HIS A . n A 1 91 PHE 91 82 ? ? ? A . n A 1 92 PRO 92 83 83 PRO PRO A . n A 1 93 ILE 93 84 84 ILE ILE A . n A 1 94 TYR 94 85 85 TYR TYR A . n A 1 95 TYR 95 86 86 TYR TYR A . n A 1 96 LEU 96 87 87 LEU LEU A . n A 1 97 MET 97 88 88 MET MET A . n A 1 98 ALA 98 89 89 ALA ALA A . n A 1 99 ASN 99 90 90 ASN ASN A . n A 1 100 LEU 100 91 91 LEU LEU A . n A 1 101 ALA 101 92 92 ALA ALA A . n A 1 102 ALA 102 93 93 ALA ALA A . n A 1 103 ALA 103 94 94 ALA ALA A . n A 1 104 ASP 104 95 95 ASP ASP A . n A 1 105 PHE 105 96 96 PHE PHE A . n A 1 106 PHE 106 97 97 PHE PHE A . n A 1 107 ALA 107 98 98 ALA ALA A . n A 1 108 GLY 108 99 99 GLY GLY A . n A 1 109 LEU 109 100 100 LEU LEU A . n A 1 110 ALA 110 101 101 ALA ALA A . n A 1 111 TYR 111 102 102 TYR TYR A . n A 1 112 PHE 112 103 103 PHE PHE A . n A 1 113 TYR 113 104 104 TYR TYR A . n A 1 114 LEU 114 105 105 LEU LEU A . n A 1 115 MET 115 106 106 MET MET A . n A 1 116 PHE 116 107 107 PHE PHE A . n A 1 117 ASN 117 108 108 ASN ASN A . n A 1 118 THR 118 109 109 THR THR A . n A 1 119 GLY 119 110 110 GLY GLY A . n A 1 120 PRO 120 111 111 PRO PRO A . n A 1 121 ASN 121 112 112 ASN ASN A . n A 1 122 THR 122 113 113 THR THR A . n A 1 123 ARG 123 114 114 ARG ARG A . n A 1 124 ARG 124 115 115 ARG ARG A . n A 1 125 LEU 125 116 116 LEU LEU A . n A 1 126 THR 126 117 117 THR THR A . n A 1 127 VAL 127 118 118 VAL VAL A . n A 1 128 SER 128 119 119 SER SER A . n A 1 129 THR 129 120 120 THR THR A . n A 1 130 TRP 130 121 121 TRP TRP A . n A 1 131 LEU 131 122 122 LEU LEU A . n A 1 132 LEU 132 123 123 LEU LEU A . n A 1 133 ARG 133 124 124 ARG ARG A . n A 1 134 GLN 134 125 125 GLN GLN A . n A 1 135 GLY 135 126 126 GLY GLY A . n A 1 136 LEU 136 127 127 LEU LEU A . n A 1 137 ILE 137 128 128 ILE ILE A . n A 1 138 ASP 138 129 129 ASP ASP A . n A 1 139 THR 139 130 130 THR THR A . n A 1 140 SER 140 131 131 SER SER A . n A 1 141 LEU 141 132 132 LEU LEU A . n A 1 142 THR 142 133 133 THR THR A . n A 1 143 ALA 143 134 134 ALA ALA A . n A 1 144 SER 144 135 135 SER SER A . n A 1 145 VAL 145 136 136 VAL VAL A . n A 1 146 ALA 146 137 137 ALA ALA A . n A 1 147 ASN 147 138 138 ASN ASN A . n A 1 148 LEU 148 139 139 LEU LEU A . n A 1 149 LEU 149 140 140 LEU LEU A . n A 1 150 ALA 150 141 141 ALA ALA A . n A 1 151 ILE 151 142 142 ILE ILE A . n A 1 152 ALA 152 143 143 ALA ALA A . n A 1 153 ILE 153 144 144 ILE ILE A . n A 1 154 GLU 154 145 145 GLU GLU A . n A 1 155 ARG 155 146 146 ARG ARG A . n A 1 156 HIS 156 147 147 HIS HIS A . n A 1 157 ILE 157 148 148 ILE ILE A . n A 1 158 THR 158 149 149 THR THR A . n A 1 159 VAL 159 150 150 VAL VAL A . n A 1 160 PHE 160 151 ? ? ? A . n A 1 161 ARG 161 152 ? ? ? A . n A 1 162 MET 162 153 ? ? ? A . n A 1 163 GLN 163 154 ? ? ? A . n A 1 164 LEU 164 155 ? ? ? A . n A 1 165 HIS 165 156 ? ? ? A . n A 1 166 THR 166 157 ? ? ? A . n A 1 167 ARG 167 158 ? ? ? A . n A 1 168 MET 168 159 ? ? ? A . n A 1 169 SER 169 160 160 SER SER A . n A 1 170 ASN 170 161 161 ASN ASN A . n A 1 171 ARG 171 162 162 ARG ARG A . n A 1 172 ARG 172 163 163 ARG ARG A . n A 1 173 VAL 173 164 164 VAL