data_8EX5 # _entry.id 8EX5 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.372 _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 8EX5 pdb_00008ex5 10.2210/pdb8ex5/pdb WWPDB D_1000269559 ? ? EMDB EMD-28651 ? ? # _pdbx_database_related.db_name EMDB _pdbx_database_related.details 'Human S1P transporter Spns2 in an outward-facing open conformation (state 4)' _pdbx_database_related.db_id EMD-28651 _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 8EX5 _pdbx_database_status.recvd_initial_deposition_date 2022-10-24 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _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 'Ahmed, S.' 1 ? 'Zhao, H.' 2 ? 'Dai, Y.' 3 ? 'Lee, C.H.' 4 ? # _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 ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Cell _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 1097-4172 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 186 _citation.language ? _citation.page_first 2644 _citation.page_last ? _citation.title 'Structural and functional insights into Spns2-mediated transport of sphingosine-1-phosphate.' _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1016/j.cell.2023.04.028 _citation.pdbx_database_id_PubMed 37224812 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chen, H.' 1 ? primary 'Ahmed, S.' 2 ? primary 'Zhao, H.' 3 ? primary 'Elghobashi-Meinhardt, N.' 4 ? primary 'Dai, Y.' 5 ? primary 'Kim, J.H.' 6 ? primary 'McDonald, J.G.' 7 ? primary 'Li, X.' 8 ? primary 'Lee, C.H.' 9 ? # _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 8EX5 _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 8EX5 _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 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'Sphingosine-1-phosphate transporter SPNS2' _entity.formula_weight 48896.184 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Protein spinster homolog 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 ;EKRKAAAAILSLGNVLNYLDRYTVAGVLLDIQQHFGVKDRGAGLLQSVFICSFMVAAPIFGYLGDRFNRKVILSCGIFFW SAVTFSSSFIPQQYFWLLVLSRGLVGIGEASYSTIAPTIIGDLFTKNTRTLMLSVFYFAIPLGSGLGYITGSSVKQAAGD WHWALRVSPVLGMITGTLILILVPATKRGHADQLGDQLKARTSWLRDMKALIRNRSYVFSSLATSAVSFATGALGMWIPL YLHRAQVVQKTAETCNSPPCGAKDSLIFGAITCFTGFLGVVTGAGATRWCRLKTQRADPLVCAVGMLGSAIFICLIFVAA KSSIVGAYICIFVGETLLFSNWAITADILMYVVIPTRRATAVALQSFTSHLLGDAGSPYLIGFISDLIRQSTKDSPLWEF LSLGYALMLCPFVVVLGGMFFLATALFFVSDRARAEQQVNQLAMPPASVKV ; _entity_poly.pdbx_seq_one_letter_code_can ;EKRKAAAAILSLGNVLNYLDRYTVAGVLLDIQQHFGVKDRGAGLLQSVFICSFMVAAPIFGYLGDRFNRKVILSCGIFFW SAVTFSSSFIPQQYFWLLVLSRGLVGIGEASYSTIAPTIIGDLFTKNTRTLMLSVFYFAIPLGSGLGYITGSSVKQAAGD WHWALRVSPVLGMITGTLILILVPATKRGHADQLGDQLKARTSWLRDMKALIRNRSYVFSSLATSAVSFATGALGMWIPL YLHRAQVVQKTAETCNSPPCGAKDSLIFGAITCFTGFLGVVTGAGATRWCRLKTQRADPLVCAVGMLGSAIFICLIFVAA KSSIVGAYICIFVGETLLFSNWAITADILMYVVIPTRRATAVALQSFTSHLLGDAGSPYLIGFISDLIRQSTKDSPLWEF LSLGYALMLCPFVVVLGGMFFLATALFFVSDRARAEQQVNQLAMPPASVKV ; _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 GLU n 1 2 LYS n 1 3 ARG n 1 4 LYS n 1 5 ALA n 1 6 ALA n 1 7 ALA n 1 8 ALA n 1 9 ILE n 1 10 LEU n 1 11 SER n 1 12 LEU n 1 13 GLY n 1 14 ASN n 1 15 VAL n 1 16 LEU n 1 17 ASN n 1 18 TYR n 1 19 LEU n 1 20 ASP n 1 21 ARG n 1 22 TYR n 1 23 THR n 1 24 VAL n 1 25 ALA n 1 26 GLY n 1 27 VAL n 1 28 LEU n 1 29 LEU n 1 30 ASP n 1 31 ILE n 1 32 GLN n 1 33 GLN n 1 34 HIS n 1 35 PHE n 1 36 GLY n 1 37 VAL n 1 38 LYS n 1 39 ASP n 1 40 ARG n 1 41 GLY n 1 42 ALA n 1 43 GLY n 1 44 LEU n 1 45 LEU n 1 46 GLN n 1 47 SER n 1 48 VAL n 1 49 PHE n 1 50 ILE n 1 51 CYS n 1 52 SER n 1 53 PHE n 1 54 MET n 1 55 VAL n 1 56 ALA n 1 57 ALA n 1 58 PRO n 1 59 ILE n 1 60 PHE n 1 61 GLY n 1 62 TYR n 1 63 LEU n 1 64 GLY n 1 65 ASP n 1 66 ARG n 1 67 PHE n 1 68 ASN n 1 69 ARG n 1 70 LYS n 1 71 VAL n 1 72 ILE n 1 73 LEU n 1 74 SER n 1 75 CYS n 1 76 GLY n 1 77 ILE n 1 78 PHE n 1 79 PHE n 1 80 TRP n 1 81 SER n 1 82 ALA n 1 83 VAL n 1 84 THR n 1 85 PHE n 1 86 SER n 1 87 SER n 1 88 SER n 1 89 PHE n 1 90 ILE n 1 91 PRO n 1 92 GLN n 1 93 GLN n 1 94 TYR n 1 95 PHE n 1 96 TRP n 1 97 LEU n 1 98 LEU n 1 99 VAL n 1 100 LEU n 1 101 SER n 1 102 ARG n 1 103 GLY n 1 104 LEU n 1 105 VAL n 1 106 GLY n 1 107 ILE n 1 108 GLY n 1 109 GLU n 1 110 ALA n 1 111 SER n 1 112 TYR n 1 113 SER n 1 114 THR n 1 115 ILE n 1 116 ALA n 1 117 PRO n 1 118 THR n 1 119 ILE n 1 120 ILE n 1 121 GLY n 1 122 ASP n 1 123 LEU n 1 124 PHE n 1 125 THR n 1 126 LYS n 1 127 ASN n 1 128 THR n 1 129 ARG n 1 130 THR n 1 131 LEU n 1 132 MET n 1 133 LEU n 1 134 SER