data_8XD3 # _entry.id 8XD3 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.383 _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 8XD3 pdb_00008xd3 10.2210/pdb8xd3/pdb WWPDB D_1300043169 ? ? EMDB EMD-38264 ? ? # _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 2023-12-27 # _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 ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8XD3 _pdbx_database_status.recvd_initial_deposition_date 2023-12-10 _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 # _pdbx_database_related.db_name EMDB _pdbx_database_related.details 'Cryo-EM structure of glutamate dehydrogenase from thermococcus profundus incorporating NADP and GLU in the steady stage of reaction' _pdbx_database_related.db_id EMD-38264 _pdbx_database_related.content_type 'associated EM volume' # _pdbx_contact_author.id 2 _pdbx_contact_author.email nakasako@phys.keio.ac.jp _pdbx_contact_author.name_first Masayoshi _pdbx_contact_author.name_last Nakasako _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-1639-0173 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Wakabayashi, T.' 1 ? 'Oide, M.' 2 ? 'Nakasako, M.' 3 ? # _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 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'CryoEM-sampling of metastable conformations appearing in cofactor-ligand association and catalysis of glutamate dehydrogenase' _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Wakabayashi, T.' 1 ? primary 'Oide, M.' 2 ? primary 'Nakasako, M.' 3 ? # 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 'Glutamate dehydrogenase' 46758.477 1 1.4.1.3 ? ? ? 2 non-polymer syn 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' 743.405 1 ? ? ? ? 3 non-polymer syn 'GAMMA-L-GLUTAMIC ACID' 147.129 1 ? ? ? ? 4 water nat water 18.015 11 ? ? ? ? # _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 ;MVEIDPFEMAVKQLERAAQYMDISEEALEWLKKPMRIVEVSVPIEMDDGSVKVFTGFRVQHNWARGPTKGGIRWHPAETL STVKALATWMTWKVAVVDLPYGGGKGGIIVNPKELSEREQERLARAYIRAVYDVIGPWTDIPAPDVYTNPKIMGWMMDEY ETIMRRKGPAFGVITGKPLSIGGSLGRGTATAQGAIFTIREAAKALGIDLKGKKIAVQGYGNAGYYTAKLAKEQLGMTVV AVSDSRGGIYNPDGLDPDEVLKWKREHGSVKDFPGATNITNEELLELEVDVLAPAAIEEVITEKNADNIKAKIVAEVANG PVTPEADDILREKGILQIPDFLCNAGGVTVSYFEWVQNINGYYWTEEEVREKLDKKMTKAFWEVYNTHKDKNIHMRDAAY VVAVSRVYQAMKDRGWVKK ; _entity_poly.pdbx_seq_one_letter_code_can ;MVEIDPFEMAVKQLERAAQYMDISEEALEWLKKPMRIVEVSVPIEMDDGSVKVFTGFRVQHNWARGPTKGGIRWHPAETL STVKALATWMTWKVAVVDLPYGGGKGGIIVNPKELSEREQERLARAYIRAVYDVIGPWTDIPAPDVYTNPKIMGWMMDEY