VAL A . n A 1 174 VAL 174 165 165 VAL VAL A . n A 1 175 VAL 175 166 166 VAL VAL A . n A 1 176 VAL 176 167 167 VAL VAL A . n A 1 177 ILE 177 168 168 ILE ILE A . n A 1 178 VAL 178 169 169 VAL VAL A . n A 1 179 VAL 179 170 170 VAL VAL A . n A 1 180 ILE 180 171 171 ILE ILE A . n A 1 181 TRP 181 172 172 TRP TRP A . n A 1 182 THR 182 173 173 THR THR A . n A 1 183 MET 183 174 174 MET MET A . n A 1 184 ALA 184 175 175 ALA ALA A . n A 1 185 ILE 185 176 176 ILE ILE A . n A 1 186 VAL 186 177 177 VAL VAL A . n A 1 187 MET 187 178 178 MET MET A . n A 1 188 GLY 188 179 179 GLY GLY A . n A 1 189 ALA 189 180 180 ALA ALA A . n A 1 190 ILE 190 181 181 ILE ILE A . n A 1 191 PRO 191 182 182 PRO PRO A . n A 1 192 SER 192 183 183 SER SER A . n A 1 193 VAL 193 184 184 VAL VAL A . n A 1 194 GLY 194 185 185 GLY GLY A . n A 1 195 TRP 195 186 186 TRP TRP A . n A 1 196 ASN 196 187 187 ASN ASN A . n A 1 197 CYS 197 188 188 CYS CYS A . n A 1 198 ILE 198 189 189 ILE ILE A . n A 1 199 CYS 199 190 190 CYS CYS A . n A 1 200 ASP 200 191 191 ASP ASP A . n A 1 201 ILE 201 192 192 ILE ILE A . n A 1 202 GLU 202 193 193 GLU GLU A . n A 1 203 ASN 203 194 194 ASN ASN A . n A 1 204 CYS 204 195 195 CYS CYS A . n A 1 205 SER 205 196 196 SER SER A . n A 1 206 ASN 206 197 197 ASN ASN A . n A 1 207 MET 207 198 198 MET MET A . n A 1 208 ALA 208 199 199 ALA ALA A . n A 1 209 PRO 209 200 200 PRO PRO A . n A 1 210 LEU 210 201 201 LEU LEU A . n A 1 211 TYR 211 202 202 TYR TYR A . n A 1 212 SER 212 203 203 SER SER A . n A 1 213 ASP 213 204 204 ASP ASP A . n A 1 214 SER 214 205 205 SER SER A . n A 1 215 TYR 215 206 206 TYR TYR A . n A 1 216 LEU 216 207 207 LEU LEU A . n A 1 217 VAL 217 208 208 VAL VAL A . n A 1 218 PHE 218 209 209 PHE PHE A . n A 1 219 TRP 219 210 210 TRP TRP A . n A 1 220 ALA 220 211 211 ALA ALA A . n A 1 221 ILE 221 212 212 ILE ILE A . n A 1 222 PHE 222 213 213 PHE PHE A . n A 1 223 ASN 223 214 214 ASN ASN A . n A 1 224 LEU 224 215 215 LEU LEU A . n A 1 225 VAL 225 216 216 VAL VAL A . n A 1 226 THR 226 217 217 THR THR A . n A 1 227 PHE 227 218 218 PHE PHE A . n A 1 228 VAL 228 219 219 VAL VAL A . n A 1 229 VAL 229 220 220 VAL VAL A . n A 1 230 MET 230 221 221 MET MET A . n A 1 231 VAL 231 222 222 VAL VAL A . n A 1 232 VAL 232 223 223 VAL VAL A . n A 1 233 LEU 233 224 224 LEU LEU A . n A 1 234 TYR 234 225 225 TYR TYR A . n A 1 235 ALA 235 226 226 ALA ALA A . n A 1 236 HIS 236 227 227 HIS HIS A . n A 1 237 ILE 237 228 228 ILE ILE A . n A 1 238 PHE 238 229 229 PHE PHE A . n A 1 239 GLY 239 230 230 GLY GLY A . n A 1 240 TYR 240 231 ? ? ? A . n A 1 241 VAL 241 232 ? ? ? A . n A 1 242 ARG 242 233 ? ? ? A . n A 1 243 GLN 243 234 ? ? ? A . n A 1 244 ARG 244 235 ? ? ? A . n A 1 245 THR 245 236 ? ? ? A . n A 1 246 MET 246 237 ? ? ? A . n A 1 247 ARG 247 238 ? ? ? A . n A 1 248 MET 248 239 ? ? ? A . n A 1 249 SER 249 240 ? ? ? A . n A 1 250 ARG 250 241 ? ? ? A . n A 1 251 HIS 251 242 ? ? ? A . n A 1 252 SER 252 243 ? ? ? A . n A 1 253 SER 253 244 ? ? ? A . n A 1 254 GLY 254 245 ? ? ? A . n A 1 255 PRO 255 246 ? ? ? A . n A 1 256 