n 1 135 VAL n 1 136 PHE n 1 137 TYR n 1 138 PHE n 1 139 ALA n 1 140 ILE n 1 141 PRO n 1 142 LEU n 1 143 GLY n 1 144 SER n 1 145 GLY n 1 146 LEU n 1 147 GLY n 1 148 TYR n 1 149 ILE n 1 150 THR n 1 151 GLY n 1 152 SER n 1 153 SER n 1 154 VAL n 1 155 LYS n 1 156 GLN n 1 157 ALA n 1 158 ALA n 1 159 GLY n 1 160 ASP n 1 161 TRP n 1 162 HIS n 1 163 TRP n 1 164 ALA n 1 165 LEU n 1 166 ARG n 1 167 VAL n 1 168 SER n 1 169 PRO n 1 170 VAL n 1 171 LEU n 1 172 GLY n 1 173 MET n 1 174 ILE n 1 175 THR n 1 176 GLY n 1 177 THR n 1 178 LEU n 1 179 ILE n 1 180 LEU n 1 181 ILE n 1 182 LEU n 1 183 VAL n 1 184 PRO n 1 185 ALA n 1 186 THR n 1 187 LYS n 1 188 ARG n 1 189 GLY n 1 190 HIS n 1 191 ALA n 1 192 ASP n 1 193 GLN n 1 194 LEU n 1 195 GLY n 1 196 ASP n 1 197 GLN n 1 198 LEU n 1 199 LYS n 1 200 ALA n 1 201 ARG n 1 202 THR n 1 203 SER n 1 204 TRP n 1 205 LEU n 1 206 ARG n 1 207 ASP n 1 208 MET n 1 209 LYS n 1 210 ALA n 1 211 LEU n 1 212 ILE n 1 213 ARG n 1 214 ASN n 1 215 ARG n 1 216 SER n 1 217 TYR n 1 218 VAL n 1 219 PHE n 1 220 SER n 1 221 SER n 1 222 LEU n 1 223 ALA n 1 224 THR n 1 225 SER n 1 226 ALA n 1 227 VAL n 1 228 SER n 1 229 PHE n 1 230 ALA n 1 231 THR n 1 232 GLY n 1 233 ALA n 1 234 LEU n 1 235 GLY n 1 236 MET n 1 237 TRP n 1 238 ILE n 1 239 PRO n 1 240 LEU n 1 241 TYR n 1 242 LEU n 1 243 HIS n 1 244 ARG n 1 245 ALA n 1 246 GLN n 1 247 VAL n 1 248 VAL n 1 249 GLN n 1 250 LYS n 1 251 THR n 1 252 ALA n 1 253 GLU n 1 254 THR n 1 255 CYS n 1 256 ASN n 1 257 SER n 1 258 PRO n 1 259 PRO n 1 260 CYS n 1 261 GLY n 1 262 ALA n 1 263 LYS n 1 264 ASP n 1 265 SER n 1 266 LEU n 1 267 ILE n 1 268 PHE n 1 269 GLY n 1 270 ALA n 1 271 ILE n 1 272 THR n 1 273 CYS n 1 274 PHE n 1 275 THR n 1 276 GLY n 1 277 PHE n 1 278 LEU n 1 279 GLY n 1 280 VAL n 1 281 VAL n 1 282 THR n 1 283 GLY n 1 284 ALA n 1 285 GLY n 1 286 ALA n 1 287 THR n 1 288 ARG n 1 289 TRP n 1 290 CYS n 1 291 ARG n 1 292 LEU n 1 293 LYS n 1 294 THR n 1 295 GLN n 1 296 ARG n 1 297 ALA n 1 298 ASP n 1 299 PRO n 1 300 LEU n 1 301 VAL n 1 302 CYS n 1 303 ALA n 1 304 VAL n 1 305 GLY n 1 306 MET n 1 307 LEU n 1 308 GLY n 1 309 SER n 1 310 ALA n 1 311 ILE n 1 312 PHE n 1 313 ILE n 1 314 CYS n 1 315 LEU n 1 316 ILE n 1 317 PHE n 1 318 VAL n 1 319 ALA n 1 320 ALA n 1 321 LYS n 1 322 SER n 1 323 SER n 1 324 ILE n 1 325 VAL n 1 326 GLY n 1 327 ALA n 1 328 TYR n 1 329 ILE n 1 330 CYS n 1 331 ILE n 1 332 PHE n 1 333 VAL n 1 334 GLY n 1 335 GLU n 1 336 THR n 1 337 LEU n 1 338 LEU n 1 339 PHE n 1 340 SER n 1 341 ASN n 1 342 TRP n 1 343 ALA n 1 344 ILE n 1 345 THR n 1 346 ALA n 1 347 ASP n 1 348 ILE n 1 349 LEU n 1 350 MET n 1 351 TYR n 1 352 VAL n 1 353 VAL n 1 354 ILE n 1 355 PRO n 1 356 THR n 1 357 ARG n 1 358 ARG n 1 359 ALA n 1 360 THR n 1 361 ALA n 1 362 VAL n 1 363 ALA n 1 364 LEU n 1 365 GLN n 1 366 SER n 1 367 PHE n 1 368 THR n 1 369 SER n 1 370 HIS n 1 371 LEU n 1 372 LEU n 1 373 GLY n 1 374 ASP n 1 375 ALA n 1 376 GLY n 1 377 SER n 1 378 PRO n 1 379 TYR n 1 380 LEU n 1 381 ILE n 1 382 GLY n 1 383 PHE n 1 384 ILE n 1 385 SER n 1 386 ASP n 1 387 LEU n 1 388 ILE n 1 389 ARG n 1 390 GLN n 1 391 SER n 1 392 THR n 1 393 LYS n 1 394 ASP n 1 395 SER n 1 396 PRO n 1 397 LEU n 1 398 TRP n 1 399 GLU n 1 400 PHE n 1 401 LEU n 1 402 SER n 1 403 LEU n 1 404 GLY n 1 405 TYR n 1 406 ALA n 1 407 LEU n 1 408 MET n 1 409 LEU n 1 410 CYS n 1 411 PRO n 1 412 PHE n 1 413 VAL n 1 414 VAL n 1 415 VAL n 1 416 LEU n 1 417 GLY n 1 418 GLY n 1 419 MET n 1 420 PHE n 1 421 PHE n 1 422 LEU n 1 423 ALA n 1 424 THR n 1 425 ALA n 1 426 LEU n 1 427 PHE n 1 428 PHE n 1 429 VAL n 1 430 SER n 1 431 ASP n 1 432 ARG n 1 433 ALA n 1 434 ARG n 1 435 ALA n 1 436 GLU n 1 437 GLN n 1 438 GLN n 1 439 VAL n 1 440 ASN n 1 441 GLN n 1 442 LEU n 1 443 ALA n 1 444 MET n 1 445 PRO n 1 446 PRO n 1 447 ALA n 1 448 SER n 1 449 VAL n 1 450 LYS n 1 451 VAL 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 451 _entity_src_gen.gene_src_common_name human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene SPNS2 _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 human _entity_src_gen.pdbx_host_org_scientific_name 'Homo sapiens' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 9606 _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 SPNS2_HUMAN _struct_ref.pdbx_db_accession Q8IVW8 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;AAAAILSLGNVLNYLDRYTVAGVLLDIQQHFGVKDRGAGLLQSVFICSFMVAAPIFGYLGDRFNRKVILSCGIFFWSAVT FSSSFIPQQYFWLLVLSRGLVGIGEASYSTIAPTIIGDLFTKNTRTLMLSVFYFAIPLGSGLGYITGSSVKQAAGDWHWA