ETIMRRKGPAFGVITGKPLSIGGSLGRGTATAQGAIFTIREAAKALGIDLKGKKIAVQGYGNAGYYTAKLAKEQLGMTVV AVSDSRGGIYNPDGLDPDEVLKWKREHGSVKDFPGATNITNEELLELEVDVLAPAAIEEVITEKNADNIKAKIVAEVANG PVTPEADDILREKGILQIPDFLCNAGGVTVSYFEWVQNINGYYWTEEEVREKLDKKMTKAFWEVYNTHKDKNIHMRDAAY VVAVSRVYQAMKDRGWVKK ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' NAP 3 'GAMMA-L-GLUTAMIC ACID' GGL 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MET n 1 2 VAL n 1 3 GLU n 1 4 ILE n 1 5 ASP n 1 6 PRO n 1 7 PHE n 1 8 GLU n 1 9 MET n 1 10 ALA n 1 11 VAL n 1 12 LYS n 1 13 GLN n 1 14 LEU n 1 15 GLU n 1 16 ARG n 1 17 ALA n 1 18 ALA n 1 19 GLN n 1 20 TYR n 1 21 MET n 1 22 ASP n 1 23 ILE n 1 24 SER n 1 25 GLU n 1 26 GLU n 1 27 ALA n 1 28 LEU n 1 29 GLU n 1 30 TRP n 1 31 LEU n 1 32 LYS n 1 33 LYS n 1 34 PRO n 1 35 MET n 1 36 ARG n 1 37 ILE n 1 38 VAL n 1 39 GLU n 1 40 VAL n 1 41 SER n 1 42 VAL n 1 43 PRO n 1 44 ILE n 1 45 GLU n 1 46 MET n 1 47 ASP n 1 48 ASP n 1 49 GLY n 1 50 SER n 1 51 VAL n 1 52 LYS n 1 53 VAL n 1 54 PHE n 1 55 THR n 1 56 GLY n 1 57 PHE n 1 58 ARG n 1 59 VAL n 1 60 GLN n 1 61 HIS n 1 62 ASN n 1 63 TRP n 1 64 ALA n 1 65 ARG n 1 66 GLY n 1 67 PRO n 1 68 THR n 1 69 LYS n 1 70 GLY n 1 71 GLY n 1 72 ILE n 1 73 ARG n 1 74 TRP n 1 75 HIS n 1 76 PRO n 1 77 ALA n 1 78 GLU n 1 79 THR n 1 80 LEU n 1 81 SER n 1 82 THR n 1 83 VAL n 1 84 LYS n 1 85 ALA n 1 86 LEU n 1 87 ALA n 1 88 THR n 1 89 TRP n 1 90 MET n 1 91 THR n 1 92 TRP n 1 93 LYS n 1 94 VAL n 1 95 ALA n 1 96 VAL n 1 97 VAL n 1 98 ASP n 1 99 LEU n 1 100 PRO n 1 101 TYR n 1 102 GLY n 1 103 GLY n 1 104 GLY n 1 105 LYS n 1 106 GLY n 1 107 GLY n 1 108 ILE n 1 109 ILE n 1 110 VAL n 1 111 ASN n 1 112 PRO n 1 113 LYS n 1 114 GLU n 1 115 LEU n 1 116 SER n 1 117 GLU n 1 118 ARG n 1 119 GLU n 1 120 GLN n 1 121 GLU n 1 122 ARG n 1 123 LEU n 1 124 ALA n 1 125 ARG n 1 126 ALA n 1 127 TYR n 1 128 ILE n 1 129 ARG n 1 130 ALA n 1 131 VAL n 1 132 TYR n 1 133 ASP n 1 134 VAL n 1 135 ILE n 1 136 GLY n 1 137 PRO n 1 138 TRP n 1 139 THR n 1 140 ASP n 1 141 ILE n 1 142 PRO n 1 143 ALA n 1 144 PRO n 1 145 ASP n 1 146 VAL n 1 147 TYR n 1 148 THR n 1 149 ASN n 1 150 PRO n 1 151 LYS n 1 152 ILE n 1 153 MET n 1 154 GLY n 1 155 TRP n 1 156 MET n 1 157 MET n 1 158 ASP n 1 159 GLU n 1 160 TYR n 1 161 GLU n 1 162 THR n 1 163 ILE n 1 164 MET n 1 165 ARG n 1 166 ARG n 1 167 LYS n 1 168 GLY n 1 169 PRO n 1 170 ALA n 1 171 PHE n 1 172 GLY n 1 173 VAL n 1 174 ILE n 1 175 THR n 1 176 GLY n 1 177 LYS n 1 178 PRO n 1 179 LEU n 1 180 SER n 1 181 ILE n 1 182 GLY n 1 183 GLY n 1 184 SER n 1 185 LEU n 1 186 GLY n 1 187 ARG n 