ARG 256 247 ? ? ? A . n A 1 257 ARG 257 248 ? ? ? A . n A 1 258 ASN 258 249 ? ? ? A . n A 1 259 ARG 259 250 ? ? ? A . n A 1 260 ASP 260 251 ? ? ? A . n A 1 261 THR 261 252 ? ? ? A . n A 1 262 MET 262 253 ? ? ? A . n A 1 263 MET 263 254 ? ? ? A . n A 1 264 SER 264 255 ? ? ? A . n A 1 265 LEU 265 256 256 LEU LEU A . n A 1 266 LEU 266 257 257 LEU LEU A . n A 1 267 LYS 267 258 258 LYS LYS A . n A 1 268 THR 268 259 259 THR THR A . n A 1 269 VAL 269 260 260 VAL VAL A . n A 1 270 VAL 270 261 261 VAL VAL A . n A 1 271 ILE 271 262 262 ILE ILE A . n A 1 272 VAL 272 263 263 VAL VAL A . n A 1 273 LEU 273 264 264 LEU LEU A . n A 1 274 GLY 274 265 265 GLY GLY A . n A 1 275 ALA 275 266 266 ALA ALA A . n A 1 276 PHE 276 267 267 PHE PHE A . n A 1 277 ILE 277 268 268 ILE ILE A . n A 1 278 ILE 278 269 269 ILE ILE A . n A 1 279 CYS 279 270 270 CYS CYS A . n A 1 280 TRP 280 271 271 TRP TRP A . n A 1 281 THR 281 272 272 THR THR A . n A 1 282 PRO 282 273 273 PRO PRO A . n A 1 283 GLY 283 274 274 GLY GLY A . n A 1 284 LEU 284 275 275 LEU LEU A . n A 1 285 VAL 285 276 276 VAL VAL A . n A 1 286 LEU 286 277 277 LEU LEU A . n A 1 287 LEU 287 278 278 LEU LEU A . n A 1 288 LEU 288 279 279 LEU LEU A . n A 1 289 LEU 289 280 280 LEU LEU A . n A 1 290 ASP 290 281 281 ASP ASP A . n A 1 291 VAL 291 282 282 VAL VAL A . n A 1 292 CYS 292 283 283 CYS CYS A . n A 1 293 CYS 293 284 284 CYS CYS A . n A 1 294 PRO 294 285 285 PRO PRO A . n A 1 295 GLN 295 286 286 GLN GLN A . n A 1 296 CYS 296 287 287 CYS CYS A . n A 1 297 ASP 297 288 288 ASP ASP A . n A 1 298 VAL 298 289 289 VAL VAL A . n A 1 299 LEU 299 290 290 LEU LEU A . n A 1 300 ALA 300 291 291 ALA ALA A . n A 1 301 TYR 301 292 292 TYR TYR A . n A 1 302 GLU 302 293 293 GLU GLU A . n A 1 303 LYS 303 294 294 LYS LYS A . n A 1 304 PHE 304 295 295 PHE PHE A . n A 1 305 PHE 305 296 296 PHE PHE A . n A 1 306 LEU 306 297 297 LEU LEU A . n A 1 307 LEU 307 298 298 LEU LEU A . n A 1 308 LEU 308 299 299 LEU LEU A . n A 1 309 ALA 309 300 300 ALA ALA A . n A 1 310 GLU 310 301 301 GLU GLU A . n A 1 311 PHE 311 302 302 PHE PHE A . n A 1 312 ASN 312 303 303 ASN ASN A . n A 1 313 SER 313 304 304 SER SER A . n A 1 314 ALA 314 305 305 ALA ALA A . n A 1 315 MET 315 306 306 MET MET A . n A 1 316 ASN 316 307 307 ASN ASN A . n A 1 317 PRO 317 308 308 PRO PRO A . n A 1 318 ILE 318 309 309 ILE ILE A . n A 1 319 ILE 319 310 310 ILE ILE A . n A 1 320 TYR 320 311 311 TYR TYR A . n A 1 321 SER 321 312 312 SER SER A . n A 1 322 TYR 322 313 313 TYR TYR A . n A 1 323 ARG 323 314 314 ARG ARG A . n A 1 324 ASP 324 315 315 ASP ASP A . n A 1 325 LYS 325 316 316 LYS LYS A . n A 1 326 GLU 326 317 317 GLU GLU A . n A 1 327 MET 327 318 318 MET MET A . n A 1 328 SER 328 319 319 SER SER A . n A 1 329 ALA 329 320 320 ALA ALA A . n A 1 330 THR 330 321 321 THR THR A . n A 1 331 PHE 331 322 322 PHE PHE A . n A 1 332 ARG 332 323 323 ARG ARG A . n A 1 333 GLN 333 324 ? ? ? A . n A 1 334 ILE 334 325 ? ? ? A . n A 1 335 LEU 335 326 ? ? ? A . n A 1 336 CYS 336 327 ? ? ? A . n A 1 337 CYS 337 328 ? ? ? A . n A 1 338 GLN 338 329 ? ? ? A . n A 1 339 ARG 339 330 ? ? ? A . n A 1 340 SER 340 331 ? ? ? A . n A 1 341 GLU 341 332 ? ? ? A . n A 1 342 ASN 342 333 ? ? ? A . n A 1 343 PRO 343 334 ? ? ? A . n A 1 344 THR 344 335 ? ? ? A . n A 1 345 GLY 345 336 ? ? ? A . n A 1 346 PRO 346 337 ? ? ? A . n A 1 347 THR 347 338 ? ? ? A . n A 1 348 GLU 348 339 ? ? ? A . n A 1 349 GLY 349 340 ? ? ? A . n A 1 350 SER 350 341 ? ? ? A . n A 1 351 ASP 351 342 ? ? ? A . n A 1 352 ARG 352 343 ? ? ? A . n A 1 353 SER 353 344 ? ? ? A . n A 1 354 ALA 354 345 ? ? ? A . n A 1 355 SER 355 346 ? ? ? A . n A 1 356 SER 356 347 ? ? ? A . n A 1 357 LEU 357 348 ? ? ? A . n A 1 358 ASN 358 349 ? ? ? A . n A 1 359 HIS 359 350 ? ? ? A . n A 1 360 THR 360 351 ? ? ? A . n A 1 361 ILE 361 352 ? ? ? A . n A 1 362 LEU 362 353 ? ? ? A . n A 1 363 ALA 363 354 ? ? ? A . n A 1 364 GLY 364 355 ? ? ? A . n A 1 365 VAL 365 356 ? ? ? A . n A 1 366 HIS 366 357 ? ? ? A . n A 1 367 SER 367 358 ? ? ? A . n A 1 368 ASN 368 359 ? ? ? A . n A 1 369 ASP 369 360 ? ? ? A . n A 1 370 HIS 370 361 ? ? ? A . n A 1 371 SER 371 362 ? ? ? A . n A 1 372 VAL 372 363 ? ? ? A . n A 1 373 VAL 373 364 ? ? ? A . n A 1 374 GLU 374 365 ? ? ? A . n A 1 375 ASN 375 366 ? ? ? A . n A 1 376 LEU 376 367 ? ? ? A . n A 1 377 TYR 377 368 ? ? ? A . n A 1 378 PHE 378 369 ? ? ? A . n A 1 379 GLN 379 370 ? ? ? A . n # _pdbx_contact_author.id 2 _pdbx_contact_author.email nureki@bs.s.u-tokyo.ac.jp _pdbx_contact_author.name_first Osamu _pdbx_contact_author.name_last Nureki _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-1813-7008 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id K6L _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 401 _pdbx_nonpoly_scheme.auth_seq_num 401 _pdbx_nonpoly_scheme.pdb_mon_id K6L _pdbx_nonpoly_scheme.auth_mon_id LIG _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.pdb_ins_code . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _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 ? _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2022-10-05 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # _software.citation_id ? _software.classification refinement _software.compiler_name ? _software.compiler_version ? _software.contact_author ? _software.contact_author_email ? _software.date ? _software.description ? _software.dependencies ? _software.hardware ? _software.language ? _software.location ? _software.mods ? _software.name REFMAC _software.os ? _software.os_version ? _software.type ? _software.version 5.8.0267 _software.pdbx_ordinal 1 # _pdbx_entry_details.entry_id 7YU4 _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest Y # _em_3d_fitting.entry_id 7YU4 _em_3d_fitting.id 1 _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_protocol ? _em_3d_fitting.ref_space ? _em_3d_fitting.target_criteria ? _em_3d_fitting.method ? # _em_3d_reconstruction.entry_id 7YU4 _em_3d_reconstruction.id 1 _em_3d_reconstruction.algorithm ? _em_3d_reconstruction.details ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.num_particles 181071 _em_3d_reconstruction.resolution 3.7 _em_3d_reconstruction.resolution_method 'FSC 0.143 CUT-OFF' _em_3d_reconstruction.symmetry_type POINT _em_3d_reconstruction.method ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.magnification_calibration ? # _em_buffer.id 1 _em_buffer.details ? _em_buffer.pH 8 _em_buffer.specimen_id 1 _em_buffer.name ? # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.details ? _em_entity_assembly.name 'Human Lysophosphatidic Acid Receptor 1 bound to ONO-0740556' _em_entity_assembly.source NATURAL _em_entity_assembly.type COMPLEX _em_entity_assembly.entity_id_list 1 _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? # _em_imaging.id 1 _em_imaging.entry_id 7YU4 _em_imaging.accelerating_voltage 300 _em_imaging.alignment_procedure ? _em_imaging.c2_aperture_diameter ? _em_imaging.calibrated_defocus_max ? _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_magnification ? _em_imaging.cryogen ? _em_imaging.details ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.microscope_model 'FEI TITAN KRIOS' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs ? _em_imaging.nominal_defocus_max 2500 _em_imaging.nominal_defocus_min 500 _em_imaging.nominal_magnification ? _em_imaging.recording_temperature_maximum ? _em_imaging.recording_temperature_minimum ? _em_imaging.residual_tilt ? _em_imaging.specimen_holder_model ? _em_imaging.specimen_id 1 _em_imaging.citation_id ? _em_imaging.date ? _em_imaging.temperature ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.astigmatism ? _em_imaging.detector_distance ? _em_imaging.electron_beam_tilt_params ? _em_imaging.specimen_holder_type ? # _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.chamber_temperature ? _em_vitrification.cryogen_name ETHANE _em_vitrification.details ? _em_vitrification.humidity ? _em_vitrification.instrument ? _em_vitrification.entry_id 7YU4 _em_vitrification.citation_id ? _em_vitrification.method ? _em_vitrification.temp ? _em_vitrification.time_resolved_state ? # _em_experiment.entry_id 7YU4 _em_experiment.id 1 _em_experiment.aggregation_state PARTICLE _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.entity_assembly_id 1 # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 ALA A 42 ? ? 60.74 66.43 2 1 PHE A 80 ? ? -94.67 57.89 3 1 TRP A 186 ? ? -100.02 75.64 4 1 CYS A 188 ? ? -98.25 32.22 5 1 ASP A 288 ? ? -68.50 94.41 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A PHE 25 ? CG ? A PHE 34 CG 2 1 Y 1 A PHE 25 ? CD1 ? A PHE 34 CD1 3 1 Y 1 A PHE 25 ? CD2 ? A PHE 34 CD2 4 1 Y 1 A PHE 25 ? CE1 ? A PHE 34 CE1 5 1 Y 1 A PHE 25 ? CE2 ? A PHE 34 CE2 6 1 Y 1 A PHE 25 ? CZ ? A PHE 34 CZ 7 1 Y 1 A ASN 27 ? CG ? A ASN 36 CG 8 1 Y 1 A ASN 27 ? OD1 ? A ASN 36 OD1 9 1 Y 1 A ASN 27 ? ND2 ? A ASN 36 ND2 10 1 Y 1 A GLU 28 ? CG ? A GLU 37 CG 11 1 Y 1 A GLU 28 ? CD ? A GLU 37 CD 12 1 Y 1 A GLU 28 ? OE1 ? A GLU 37 OE1 13 1 Y 1 A GLU 28 ? OE2 ? A GLU 37 OE2 14 1 Y 1 A GLU 44 ? CG ? A GLU 53 CG 15 1 Y 1 A GLU 44 ? CD ? A GLU 53 CD 16 1 Y 1 A GLU 44 ? OE1 ? A GLU 53 OE1 17 1 Y 1 A GLU 44 ? OE2 ? A GLU 53 