LRVSPVLGMITGTLILILVPATKRGHADQLGDQLKARTSWLRDMKALIRNRSYVFSSLATSAVSFATGALGMWIPLYLHR AQVVQKTAETCNSPPCGAKDSLIFGAITCFTGFLGVVTGAGATRWCRLKTQRADPLVCAVGMLGSAIFICLIFVAAKSSI VGAYICIFVGETLLFSNWAITADILMYVVIPTRRATAVALQSFTSHLLGDAGSPYLIGFISDLIRQSTKDSPLWEFLSLG YALMLCPFVVVLGGMFFLATALFFVSDRARAEQQVNQLAMPPASVKV ; _struct_ref.pdbx_align_begin 103 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 8EX5 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 5 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 451 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q8IVW8 _struct_ref_seq.db_align_beg 103 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 549 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 103 _struct_ref_seq.pdbx_auth_seq_align_end 549 # 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 8EX5 GLU A 1 ? UNP Q8IVW8 ? ? 'expression tag' 99 1 1 8EX5 LYS A 2 ? UNP Q8IVW8 ? ? 'expression tag' 100 2 1 8EX5 ARG A 3 ? UNP Q8IVW8 ? ? 'expression tag' 101 3 1 8EX5 LYS A 4 ? UNP Q8IVW8 ? ? 'expression tag' 102 4 # 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 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 8EX5 _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _struct.entry_id 8EX5 _struct.title 'Human S1P transporter Spns2 in an outward-facing open conformation (state 4)' _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 8EX5 _struct_keywords.text 'transporter, MEMBRANE PROTEIN' _struct_keywords.pdbx_keywords 'MEMBRANE PROTEIN' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # 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 GLU A 1 ? GLY A 36 ? GLU A 99 GLY A 134 1 ? 36 HELX_P HELX_P2 AA2 LYS A 38 ? PHE A 67 ? LYS A 136 PHE A 165 1 ? 30 HELX_P HELX_P3 AA3 ARG A 69 ? SER A 88 ? ARG A 167 SER A 186 1 ? 20 HELX_P HELX_P4 AA4 PHE A 95 ? PHE A 124 ? PHE A 193 PHE A 222 1 ? 30 HELX_P HELX_P5 AA5 THR A 125 ? ALA A 158 ? THR A 223 ALA A 256 1 ? 34 HELX_P HELX_P6 AA6 VAL A 167 ? VAL A 183 ? VAL A 265 VAL A 281 1 ? 17 HELX_P HELX_P7 AA7 TRP A 204 ? ASN A 214 ? TRP A 302 ASN A 312 1 ? 11 HELX_P HELX_P8 AA8 ASN A 214 ? LYS A 250 ? ASN A 312 LYS A 348 1 ? 37 HELX_P HELX_P9 AA9 LYS A 263 ? THR A 294 ? LYS A 361 THR A 392 1 ? 32 HELX_P HELX_P10 AB1 ARG A 296 ? ALA A 319 ? ARG A 394 ALA A 417 1 ? 24 HELX_P HELX_P11 AB2 ILE A 329 ? SER A 340 ? ILE A 427 SER A 438 1 ? 12 HELX_P HELX_P12 AB3 TRP A 342 ? VAL A 352 ? TRP A 440 VAL A 450 1 ? 11 HELX_P HELX_P13 AB4 ILE A 354 ? THR A 356 ? ILE A 452 THR A 454 5 ? 3 HELX_P HELX_P14 AB5 ARG A 357 ? LEU A 372 ? ARG A 455 LEU A 470 1 ? 16 HELX_P HELX_P15 AB6 GLY A 376 ? GLN A 390 ? GLY A 474 GLN A 488 1 ? 15 HELX_P HELX_P16 AB7 SER A 395 ? ASN A 440 ? SER A 493 ASN A 538 1 ? 46 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _atom_sites.entry_id 8EX5 _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 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 GLU 1 99 99 GLU GLU A . n A 1 2 LYS 2 100 100 LYS LYS A . n A 1 3 ARG 3 101 101 ARG ARG A . n A 1 4 LYS 4 102 102 LYS LYS A . n A 1 5 ALA 5 103 103 ALA ALA A . n A 1 6 ALA 6 104 104 ALA ALA A . n A 1 7 ALA 7 105 105 ALA ALA A . n A 1 8 ALA 8 106 106 ALA ALA A . n A 1 9 ILE 9 107 107 ILE ILE A . n A 1 10 LEU 10 108 108 LEU LEU A . n A 1 11 SER 11 109 109 SER SER A . n A 1 12 LEU 12 110 110 LEU LEU A . n A 1 13 GLY 13 111 111 GLY GLY A . n A 1 14 ASN 14 112 112 ASN ASN A . n A 1 15 VAL 15 113 113 VAL VAL A . n A 1 16 LEU 16 114 114 LEU LEU A . n A 1 17 ASN 17 115 115 ASN ASN A . n A 1 18 TYR 18 116 116 TYR TYR A . n A 1 19 LEU 19 117 117 LEU LEU A . n A 1 20 ASP 20 118 118 ASP ASP A . n A 1 21 ARG 21 119 119 ARG ARG A . n A 1 22 TYR 22 120 120 TYR TYR A . n A 1 23 THR 23 121 121 THR THR A . n A 1 24 VAL 24 122 122 VAL VAL A . n A 1 25 ALA 25 123 123 ALA ALA A . n A 1 26 GLY 26 124 124 GLY GLY A . n A 1 27 VAL 27 125 125 VAL VAL A . n A 1 28 LEU 28 126 126 LEU LEU A . n A 1 29 LEU 29 127 127 LEU LEU A . n A 1 30 ASP 30 128 128 ASP ASP A . n A 1 31 ILE 31 129 129 ILE ILE A . n A 1 32 GLN 32 130 130 GLN GLN A . n A 1 33 GLN 33 131 131 GLN GLN A . n A 1 34 HIS 34 132 132 HIS HIS A . n A 1 35 PHE 35 133 133 PHE PHE A . n A 1 36 GLY 36 134 134 GLY GLY A . n A 1 37 VAL 37 135 135 VAL VAL A . n A 1 38 LYS 38 136 136 LYS LYS A . n A 1 39 ASP 39 137 137 ASP ASP A . n A 1 40 ARG 40 138 138 ARG ARG A . n A 1 41 GLY 41 139 139 GLY GLY A . n A 1 42 ALA 42 140 140 ALA ALA A . n A 1 43 GLY 43 141 141 GLY GLY A . n A 1 44 LEU 44 142 142 LEU LEU A . n A 1 45 LEU 45 143 143 LEU