1 188 GLY n 1 189 THR n 1 190 ALA n 1 191 THR n 1 192 ALA n 1 193 GLN n 1 194 GLY n 1 195 ALA n 1 196 ILE n 1 197 PHE n 1 198 THR n 1 199 ILE n 1 200 ARG n 1 201 GLU n 1 202 ALA n 1 203 ALA n 1 204 LYS n 1 205 ALA n 1 206 LEU n 1 207 GLY n 1 208 ILE n 1 209 ASP n 1 210 LEU n 1 211 LYS n 1 212 GLY n 1 213 LYS n 1 214 LYS n 1 215 ILE n 1 216 ALA n 1 217 VAL n 1 218 GLN n 1 219 GLY n 1 220 TYR n 1 221 GLY n 1 222 ASN n 1 223 ALA n 1 224 GLY n 1 225 TYR n 1 226 TYR n 1 227 THR n 1 228 ALA n 1 229 LYS n 1 230 LEU n 1 231 ALA n 1 232 LYS n 1 233 GLU n 1 234 GLN n 1 235 LEU n 1 236 GLY n 1 237 MET n 1 238 THR n 1 239 VAL n 1 240 VAL n 1 241 ALA n 1 242 VAL n 1 243 SER n 1 244 ASP n 1 245 SER n 1 246 ARG n 1 247 GLY n 1 248 GLY n 1 249 ILE n 1 250 TYR n 1 251 ASN n 1 252 PRO n 1 253 ASP n 1 254 GLY n 1 255 LEU n 1 256 ASP n 1 257 PRO n 1 258 ASP n 1 259 GLU n 1 260 VAL n 1 261 LEU n 1 262 LYS n 1 263 TRP n 1 264 LYS n 1 265 ARG n 1 266 GLU n 1 267 HIS n 1 268 GLY n 1 269 SER n 1 270 VAL n 1 271 LYS n 1 272 ASP n 1 273 PHE n 1 274 PRO n 1 275 GLY n 1 276 ALA n 1 277 THR n 1 278 ASN n 1 279 ILE n 1 280 THR n 1 281 ASN n 1 282 GLU n 1 283 GLU n 1 284 LEU n 1 285 LEU n 1 286 GLU n 1 287 LEU n 1 288 GLU n 1 289 VAL n 1 290 ASP n 1 291 VAL n 1 292 LEU n 1 293 ALA n 1 294 PRO n 1 295 ALA n 1 296 ALA n 1 297 ILE n 1 298 GLU n 1 299 GLU n 1 300 VAL n 1 301 ILE n 1 302 THR n 1 303 GLU n 1 304 LYS n 1 305 ASN n 1 306 ALA n 1 307 ASP n 1 308 ASN n 1 309 ILE n 1 310 LYS n 1 311 ALA n 1 312 LYS n 1 313 ILE n 1 314 VAL n 1 315 ALA n 1 316 GLU n 1 317 VAL n 1 318 ALA n 1 319 ASN n 1 320 GLY n 1 321 PRO n 1 322 VAL n 1 323 THR n 1 324 PRO n 1 325 GLU n 1 326 ALA n 1 327 ASP n 1 328 ASP n 1 329 ILE n 1 330 LEU n 1 331 ARG n 1 332 GLU n 1 333 LYS n 1 334 GLY n 1 335 ILE n 1 336 LEU n 1 337 GLN n 1 338 ILE n 1 339 PRO n 1 340 ASP n 1 341 PHE n 1 342 LEU n 1 343 CYS n 1 344 ASN n 1 345 ALA n 1 346 GLY n 1 347 GLY n 1 348 VAL n 1 349 THR n 1 350 VAL n 1 351 SER n 1 352 TYR n 1 353 PHE n 1 354 GLU n 1 355 TRP n 1 356 VAL n 1 357 GLN n 1 358 ASN n 1 359 ILE n 1 360 ASN n 1 361 GLY n 1 362 TYR n 1 363 TYR n 1 364 TRP n 1 365 THR n 1 366 GLU n 1 367 GLU n 1 368 GLU n 1 369 VAL n 1 370 ARG n 1 371 GLU n 1 372 LYS n 1 373 LEU n 1 374 ASP n 1 375 LYS n 1 376 LYS n 1 377 MET n 1 378 THR n 1 379 LYS n 1 380 ALA n 1 381 PHE n 1 382 TRP n 1 383 GLU n 1 384 VAL n 1 385 TYR n 1 386 ASN n 1 387 THR n 1 388 HIS n 1 389 LYS n 1 390 ASP n 1 391 LYS n 1 392 ASN n 1 393 ILE n 1 394 HIS n 1 395 MET n 1 396 ARG n 1 397 ASP n 