OE2 18 1 Y 1 A THR 47 ? OG1 ? A THR 56 OG1 19 1 Y 1 A THR 47 ? CG2 ? A THR 56 CG2 20 1 Y 1 A LYS 50 ? CG ? A LYS 59 CG 21 1 Y 1 A LYS 50 ? CD ? A LYS 59 CD 22 1 Y 1 A LYS 50 ? CE ? A LYS 59 CE 23 1 Y 1 A LYS 50 ? NZ ? A LYS 59 NZ 24 1 Y 1 A ILE 61 ? CG1 ? A ILE 70 CG1 25 1 Y 1 A ILE 61 ? CG2 ? A ILE 70 CG2 26 1 Y 1 A ILE 61 ? CD1 ? A ILE 70 CD1 27 1 Y 1 A LEU 65 ? CG ? A LEU 74 CG 28 1 Y 1 A LEU 65 ? CD1 ? A LEU 74 CD1 29 1 Y 1 A LEU 65 ? CD2 ? A LEU 74 CD2 30 1 Y 1 A LEU 68 ? CG ? A LEU 77 CG 31 1 Y 1 A LEU 68 ? CD1 ? A LEU 77 CD1 32 1 Y 1 A LEU 68 ? CD2 ? A LEU 77 CD2 33 1 Y 1 A VAL 72 ? CG1 ? A VAL 81 CG1 34 1 Y 1 A VAL 72 ? CG2 ? A VAL 81 CG2 35 1 Y 1 A ILE 74 ? CG1 ? A ILE 83 CG1 36 1 Y 1 A ILE 74 ? CG2 ? A ILE 83 CG2 37 1 Y 1 A ILE 74 ? CD1 ? A ILE 83 CD1 38 1 Y 1 A ARG 78 ? CG ? A ARG 87 CG 39 1 Y 1 A ARG 78 ? CD ? A ARG 87 CD 40 1 Y 1 A ARG 78 ? NE ? A ARG 87 NE 41 1 Y 1 A ARG 78 ? CZ ? A ARG 87 CZ 42 1 Y 1 A ARG 78 ? NH1 ? A ARG 87 NH1 43 1 Y 1 A ARG 78 ? NH2 ? A ARG 87 NH2 44 1 Y 1 A ARG 79 ? CG ? A ARG 88 CG 45 1 Y 1 A ARG 79 ? CD ? A ARG 88 CD 46 1 Y 1 A ARG 79 ? NE ? A ARG 88 NE 47 1 Y 1 A ARG 79 ? CZ ? A ARG 88 CZ 48 1 Y 1 A ARG 79 ? NH1 ? A ARG 88 NH1 49 1 Y 1 A ARG 79 ? NH2 ? A ARG 88 NH2 50 1 Y 1 A HIS 81 ? CG ? A HIS 90 CG 51 1 Y 1 A HIS 81 ? ND1 ? A HIS 90 ND1 52 1 Y 1 A HIS 81 ? CD2 ? A HIS 90 CD2 53 1 Y 1 A HIS 81 ? CE1 ? A HIS 90 CE1 54 1 Y 1 A HIS 81 ? NE2 ? A HIS 90 NE2 55 1 Y 1 A ARG 115 ? CG ? A ARG 124 CG 56 1 Y 1 A ARG 115 ? CD ? A ARG 124 CD 57 1 Y 1 A ARG 115 ? NE ? A ARG 124 NE 58 1 Y 1 A ARG 115 ? CZ ? A ARG 124 CZ 59 1 Y 1 A ARG 115 ? NH1 ? A ARG 124 NH1 60 1 Y 1 A ARG 115 ? NH2 ? A ARG 124 NH2 61 1 Y 1 A ARG 162 ? CG ? A ARG 171 CG 62 1 Y 1 A ARG 162 ? CD ? A ARG 171 CD 63 1 Y 1 A ARG 162 ? NE ? A ARG 171 NE 64 1 Y 1 A ARG 162 ? CZ ? A ARG 171 CZ 65 1 Y 1 A ARG 162 ? NH1 ? A ARG 171 NH1 66 1 Y 1 A ARG 162 ? NH2 ? A ARG 171 NH2 67 1 Y 1 A THR 173 ? OG1 ? A THR 182 OG1 68 1 Y 1 A THR 173 ? CG2 ? A THR 182 CG2 69 1 Y 1 A GLU 193 ? CG ? A GLU 202 CG 70 1 Y 1 A GLU 193 ? CD ? A GLU 202 CD 71 1 Y 1 A GLU 193 ? OE1 ? A GLU 202 OE1 72 1 Y 1 A GLU 193 ? OE2 ? A GLU 202 OE2 73 1 Y 1 A SER 196 ? OG ? A SER 205 OG 74 1 Y 1 A GLN 286 ? CG ? A GLN 295 CG 75 1 Y 1 A GLN 286 ? CD ? A GLN 295 CD 76 1 Y 1 A GLN 286 ? OE1 ? A GLN 295 OE1 77 1 Y 1 A GLN 286 ? NE2 ? A GLN 295 NE2 78 1 Y 1 A LYS 316 ? CG ? A LYS 325 CG 79 1 Y 1 A LYS 316 ? CD ? A LYS 325 CD 80 1 Y 1 A LYS 316 ? CE ? A LYS 325 CE 81 1 Y 1 A LYS 316 ? NZ ? A LYS 325 NZ 82 1 Y 1 A GLU 317 ? CG ? A GLU 326 CG 83 1 Y 1 A GLU 317 ? CD ? A GLU 326 CD 84 1 Y 1 A GLU 317 ? OE1 ? A GLU 326 OE1 85 1 Y 1 A GLU 317 ? OE2 ? A GLU 326 OE2 86 1 Y 1 A ARG 323 ? CG ? A ARG 332 CG 87 1 Y 1 A ARG 323 ? CD ? A ARG 332 CD 88 1 Y 1 A ARG 323 ? NE ? A ARG 332 NE 89 1 Y 1 A ARG 323 ? CZ ? A ARG 332 CZ 90 1 Y 1 A ARG 323 ? NH1 ? A ARG 332 NH1 91 1 Y 1 A ARG 323 ? NH2 ? A ARG 332 NH2 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A ASP -8 ? A ASP 1 2 1 Y 1 A TYR -7 ? A TYR 2 3 1 Y 1 A LYS -6 ? A LYS 3 4 1 Y 1 A ASP -5 ? A ASP 4 