LEU A . n A 1 46 GLN 46 144 144 GLN GLN A . n A 1 47 SER 47 145 145 SER SER A . n A 1 48 VAL 48 146 146 VAL VAL A . n A 1 49 PHE 49 147 147 PHE PHE A . n A 1 50 ILE 50 148 148 ILE ILE A . n A 1 51 CYS 51 149 149 CYS CYS A . n A 1 52 SER 52 150 150 SER SER A . n A 1 53 PHE 53 151 151 PHE PHE A . n A 1 54 MET 54 152 152 MET MET A . n A 1 55 VAL 55 153 153 VAL VAL A . n A 1 56 ALA 56 154 154 ALA ALA A . n A 1 57 ALA 57 155 155 ALA ALA A . n A 1 58 PRO 58 156 156 PRO PRO A . n A 1 59 ILE 59 157 157 ILE ILE A . n A 1 60 PHE 60 158 158 PHE PHE A . n A 1 61 GLY 61 159 159 GLY GLY A . n A 1 62 TYR 62 160 160 TYR TYR A . n A 1 63 LEU 63 161 161 LEU LEU A . n A 1 64 GLY 64 162 162 GLY GLY A . n A 1 65 ASP 65 163 163 ASP ASP A . n A 1 66 ARG 66 164 164 ARG ARG A . n A 1 67 PHE 67 165 165 PHE PHE A . n A 1 68 ASN 68 166 166 ASN ASN A . n A 1 69 ARG 69 167 167 ARG ARG A . n A 1 70 LYS 70 168 168 LYS LYS A . n A 1 71 VAL 71 169 169 VAL VAL A . n A 1 72 ILE 72 170 170 ILE ILE A . n A 1 73 LEU 73 171 171 LEU LEU A . n A 1 74 SER 74 172 172 SER SER A . n A 1 75 CYS 75 173 173 CYS CYS A . n A 1 76 GLY 76 174 174 GLY GLY A . n A 1 77 ILE 77 175 175 ILE ILE A . n A 1 78 PHE 78 176 176 PHE PHE A . n A 1 79 PHE 79 177 177 PHE PHE A . n A 1 80 TRP 80 178 178 TRP TRP A . n A 1 81 SER 81 179 179 SER SER A . n A 1 82 ALA 82 180 180 ALA ALA A . n A 1 83 VAL 83 181 181 VAL VAL A . n A 1 84 THR 84 182 182 THR THR A . n A 1 85 PHE 85 183 183 PHE PHE A . n A 1 86 SER 86 184 184 SER SER A . n A 1 87 SER 87 185 185 SER SER A . n A 1 88 SER 88 186 186 SER SER A . n A 1 89 PHE 89 187 187 PHE PHE A . n A 1 90 ILE 90 188 188 ILE ILE A . n A 1 91 PRO 91 189 189 PRO PRO A . n A 1 92 GLN 92 190 190 GLN GLN A . n A 1 93 GLN 93 191 191 GLN GLN A . n A 1 94 TYR 94 192 192 TYR TYR A . n A 1 95 PHE 95 193 193 PHE PHE A . n A 1 96 TRP 96 194 194 TRP TRP A . n A 1 97 LEU 97 195 195 LEU LEU A . n A 1 98 LEU 98 196 196 LEU LEU A . n A 1 99 VAL 99 197 197 VAL VAL A . n A 1 100 LEU 100 198 198 LEU LEU A . n A 1 101 SER 101 199 199 SER SER A . n A 1 102 ARG 102 200 200 ARG ARG A . n A 1 103 GLY 103 201 201 GLY GLY A . n A 1 104 LEU 104 202 202 LEU LEU A . n A 1 105 VAL 105 203 203 VAL VAL A . n A 1 106 GLY 106 204 204 GLY GLY A . n A 1 107 ILE 107 205 205 ILE ILE A . n A 1 108 GLY 108 206 206 GLY GLY A . n A 1 109 GLU 109 207 207 GLU GLU A . n A 1 110 ALA 110 208 208 ALA ALA A . n A 1 111 SER 111 209 209 SER SER A . n A 1 112 TYR 112 210 210 TYR TYR A . n A 1 113 SER 113 211 211 SER SER A . n A 1 114 THR 114 212 212 THR THR A . n A 1 115 ILE 115 213 213 ILE ILE A . n A 1 116 ALA 116 214 214 ALA ALA A . n A 1 117 PRO 117 215 215 PRO PRO A . n A 1 118 THR 118 216 216 THR THR A . n A 1 119 ILE 119 217 217 ILE ILE A . n A 1 120 ILE 120 218 218 ILE ILE A . n A 1 121 GLY 121 219 219 GLY GLY A . n A 1 122 ASP 122 220 220 ASP ASP A . n A 1 123 LEU 123 221 221 LEU LEU A . n A 1 124 PHE 124 222 222 PHE PHE A . n A 1 125 THR 125 223 223 THR THR A . n A 1 126 LYS 126 224 224 LYS LYS A . n A 1 127 ASN 127 225 225 ASN ASN A . n A 1 128 THR 128 226 226 THR THR A . n A 1 129 ARG 129 227 227 ARG ARG A . n A 1 130 THR 130 228 228 THR THR A . n A 1 131 LEU 131 229 229 LEU LEU A . n A 1 132 MET 132 230 230 MET MET A . n A 1 133 LEU 133 231 231 LEU LEU A . n A 1 134 SER 134 232 232 SER SER A . n A 1 135 VAL 135 233 233 VAL VAL A . n A 1 136 PHE 136 234 234 PHE PHE A . n A 1 137 TYR 137 235 235 TYR TYR A . n A 1 138 PHE 138 236 236 PHE PHE A . n A 1 139 ALA 139 237 237 ALA ALA A . n A 1 140 ILE 140 238 238 ILE ILE A . n A 1 141 PRO 141 239 239 PRO PRO A . n A 1 142 LEU 142 240 240 LEU LEU A . n A 1 143 GLY 143 241 241 GLY GLY A . n A 1 144 SER 144 242 242 SER SER A . n A 1 145 GLY 145 243 243 GLY GLY A . n A 1 146 LEU 146 244 244 LEU LEU A . n A 1 147 GLY 147 245 245 GLY GLY A . n A 1 148 TYR 148 246 246 TYR TYR A . n A 1 149 ILE 149 247 247 ILE ILE A . n A 1 150 THR 150 248 248 THR THR A . n A 1 151 GLY 151 249 249 GLY GLY A . n A 1 152 SER 152 250 250 SER SER A . n A 1 153 SER 153 251 251 SER SER A . n A 1 154 VAL 154 252 252 VAL VAL A . n A 1 155 LYS 155 253 253 LYS LYS A . n A 1 156 GLN 156 254 254 GLN GLN A . n A 1 157 ALA 157 255 255 ALA ALA A . n A 1 158 ALA 158 256 256 ALA ALA A . n A 1 159 GLY 159 257 257 GLY GLY A . n A 1 160 ASP 160 258 258 ASP ASP A . n A 1 161 TRP 161 259 259 TRP TRP A . n A 1 162 HIS 162 260 260 HIS HIS A . n A 1 163 TRP 163 261 261 TRP TRP A . n A 1 164 ALA 164 262 262 ALA ALA A . n A 1 165 LEU 165 263 263 LEU LEU A . n