1 398 ALA n 1 399 ALA n 1 400 TYR n 1 401 VAL n 1 402 VAL n 1 403 ALA n 1 404 VAL n 1 405 SER n 1 406 ARG n 1 407 VAL n 1 408 TYR n 1 409 GLN n 1 410 ALA n 1 411 MET n 1 412 LYS n 1 413 ASP n 1 414 ARG n 1 415 GLY n 1 416 TRP n 1 417 VAL n 1 418 LYS n 1 419 LYS 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 419 _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene gdhA _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 'Thermococcus profundus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 49899 _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 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _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 ? # 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 GGL 'L-gamma-peptide, C-delta linking' . 'GAMMA-L-GLUTAMIC ACID' 'L-GLUTAMIC ACID' 'C5 H9 N O4' 147.129 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 HOH non-polymer . WATER ? 'H2 O' 18.015 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 NAP non-polymer . 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' ;2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE ; 'C21 H28 N7 O17 P3' 743.405 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 # 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 MET 1 1 ? ? ? A . n A 1 2 VAL 2 2 2 VAL VAL A . n A 1 3 GLU 3 3 3 GLU GLU A . n A 1 4 ILE 4 4 4 ILE ILE A . n A 1 5 ASP 5 5 5 ASP ASP A . n A 1 6 PRO 6 6 6 PRO PRO A . n A 1 7 PHE 7 7 7 PHE PHE A . n A 1 8 GLU 8 8 8 GLU GLU A . n A 1 9 MET 9 9 9 MET MET A . n A 1 10 ALA 10 10 10 ALA ALA A . n A 1 11 VAL 11 11 11 VAL VAL A . n A 1 12 LYS 12 12 12 LYS LYS A . n A 1 13 GLN 13 13 13 GLN GLN A . n A 1 14 LEU 14 14 14 LEU LEU A . n A 1 15 GLU 15 15 15 GLU GLU A . n A 1 16 ARG 16 16 16 ARG ARG A . n A 1 17 ALA 17 17 17 ALA ALA A . n A 1 18 ALA 18 18 18 ALA ALA A . n A 1 19 GLN 19 19 19 GLN GLN A . n A 1 20 TYR 20 20 20 TYR TYR A . n A 1 21 MET 21 21 21 MET MET A . n A 1 22 ASP 22 22 22 ASP ASP A . n A 1 23 ILE 23 23 23 ILE ILE A . n A 1 24 SER 24 24 24 SER SER A . n A 1 25 GLU 25 25 25 GLU GLU A . n A 1 26 GLU 26 26 26 GLU GLU A . n A 1 27 ALA 27 27 27 ALA ALA A . n A 1 28 LEU 28 28 28 LEU LEU A . n A 1 29 GLU 29 29 29 GLU GLU A . n A 1 30 TRP 30 30 30 TRP TRP A . n A 1 31 LEU 31 31 31 LEU LEU A . n A 1 32 LYS 32 32 32 LYS LYS A . n A 1 33 LYS 33 33 33 LYS LYS A . n A 1 34 PRO 34 34 34 PRO PRO A . n A 1 35 MET 35 35 35 MET MET A . n A 1 36 ARG 36 36 36 ARG ARG A . n A 1 37 ILE 37 37 37 ILE ILE A . n A 1 38 VAL 38 38 38 VAL VAL A . n A 1 39 GLU 