5 1 Y 1 A ASP -4 ? A ASP 5 6 1 Y 1 A ASP -3 ? A ASP 6 7 1 Y 1 A ASP -2 ? A ASP 7 8 1 Y 1 A ALA -1 ? A ALA 8 9 1 Y 1 A MET 0 ? A MET 9 10 1 Y 1 A GLY 1 ? A GLY 10 11 1 Y 1 A ALA 2 ? A ALA 11 12 1 Y 1 A ALA 3 ? A ALA 12 13 1 Y 1 A ILE 4 ? A ILE 13 14 1 Y 1 A SER 5 ? A SER 14 15 1 Y 1 A THR 6 ? A THR 15 16 1 Y 1 A SER 7 ? A SER 16 17 1 Y 1 A ILE 8 ? A ILE 17 18 1 Y 1 A PRO 9 ? A PRO 18 19 1 Y 1 A VAL 10 ? A VAL 19 20 1 Y 1 A ILE 11 ? A ILE 20 21 1 Y 1 A SER 12 ? A SER 21 22 1 Y 1 A GLN 13 ? A GLN 22 23 1 Y 1 A PRO 14 ? A PRO 23 24 1 Y 1 A GLN 15 ? A GLN 24 25 1 Y 1 A PHE 16 ? A PHE 25 26 1 Y 1 A THR 17 ? A THR 26 27 1 Y 1 A ALA 18 ? A ALA 27 28 1 Y 1 A MET 19 ? A MET 28 29 1 Y 1 A ASN 20 ? A ASN 29 30 1 Y 1 A GLU 21 ? A GLU 30 31 1 Y 1 A PRO 22 ? A PRO 31 32 1 Y 1 A PHE 82 ? A PHE 91 33 1 Y 1 A PHE 151 ? A PHE 160 34 1 Y 1 A ARG 152 ? A ARG 161 35 1 Y 1 A MET 153 ? A MET 162 36 1 Y 1 A GLN 154 ? A GLN 163 37 1 Y 1 A LEU 155 ? A LEU 164 38 1 Y 1 A HIS 156 ? A HIS 165 39 1 Y 1 A THR 157 ? A THR 166 40 1 Y 1 A ARG 158 ? A ARG 167 41 1 Y 1 A MET 159 ? A MET 168 42 1 Y 1 A TYR 231 ? A TYR 240 43 1 Y 1 A VAL 232 ? A VAL 241 44 1 Y 1 A ARG 233 ? A ARG 242 45 1 Y 1 A GLN 234 ? A GLN 243 46 1 Y 1 A ARG 235 ? A ARG 244 47 1 Y 1 A THR 236 ? A THR 245 48 1 Y 1 A MET 237 ? A MET 246 49 1 Y 1 A ARG 238 ? A ARG 247 50 1 Y 1 A MET 239 ? A MET 248 51 1 Y 1 A SER 240 ? A SER 249 52 1 Y 1 A ARG 241 ? A ARG 250 53 1 Y 1 A HIS 242 ? A HIS 251 54 1 Y 1 A SER 243 ? A SER 252 55 1 Y 1 A SER 244 ? A SER 253 56 1 Y 1 A GLY 245 ? A GLY 254 57 1 Y 1 A PRO 246 ? A PRO 255 58 1 Y 1 A ARG 247 ? A ARG 256 59 1 Y 1 A ARG 248 ? A ARG 257 60 1 Y 1 A ASN 249 ? A ASN 258 61 1 Y 1 A ARG 250 ? A ARG 259 62 1 Y 1 A ASP 251 ? A ASP 260 63 1 Y 1 A THR 252 ? A THR 261 64 1 Y 1 A MET 253 ? A MET 262 65 1 Y 1 A MET 254 ? A MET 263 66 1 Y 1 A SER 255 ? A SER 264 67 1 Y 1 A GLN 324 ? A GLN 333 68 1 Y 1 A ILE 325 ? A ILE 334 69 1 Y 1 A LEU 326 ? A LEU 335 70 1 Y 1 A CYS 327 ? A CYS 336 71 1 Y 1 A CYS 328 ? A CYS 337 72 1 Y 1 A GLN 329 ? A GLN 338 73 1 Y 1 A ARG 330 ? A ARG 339 74 1 Y 1 A SER 331 ? A SER 340 75 1 Y 1 A GLU 332 ? A GLU 341 76 1 Y 1 A ASN 333 ? A ASN 342 77 1 Y 1 A PRO 334 ? A PRO 343 78 1 Y 1 A THR 335 ? A THR 344 79 1 Y 1 A GLY 336 ? A GLY 345 80 1 Y 1 A PRO 337 ? A PRO 346 81 1 Y 1 A THR 338 ? A THR 347 82 1 Y 1 A GLU 339 ? A GLU 348 83 1 Y 1 A GLY 340 ? A GLY 349 84 1 Y 1 A SER 341 ? A SER 350 85 1 Y 1 A ASP 342 ? A ASP 351 86 1 Y 1 A ARG 343 ? A ARG 352 87 1 Y 1 A SER 344 ? A SER 353 88 1 Y 1 A ALA 345 ? A ALA 354 89 1 Y 1 A SER 346 ? A SER 355 90 1 Y 1 A SER 347 ? A SER 356 91 1 Y 1 A LEU 348 ? A LEU 357 92 1 Y 1 A ASN 349 ? A ASN 358 93 1 Y 1 A HIS 350 ? A HIS 359 94 1 Y 1 A THR 351 ? A THR 360 95 1 Y 1 A ILE 352 ? A ILE 361 96 1 Y 1 A LEU 353 ? A LEU 362 97 1 Y 1 A ALA 354 ? A ALA 363 98 1 Y 1 A GLY 355 ? A GLY 364 99 1 Y 1 A VAL 356 ? A VAL 365 100 1 Y 1 A HIS 357 ? A HIS 366 101 1 Y 1 A SER 358 ? A SER 367 102 1 Y 1 A ASN 359 ? A ASN 368 103 1 Y 1 A ASP 360 ? A ASP 369 104 1 Y 1 A HIS 361 ? A HIS 370 105 1 Y 1 A