A 1 166 ARG 166 264 264 ARG ARG A . n A 1 167 VAL 167 265 265 VAL VAL A . n A 1 168 SER 168 266 266 SER SER A . n A 1 169 PRO 169 267 267 PRO PRO A . n A 1 170 VAL 170 268 268 VAL VAL A . n A 1 171 LEU 171 269 269 LEU LEU A . n A 1 172 GLY 172 270 270 GLY GLY A . n A 1 173 MET 173 271 271 MET MET A . n A 1 174 ILE 174 272 272 ILE ILE A . n A 1 175 THR 175 273 273 THR THR A . n A 1 176 GLY 176 274 274 GLY GLY A . n A 1 177 THR 177 275 275 THR THR A . n A 1 178 LEU 178 276 276 LEU LEU A . n A 1 179 ILE 179 277 277 ILE ILE A . n A 1 180 LEU 180 278 278 LEU LEU A . n A 1 181 ILE 181 279 279 ILE ILE A . n A 1 182 LEU 182 280 280 LEU LEU A . n A 1 183 VAL 183 281 281 VAL VAL A . n A 1 184 PRO 184 282 282 PRO PRO A . n A 1 185 ALA 185 283 283 ALA ALA A . n A 1 186 THR 186 284 284 THR THR A . n A 1 187 LYS 187 285 ? ? ? A . n A 1 188 ARG 188 286 ? ? ? A . n A 1 189 GLY 189 287 ? ? ? A . n A 1 190 HIS 190 288 ? ? ? A . n A 1 191 ALA 191 289 ? ? ? A . n A 1 192 ASP 192 290 ? ? ? A . n A 1 193 GLN 193 291 ? ? ? A . n A 1 194 LEU 194 292 ? ? ? A . n A 1 195 GLY 195 293 ? ? ? A . n A 1 196 ASP 196 294 ? ? ? A . n A 1 197 GLN 197 295 ? ? ? A . n A 1 198 LEU 198 296 ? ? ? A . n A 1 199 LYS 199 297 ? ? ? A . n A 1 200 ALA 200 298 ? ? ? A . n A 1 201 ARG 201 299 ? ? ? A . n A 1 202 THR 202 300 ? ? ? A . n A 1 203 SER 203 301 301 SER SER A . n A 1 204 TRP 204 302 302 TRP TRP A . n A 1 205 LEU 205 303 303 LEU LEU A . n A 1 206 ARG 206 304 304 ARG ARG A . n A 1 207 ASP 207 305 305 ASP ASP A . n A 1 208 MET 208 306 306 MET MET A . n A 1 209 LYS 209 307 307 LYS LYS A . n A 1 210 ALA 210 308 308 ALA ALA A . n A 1 211 LEU 211 309 309 LEU LEU A . n A 1 212 ILE 212 310 310 ILE ILE A . n A 1 213 ARG 213 311 311 ARG ARG A . n A 1 214 ASN 214 312 312 ASN ASN A . n A 1 215 ARG 215 313 313 ARG ARG A . n A 1 216 SER 216 314 314 SER SER A . n A 1 217 TYR 217 315 315 TYR TYR A . n A 1 218 VAL 218 316 316 VAL VAL A . n A 1 219 PHE 219 317 317 PHE PHE A . n A 1 220 SER 220 318 318 SER SER A . n A 1 221 SER 221 319 319 SER SER A . n A 1 222 LEU 222 320 320 LEU LEU A . n A 1 223 ALA 223 321 321 ALA ALA A . n A 1 224 THR 224 322 322 THR THR A . n A 1 225 SER 225 323 323 SER SER A . n A 1 226 ALA 226 324 324 ALA ALA A . n A 1 227 VAL 227 325 325 VAL VAL A . n A 1 228 SER 228 326 326 SER SER A . n A 1 229 PHE 229 327 327 PHE PHE A . n A 1 230 ALA 230 328 328 ALA ALA A . n A 1 231 THR 231 329 329 THR THR A . n A 1 232 GLY 232 330 330 GLY GLY A . n A 1 233 ALA 233 331 331 ALA ALA A . n A 1 234 LEU 234 332 332 LEU LEU A . n A 1 235 GLY 235 333 333 GLY GLY A . n A 1 236 MET 236 334 334 MET MET A . n A 1 237 TRP 237 335 335 TRP TRP A . n A 1 238 ILE 238 336 336 ILE ILE A . n A 1 239 PRO 239 337 337 PRO PRO A . n A 1 240 LEU 240 338 338 LEU LEU A . n A 1 241 TYR 241 339 339 TYR TYR A . n A 1 242 LEU 242 340 340 LEU LEU A . n A 1 243 HIS 243 341 341 HIS HIS A . n A 1 244 ARG 244 342 342 ARG ARG A . n A 1 245 ALA 245 343 343 ALA ALA A . n A 1 246 GLN 246 344 344 GLN GLN A . n A 1 247 VAL 247 345 345 VAL VAL A . n A 1 248 VAL 248 346 346 VAL VAL A . n A 1 249 GLN 249 347 347 GLN GLN A . n A 1 250 LYS 250 348 348 LYS LYS A . n A 1 251 THR 251 349 ? ? ? A . n A 1 252 ALA 252 350 ? ? ? A . n A 1 253 GLU 253 351 ? ? ? A . n A 1 254 THR 254 352 ? ? ? A . n A 1 255 CYS 255 353 ? ? ? A . n A 1 256 ASN 256 354 ? ? ? A . n A 1 257 SER 257 355 ? ? ? A . n A 1 258 PRO 258 356 ? ? ? A . n A 1 259 PRO 259 357 ? ? ? A . n A 1 260 CYS 260 358 ? ? ? A . n A 1 261 GLY 261 359 ? ? ? A . n A 1 262 ALA 262 360 360 ALA ALA A . n A 1 263 LYS 263 361 361 LYS LYS A . n A 1 264 ASP 264 362 362 ASP ASP A . n A 1 265 SER 265 363 363 SER SER A . n A 1 266 LEU 266 364 364 LEU LEU A . n A 1 267 ILE 267 365 365 ILE ILE A . n A 1 268 PHE 268 366 366 PHE PHE A . n A 1 269 GLY 269 367 367 GLY GLY A . n A 1 270 ALA 270 368 368 ALA ALA A . n A 1 271 ILE 271 369 369 ILE ILE A . n A 1 272 THR 272 370 370 THR THR A . n A 1 273 CYS 273 371 371 CYS CYS A . n A 1 274 PHE 274 372 372 PHE PHE A . n A 1 275 THR 275 373 373 THR THR A . n A 1 276 GLY 276 374 374 GLY GLY A . n A 1 277 PHE 277 375 375 PHE PHE A . n A 1 278 LEU 278 376 376 LEU LEU A . n A 1 279 GLY 279 377 377 GLY GLY A . n A 1 280 VAL 280 378 378 VAL VAL A . n A 1 281 VAL 281 379 379 VAL VAL A . n A 1 282 THR 282 380 380 THR THR A . n A 1 283 GLY 283 381 381 GLY GLY A . n A 1 284 ALA 284 382 382 ALA ALA A . n A 1 285 GLY 285 383 383 GLY GLY A . n A 1 286 ALA 286 384 384 ALA ALA A . n A 1 287 THR 287 385 385 