39 39 39 GLU GLU A . n A 1 40 VAL 40 40 40 VAL VAL A . n A 1 41 SER 41 41 41 SER SER A . n A 1 42 VAL 42 42 42 VAL VAL A . n A 1 43 PRO 43 43 43 PRO PRO A . n A 1 44 ILE 44 44 44 ILE ILE A . n A 1 45 GLU 45 45 45 GLU GLU A . n A 1 46 MET 46 46 46 MET MET A . n A 1 47 ASP 47 47 47 ASP ASP A . n A 1 48 ASP 48 48 48 ASP ASP A . n A 1 49 GLY 49 49 49 GLY GLY A . n A 1 50 SER 50 50 50 SER SER A . n A 1 51 VAL 51 51 51 VAL VAL A . n A 1 52 LYS 52 52 52 LYS LYS A . n A 1 53 VAL 53 53 53 VAL VAL A . n A 1 54 PHE 54 54 54 PHE PHE A . n A 1 55 THR 55 55 55 THR THR A . n A 1 56 GLY 56 56 56 GLY GLY A . n A 1 57 PHE 57 57 57 PHE PHE A . n A 1 58 ARG 58 58 58 ARG ARG A . n A 1 59 VAL 59 59 59 VAL VAL A . n A 1 60 GLN 60 60 60 GLN GLN A . n A 1 61 HIS 61 61 61 HIS HIS A . n A 1 62 ASN 62 62 62 ASN ASN A . n A 1 63 TRP 63 63 63 TRP TRP A . n A 1 64 ALA 64 64 64 ALA ALA A . n A 1 65 ARG 65 65 65 ARG ARG A . n A 1 66 GLY 66 66 66 GLY GLY A . n A 1 67 PRO 67 67 67 PRO PRO A . n A 1 68 THR 68 68 68 THR THR A . n A 1 69 LYS 69 69 69 LYS LYS A . n A 1 70 GLY 70 70 70 GLY GLY A . n A 1 71 GLY 71 71 71 GLY GLY A . n A 1 72 ILE 72 72 72 ILE ILE A . n A 1 73 ARG 73 73 73 ARG ARG A . n A 1 74 TRP 74 74 74 TRP TRP A . n A 1 75 HIS 75 75 75 HIS HIS A . n A 1 76 PRO 76 76 76 PRO PRO A . n A 1 77 ALA 77 77 77 ALA ALA A . n A 1 78 GLU 78 78 78 GLU GLU A . n A 1 79 THR 79 79 79 THR THR A . n A 1 80 LEU 80 80 80 LEU LEU A . n A 1 81 SER 81 81 81 SER SER A . n A 1 82 THR 82 82 82 THR THR A . n A 1 83 VAL 83 83 83 VAL VAL A . n A 1 84 LYS 84 84 84 LYS LYS A . n A 1 85 ALA 85 85 85 ALA ALA A . n A 1 86 LEU 86 86 86 LEU LEU A . n A 1 87 ALA 87 87 87 ALA ALA A . n A 1 88 THR 88 88 88 THR THR A . n A 1 89 TRP 89 89 89 TRP TRP A . n A 1 90 MET 90 90 90 MET MET A . n A 1 91 THR 91 91 91 THR THR A . n A 1 92 TRP 92 92 92 TRP TRP A . n A 1 93 LYS 93 93 93 LYS LYS A . n A 1 94 VAL 94 94 94 VAL VAL A . n A 1 95 ALA 95 95 95 ALA ALA A . n A 1 96 VAL 96 96 96 VAL VAL A . n A 1 97 VAL 97 97 97 VAL VAL A . n A 1 98 ASP 98 98 98 ASP ASP A . n A 1 99 LEU 99 99 99 LEU LEU A . n A 1 100 PRO 100 100 100 PRO PRO A . n A 1 101 TYR 101 101 101 TYR TYR A . n A 1 102 GLY 102 102 102 GLY GLY A . n A 1 103 GLY 103 103 103 GLY GLY A . n A 1 104 GLY 104 104 104 GLY GLY A . n A 1 105 LYS 105 105 105 LYS LYS A . n A 1 106 GLY 106 106 106 GLY GLY A . n A 1 107 GLY 107 107 107 GLY GLY A . n A 1 108 ILE 108 108 108 ILE ILE A . n A 1 109 ILE 109 109 109 ILE ILE A . n A 1 110 VAL 110 110 110 VAL VAL A . n A 1 111 ASN 111 111 111 ASN ASN A . n