SER 362 ? A SER 371 106 1 Y 1 A VAL 363 ? A VAL 372 107 1 Y 1 A VAL 364 ? A VAL 373 108 1 Y 1 A GLU 365 ? A GLU 374 109 1 Y 1 A ASN 366 ? A ASN 375 110 1 Y 1 A LEU 367 ? A LEU 376 111 1 Y 1 A TYR 368 ? A TYR 377 112 1 Y 1 A PHE 369 ? A PHE 378 113 1 Y 1 A GLN 370 ? A GLN 379 # _em_ctf_correction.id 1 _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.type 'PHASE FLIPPING AND AMPLITUDE CORRECTION' _em_ctf_correction.details ? # _em_entity_assembly_molwt.entity_assembly_id 1 _em_entity_assembly_molwt.id 1 _em_entity_assembly_molwt.experimental_flag NO _em_entity_assembly_molwt.units ? _em_entity_assembly_molwt.value ? # _em_entity_assembly_naturalsource.id 1 _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.ncbi_tax_id 9606 _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organism 'Homo sapiens' _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? # _em_entity_assembly_recombinant.id 1 _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.cell ? _em_entity_assembly_recombinant.ncbi_tax_id 7108 _em_entity_assembly_recombinant.organism 'Spodoptera frugiperda' _em_entity_assembly_recombinant.plasmid ? _em_entity_assembly_recombinant.strain ? # _em_image_processing.id 1 _em_image_processing.image_recording_id 1 _em_image_processing.details ? # _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.avg_electron_dose_per_image 50 _em_image_recording.average_exposure_time ? _em_image_recording.details ? _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'GATAN K3 (6k x 4k)' _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged ? _em_image_recording.num_real_images ? _em_image_recording.avg_electron_dose_per_subtomogram ? # loop_ _em_software.id _em_software.category _em_software.details _em_software.name _em_software.version _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id 1 'SYMMETRY DETERMINATION' ? ? ? 1 1 1 2 'IMAGE ACQUISITION' ? ? ? ? ? 1 3 MASKING ? ? ? ? ? ? 4 'CTF CORRECTION' ? ? ? 1 ? ? 5 'LAYERLINE INDEXING' ? ? ? ? ? ? 6 'DIFFRACTION INDEXING' ? ? ? ? ? ? 7 'MODEL FITTING' ? ? ? ? ? ? 8 'MODEL REFINEMENT' ? ? ? ? ? ? 9 OTHER ? ? ? ? ? ? 10 'INITIAL EULER ASSIGNMENT' ? ? ? 1 ? ? 11 'FINAL EULER ASSIGNMENT' ? ? ? 1 ? ? 12 CLASSIFICATION ? ? ? 1 ? ? 13 RECONSTRUCTION ? ? ? 1 ? ? # _em_specimen.id 1 _em_specimen.experiment_id 1 _em_specimen.concentration 7 _em_specimen.details ? _em_specimen.embedding_applied NO _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied YES # _pdbx_audit_support.funding_organization 'Japan Society for the Promotion of Science (JSPS)' _pdbx_audit_support.country Japan _pdbx_audit_support.grant_number 21H05037 _pdbx_audit_support.ordinal 1 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id K6L _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id K6L _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name '[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate' _pdbx_entity_nonpoly.comp_id K6L # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'gel filtration' _pdbx_struct_assembly_auth_evidence.details ? #