THR THR A . n A 1 288 ARG 288 386 386 ARG ARG A . n A 1 289 TRP 289 387 387 TRP TRP A . n A 1 290 CYS 290 388 388 CYS CYS A . n A 1 291 ARG 291 389 389 ARG ARG A . n A 1 292 LEU 292 390 390 LEU LEU A . n A 1 293 LYS 293 391 391 LYS LYS A . n A 1 294 THR 294 392 392 THR THR A . n A 1 295 GLN 295 393 393 GLN GLN A . n A 1 296 ARG 296 394 394 ARG ARG A . n A 1 297 ALA 297 395 395 ALA ALA A . n A 1 298 ASP 298 396 396 ASP ASP A . n A 1 299 PRO 299 397 397 PRO PRO A . n A 1 300 LEU 300 398 398 LEU LEU A . n A 1 301 VAL 301 399 399 VAL VAL A . n A 1 302 CYS 302 400 400 CYS CYS A . n A 1 303 ALA 303 401 401 ALA ALA A . n A 1 304 VAL 304 402 402 VAL VAL A . n A 1 305 GLY 305 403 403 GLY GLY A . n A 1 306 MET 306 404 404 MET MET A . n A 1 307 LEU 307 405 405 LEU LEU A . n A 1 308 GLY 308 406 406 GLY GLY A . n A 1 309 SER 309 407 407 SER SER A . n A 1 310 ALA 310 408 408 ALA ALA A . n A 1 311 ILE 311 409 409 ILE ILE A . n A 1 312 PHE 312 410 410 PHE PHE A . n A 1 313 ILE 313 411 411 ILE ILE A . n A 1 314 CYS 314 412 412 CYS CYS A . n A 1 315 LEU 315 413 413 LEU LEU A . n A 1 316 ILE 316 414 414 ILE ILE A . n A 1 317 PHE 317 415 415 PHE PHE A . n A 1 318 VAL 318 416 416 VAL VAL A . n A 1 319 ALA 319 417 417 ALA ALA A . n A 1 320 ALA 320 418 418 ALA ALA A . n A 1 321 LYS 321 419 419 LYS LYS A . n A 1 322 SER 322 420 420 SER SER A . n A 1 323 SER 323 421 421 SER SER A . n A 1 324 ILE 324 422 422 ILE ILE A . n A 1 325 VAL 325 423 423 VAL VAL A . n A 1 326 GLY 326 424 424 GLY GLY A . n A 1 327 ALA 327 425 425 ALA ALA A . n A 1 328 TYR 328 426 426 TYR TYR A . n A 1 329 ILE 329 427 427 ILE ILE A . n A 1 330 CYS 330 428 428 CYS CYS A . n A 1 331 ILE 331 429 429 ILE ILE A . n A 1 332 PHE 332 430 430 PHE PHE A . n A 1 333 VAL 333 431 431 VAL VAL A . n A 1 334 GLY 334 432 432 GLY GLY A . n A 1 335 GLU 335 433 433 GLU GLU A . n A 1 336 THR 336 434 434 THR THR A . n A 1 337 LEU 337 435 435 LEU LEU A . n A 1 338 LEU 338 436 436 LEU LEU A . n A 1 339 PHE 339 437 437 PHE PHE A . n A 1 340 SER 340 438 438 SER SER A . n A 1 341 ASN 341 439 439 ASN ASN A . n A 1 342 TRP 342 440 440 TRP TRP A . n A 1 343 ALA 343 441 441 ALA ALA A . n A 1 344 ILE 344 442 442 ILE ILE A . n A 1 345 THR 345 443 443 THR THR A . n A 1 346 ALA 346 444 444 ALA ALA A . n A 1 347 ASP 347 445 445 ASP ASP A . n A 1 348 ILE 348 446 446 ILE ILE A . n A 1 349 LEU 349 447 447 LEU LEU A . n A 1 350 MET 350 448 448 MET MET A . n A 1 351 TYR 351 449 449 TYR TYR A . n A 1 352 VAL 352 450 450 VAL VAL A . n A 1 353 VAL 353 451 451 VAL VAL A . n A 1 354 ILE 354 452 452 ILE ILE A . n A 1 355 PRO 355 453 453 PRO PRO A . n A 1 356 THR 356 454 454 THR THR A . n A 1 357 ARG 357 455 455 ARG ARG A . n A 1 358 ARG 358 456 456 ARG ARG A . n A 1 359 ALA 359 457 457 ALA ALA A . n A 1 360 THR 360 458 458 THR THR A . n A 1 361 ALA 361 459 459 ALA ALA A . n A 1 362 VAL 362 460 460 VAL VAL A . n A 1 363 ALA 363 461 461 ALA ALA A . n A 1 364 LEU 364 462 462 LEU LEU A . n A 1 365 GLN 365 463 463 GLN GLN A . n A 1 366 SER 366 464 464 SER SER A . n A 1 367 PHE 367 465 465 PHE PHE A . n A 1 368 THR 368 466 466 THR THR A . n A 1 369 SER 369 467 467 SER SER A . n A 1 370 HIS 370 468 468 HIS HIS A . n A 1 371 LEU 371 469 469 LEU LEU A . n A 1 372 LEU 372 470 470 LEU LEU A . n A 1 373 GLY 373 471 471 GLY GLY A . n A 1 374 ASP 374 472 472 ASP ASP A . n A 1 375 ALA 375 473 473 ALA ALA A . n A 1 376 GLY 376 474 474 GLY GLY A . n A 1 377 SER 377 475 475 SER SER A . n A 1 378 PRO 378 476 476 PRO PRO A . n A 1 379 TYR 379 477 477 TYR TYR A . n A 1 380 LEU 380 478 478 LEU LEU A . n A 1 381 ILE 381 479 479 ILE ILE A . n A 1 382 GLY 382 480 480 GLY GLY A . n A 1 383 PHE 383 481 481 PHE PHE A . n A 1 384 ILE 384 482 482 ILE ILE A . n A 1 385 SER 385 483 483 SER SER A . n A 1 386 ASP 386 484 484 ASP ASP A . n A 1 387 LEU 387 485 485 LEU LEU A . n A 1 388 ILE 388 486 486 ILE ILE A . n A 1 389 ARG 389 487 487 ARG ARG A . n A 1 390 GLN 390 488 488 GLN GLN A . n A 1 391 SER 391 489 489 SER SER A . n A 1 392 THR 392 490 490 THR THR A . n A 1 393 LYS 393 491 491 LYS LYS A . n A 1 394 ASP 394 492 492 ASP ASP A . n A 1 395 SER 395 493 493 SER SER A . n A 1 396 PRO 396 494 494 PRO PRO A . n A 1 397 LEU 397 495 495 LEU LEU A . n A 1 398 TRP 398 496 496 TRP TRP A . n A 1 399 GLU 399 497 497 GLU GLU A . n A 1 400 PHE 400 498 498 PHE PHE A . n A 1 401 LEU 401 499 499 LEU LEU A . n A 1 402 SER 402 500 500 SER SER A . n A 1 403 LEU 403 501 501 LEU LEU A . n A 1 404 GLY 404 502 502 GLY GLY A . n