A 1 112 PRO 112 112 112 PRO PRO A . n A 1 113 LYS 113 113 113 LYS LYS A . n A 1 114 GLU 114 114 114 GLU GLU A . n A 1 115 LEU 115 115 115 LEU LEU A . n A 1 116 SER 116 116 116 SER SER A . n A 1 117 GLU 117 117 117 GLU GLU A . n A 1 118 ARG 118 118 118 ARG ARG A . n A 1 119 GLU 119 119 119 GLU GLU A . n A 1 120 GLN 120 120 120 GLN GLN A . n A 1 121 GLU 121 121 121 GLU GLU A . n A 1 122 ARG 122 122 122 ARG ARG A . n A 1 123 LEU 123 123 123 LEU LEU A . n A 1 124 ALA 124 124 124 ALA ALA A . n A 1 125 ARG 125 125 125 ARG ARG A . n A 1 126 ALA 126 126 126 ALA ALA A . n A 1 127 TYR 127 127 127 TYR TYR A . n A 1 128 ILE 128 128 128 ILE ILE A . n A 1 129 ARG 129 129 129 ARG ARG A . n A 1 130 ALA 130 130 130 ALA ALA A . n A 1 131 VAL 131 131 131 VAL VAL A . n A 1 132 TYR 132 132 132 TYR TYR A . n A 1 133 ASP 133 133 133 ASP ASP A . n A 1 134 VAL 134 134 134 VAL VAL A . n A 1 135 ILE 135 135 135 ILE ILE A . n A 1 136 GLY 136 136 136 GLY GLY A . n A 1 137 PRO 137 137 137 PRO PRO A . n A 1 138 TRP 138 138 138 TRP TRP A . n A 1 139 THR 139 139 139 THR THR A . n A 1 140 ASP 140 140 140 ASP ASP A . n A 1 141 ILE 141 141 141 ILE ILE A . n A 1 142 PRO 142 142 142 PRO PRO A . n A 1 143 ALA 143 143 143 ALA ALA A . n A 1 144 PRO 144 144 144 PRO PRO A . n A 1 145 ASP 145 145 145 ASP ASP A . n A 1 146 VAL 146 146 146 VAL VAL A . n A 1 147 TYR 147 147 147 TYR TYR A . n A 1 148 THR 148 148 148 THR THR A . n A 1 149 ASN 149 149 149 ASN ASN A . n A 1 150 PRO 150 150 150 PRO PRO A . n A 1 151 LYS 151 151 151 LYS LYS A . n A 1 152 ILE 152 152 152 ILE ILE A . n A 1 153 MET 153 153 153 MET MET A . n A 1 154 GLY 154 154 154 GLY GLY A . n A 1 155 TRP 155 155 155 TRP TRP A . n A 1 156 MET 156 156 156 MET MET A . n A 1 157 MET 157 157 157 MET MET A . n A 1 158 ASP 158 158 158 ASP ASP A . n A 1 159 GLU 159 159 159 GLU GLU A . n A 1 160 TYR 160 160 160 TYR TYR A . n A 1 161 GLU 161 161 161 GLU GLU A . n A 1 162 THR 162 162 162 THR THR A . n A 1 163 ILE 163 163 163 ILE ILE A . n A 1 164 MET 164 164 164 MET MET A . n A 1 165 ARG 165 165 165 ARG ARG A . n A 1 166 ARG 166 166 166 ARG ARG A . n A 1 167 LYS 167 167 167 LYS LYS A . n A 1 168 GLY 168 168 168 GLY GLY A . n A 1 169 PRO 169 169 169 PRO PRO A . n A 1 170 ALA 170 170 170 ALA ALA A . n A 1 171 PHE 171 171 171 PHE PHE A . n A 1 172 GLY 172 172 172 GLY GLY A . n A 1 173 VAL 173 173 173 VAL VAL A . n A 1 174 ILE 174 174 174 ILE ILE A . n A 1 175 THR 175 175 175 THR THR A . n A 1 176 GLY 176 176 176 GLY GLY A . n A 1 177 LYS 177 177 177 LYS LYS A . n A 1 178 PRO 