A 1 405 TYR 405 503 503 TYR TYR A . n A 1 406 ALA 406 504 504 ALA ALA A . n A 1 407 LEU 407 505 505 LEU LEU A . n A 1 408 MET 408 506 506 MET MET A . n A 1 409 LEU 409 507 507 LEU LEU A . n A 1 410 CYS 410 508 508 CYS CYS A . n A 1 411 PRO 411 509 509 PRO PRO A . n A 1 412 PHE 412 510 510 PHE PHE A . n A 1 413 VAL 413 511 511 VAL VAL A . n A 1 414 VAL 414 512 512 VAL VAL A . n A 1 415 VAL 415 513 513 VAL VAL A . n A 1 416 LEU 416 514 514 LEU LEU A . n A 1 417 GLY 417 515 515 GLY GLY A . n A 1 418 GLY 418 516 516 GLY GLY A . n A 1 419 MET 419 517 517 MET MET A . n A 1 420 PHE 420 518 518 PHE PHE A . n A 1 421 PHE 421 519 519 PHE PHE A . n A 1 422 LEU 422 520 520 LEU LEU A . n A 1 423 ALA 423 521 521 ALA ALA A . n A 1 424 THR 424 522 522 THR THR A . n A 1 425 ALA 425 523 523 ALA ALA A . n A 1 426 LEU 426 524 524 LEU LEU A . n A 1 427 PHE 427 525 525 PHE PHE A . n A 1 428 PHE 428 526 526 PHE PHE A . n A 1 429 VAL 429 527 527 VAL VAL A . n A 1 430 SER 430 528 528 SER SER A . n A 1 431 ASP 431 529 529 ASP ASP A . n A 1 432 ARG 432 530 530 ARG ARG A . n A 1 433 ALA 433 531 531 ALA ALA A . n A 1 434 ARG 434 532 532 ARG ARG A . n A 1 435 ALA 435 533 533 ALA ALA A . n A 1 436 GLU 436 534 534 GLU GLU A . n A 1 437 GLN 437 535 535 GLN GLN A . n A 1 438 GLN 438 536 536 GLN GLN A . n A 1 439 VAL 439 537 537 VAL VAL A . n A 1 440 ASN 440 538 538 ASN ASN A . n A 1 441 GLN 441 539 539 GLN GLN A . n A 1 442 LEU 442 540 ? ? ? A . n A 1 443 ALA 443 541 ? ? ? A . n A 1 444 MET 444 542 ? ? ? A . n A 1 445 PRO 445 543 ? ? ? A . n A 1 446 PRO 446 544 ? ? ? A . n A 1 447 ALA 447 545 ? ? ? A . n A 1 448 SER 448 546 ? ? ? A . n A 1 449 VAL 449 547 ? ? ? A . n A 1 450 LYS 450 548 ? ? ? A . n A 1 451 VAL 451 549 ? ? ? A . n # _pdbx_contact_author.id 2 _pdbx_contact_author.email chiahsueh.lee@stjude.org _pdbx_contact_author.name_first Chia-Hsueh _pdbx_contact_author.name_last Lee _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-0819-6477 # _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 # _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 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2023-05-31 2 'Structure model' 1 1 2023-06-07 3 'Structure model' 1 2 2023-06-28 # _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 ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 3 'Structure model' citation # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_ASTM' 4 2 'Structure model' '_citation.journal_id_CSD' 5 2 'Structure model' '_citation.journal_id_ISSN' 6 2 'Structure model' '_citation.pdbx_database_id_PubMed' 7 2 'Structure model' '_citation.title' 8 3 'Structure model' '_citation.journal_volume' 9 3 'Structure model' '_citation.page_first' # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 8EX5 _em_3d_fitting.method ? _em_3d_fitting.target_criteria ? _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_space ? _em_3d_fitting.ref_protocol ? # _em_3d_reconstruction.entry_id 8EX5 _em_3d_reconstruction.id 1 _em_3d_reconstruction.method ? _em_3d_reconstruction.algorithm ? _em_3d_reconstruction.citation_id ? _em_3d_reconstruction.details ? _em_3d_reconstruction.resolution 3.47 _em_3d_reconstruction.resolution_method 'FSC 0.143 CUT-OFF' _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.num_particles 422542 _em_3d_reconstruction.euler_angles_details ? _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.symmetry_type POINT # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name ? _em_buffer.details ? _em_buffer.pH 7 # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.source RECOMBINANT _em_entity_assembly.type COMPLEX _em_entity_assembly.name 'Human S1P transporter Spns2 in an outward-facing open conformation (state 4)' _em_entity_assembly.details ? _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list 1 # _em_imaging.entry_id 8EX5 _em_imaging.id 1 _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.residual_tilt ? _em_imaging.microscope_model 'FEI TITAN KRIOS' _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model ? _em_imaging.details ? _em_imaging.date ? _em_imaging.accelerating_voltage 300 _em_imaging.illumination_mode OTHER _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs ? _em_imaging.nominal_defocus_min 600 _em_imaging.nominal_defocus_max 1600 _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_defocus_max ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_magnification ? _em_imaging.calibrated_magnification ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.citation_id ? _em_imaging.temperature ? _em_imaging.detector_distance ? _em_imaging.recording_temperature_minimum ? _em_imaging.recording_temperature_maximum ? _em_imaging.alignment_procedure ? _em_imaging.c2_aperture_diameter ? _em_imaging.specimen_id 1 _em_imaging.cryogen ? # _em_vitrification.entry_id 8EX5 _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity ? _em_vitrification.temp ? _em_vitrification.chamber_temperature ? _em_vitrification.instrument ? _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.details ? # _em_experiment.entry_id 8EX5 _em_experiment.id 1 _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.aggregation_state PARTICLE _em_experiment.entity_assembly_id 1 # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 OG A SER 186 ? ? O A LEU 263 ? ? 2.14 2 1 O A GLY 206 ? ? OG A SER 209 ? ? 2.18 # 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 256 ? ? -160.91 115.39 2 1 ALA A 418 ? ? 67.67 -5.06 3 1 ALA A 425 ? ? -140.01 10.94 4 1 TYR A 426 ? ? 58.73 6.14 # 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 LYS 285 ? A LYS 187 2 1 Y 1 A ARG 286 ? A ARG 188 3 1 Y 1 A GLY 287 ? A GLY 189 4 1 Y 1 A HIS 288 ? A HIS 190 5 1 Y 1 A ALA 289 ? A ALA 191 6 1 Y 1 A ASP 290 ? A ASP 192 7 1 Y 1 A GLN 291 ? A GLN 193 8 1 Y 1 A LEU 292 ? A LEU 194 9 1 Y 1 A GLY 293 ? A GLY 195 10 1 Y 1 A ASP 294 ? A ASP 196 11 1 Y 1 A GLN 295 ? A GLN 197 12 1 Y 1 A LEU 296 ? A LEU 198 13 1 Y 1 A LYS 297 ? A LYS 199 14 1 Y 1 A ALA 298 ? A ALA 200 15 1 Y 1 A ARG 299 ? A ARG 201 16 1 Y 1 A THR 300 ? A THR 202 17 1 Y 1 A THR 349 ? A THR 251 18 1 Y 1 A ALA 350 ? A ALA 252 19 1 Y 1 A GLU 351 ? A GLU 253 20 1 Y 1 A THR 352 ? A THR 254 21 1 Y 1 A CYS 353 ? A CYS 255 22 1 Y 1 A ASN 354 ? A ASN 256 23 1 Y 1 A SER 355 ? A SER 257 24 1 Y 1 A PRO 356 ? A PRO 258 25 1 Y 1 A PRO 357 ? A PRO 259 26 1 Y 1 A CYS 358 ? A CYS 260 27 1 Y 1 A GLY 359 ? A GLY 261 28 1 Y 1 A LEU 540 ? A LEU 442 29 1 Y 1 A ALA 541 ? A ALA 443 30 1 Y 1 A MET 542 ? A MET 444 31 1 Y 1 A PRO 543 ? A PRO 445 32 1 Y 1 A PRO 544 ? A PRO 446 33 1 Y 1 A ALA 545 ? A ALA 447 34 1 Y 1 A SER 546 ? A SER 448 35 1 Y 1 A VAL 547 ? A VAL 449 36 1 Y 1 A LYS 548 ? A LYS 450 37 1 Y 1 A VAL 549 ? A VAL 451 # _em_ctf_correction.details ? _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.id 1 _em_ctf_correction.type NONE # _em_entity_assembly_molwt.entity_assembly_id 1 _em_entity_assembly_molwt.experimental_flag NO _em_entity_assembly_molwt.id 1 _em_entity_assembly_molwt.units ? _em_entity_assembly_molwt.value ? # _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.id 2 _em_entity_assembly_naturalsource.ncbi_tax_id 9606 _em_entity_assembly_naturalsource.organism 'Homo sapiens' _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? # _em_entity_assembly_recombinant.cell ? _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.ncbi_tax_id 9606 _em_entity_assembly_recombinant.organism 'Homo sapiens' _em_entity_assembly_recombinant.plasmid ? _em_entity_assembly_recombinant.strain ? # _em_image_processing.details ? _em_image_processing.id 1 _em_image_processing.image_recording_id 1 # _em_image_recording.average_exposure_time ? _em_image_recording.avg_electron_dose_per_subtomogram ? _em_image_recording.avg_electron_dose_per_image 65 _em_image_recording.details ? _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'GATAN K3 (6k x 4k)' _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged ? _em_image_recording.num_real_images ? # loop_ _em_software.category _em_software.details _em_software.id _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id _em_software.name _em_software.version 'PARTICLE SELECTION' ? 1 1 ? ? ? ? 'IMAGE ACQUISITION' ? 2 ? ? 1 ? ? MASKING ? 3 ? ? ? ? ? 'CTF CORRECTION' ? 4 1 ? ? ? ? 'LAYERLINE INDEXING' ? 5 ? ? ? ? ? 'DIFFRACTION INDEXING' ? 6 ? ? ? ? ? 'MODEL FITTING' ? 7 ? ? ? ? ? 'MODEL REFINEMENT' ? 8 ? ? ? ? ? OTHER ? 9 ? ? ? ? ? 'INITIAL EULER ASSIGNMENT' ? 10 1 ? ? ? ? 'FINAL EULER ASSIGNMENT' ? 11 1 ? ? ? ? CLASSIFICATION ? 12 1 ? ? ? ? RECONSTRUCTION ? 13 1 ? ? ? ? # _em_specimen.concentration ? _em_specimen.details ? _em_specimen.embedding_applied NO _em_specimen.experiment_id 1 _em_specimen.id 1 _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied YES # _pdbx_audit_support.funding_organization 'National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number GM143282 _pdbx_audit_support.ordinal 1 # _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 ? #