178 178 178 PRO PRO A . n A 1 179 LEU 179 179 179 LEU LEU A . n A 1 180 SER 180 180 180 SER SER A . n A 1 181 ILE 181 181 181 ILE ILE A . n A 1 182 GLY 182 182 182 GLY GLY A . n A 1 183 GLY 183 183 183 GLY GLY A . n A 1 184 SER 184 184 184 SER SER A . n A 1 185 LEU 185 185 185 LEU LEU A . n A 1 186 GLY 186 186 186 GLY GLY A . n A 1 187 ARG 187 187 187 ARG ARG A . n A 1 188 GLY 188 188 188 GLY GLY A . n A 1 189 THR 189 189 189 THR THR A . n A 1 190 ALA 190 190 190 ALA ALA A . n A 1 191 THR 191 191 191 THR THR A . n A 1 192 ALA 192 192 192 ALA ALA A . n A 1 193 GLN 193 193 193 GLN GLN A . n A 1 194 GLY 194 194 194 GLY GLY A . n A 1 195 ALA 195 195 195 ALA ALA A . n A 1 196 ILE 196 196 196 ILE ILE A . n A 1 197 PHE 197 197 197 PHE PHE A . n A 1 198 THR 198 198 198 THR THR A . n A 1 199 ILE 199 199 199 ILE ILE A . n A 1 200 ARG 200 200 200 ARG ARG A . n A 1 201 GLU 201 201 201 GLU GLU A . n A 1 202 ALA 202 202 202 ALA ALA A . n A 1 203 ALA 203 203 203 ALA ALA A . n A 1 204 LYS 204 204 204 LYS LYS A . n A 1 205 ALA 205 205 205 ALA ALA A . n A 1 206 LEU 206 206 206 LEU LEU A . n A 1 207 GLY 207 207 207 GLY GLY A . n A 1 208 ILE 208 208 208 ILE ILE A . n A 1 209 ASP 209 209 209 ASP ASP A . n A 1 210 LEU 210 210 210 LEU LEU A . n A 1 211 LYS 211 211 211 LYS LYS A . n A 1 212 GLY 212 212 212 GLY GLY A . n A 1 213 LYS 213 213 213 LYS LYS A . n A 1 214 LYS 214 214 214 LYS LYS A . n A 1 215 ILE 215 215 215 ILE ILE A . n A 1 216 ALA 216 216 216 ALA ALA A . n A 1 217 VAL 217 217 217 VAL VAL A . n A 1 218 GLN 218 218 218 GLN GLN A . n A 1 219 GLY 219 219 219 GLY GLY A . n A 1 220 TYR 220 220 220 TYR TYR A . n A 1 221 GLY 221 221 221 GLY GLY A . n A 1 222 ASN 222 222 222 ASN ASN A . n A 1 223 ALA 223 223 223 ALA ALA A . n A 1 224 GLY 224 224 224 GLY GLY A . n A 1 225 TYR 225 225 225 TYR TYR A . n A 1 226 TYR 226 226 226 TYR TYR A . n A 1 227 THR 227 227 227 THR THR A . n A 1 228 ALA 228 228 228 ALA ALA A . n A 1 229 LYS 229 229 229 LYS LYS A . n A 1 230 LEU 230 230 230 LEU LEU A . n A 1 231 ALA 231 231 231 ALA ALA A . n A 1 232 LYS 232 232 232 LYS LYS A . n A 1 233 GLU 233 233 233 GLU GLU A . n A 1 234 GLN 234 234 234 GLN GLN A . n A 1 235 LEU 235 235 235 LEU LEU A . n A 1 236 GLY 236 236 236 GLY GLY A . n A 1 237 MET 237 237 237 MET MET A . n A 1 238 THR 238 238 238 THR THR A . n A 1 239 VAL 239 239 239 VAL VAL A . n A 1 240 VAL 240 240 240 VAL VAL A . n A 1 241 ALA 241 241 241 ALA ALA A . n A 1 242 VAL 242 242 242 VAL VAL A . n A 1 243 SER 243 243 243 SER SER A . n A 1 244 ASP 244 244 244 ASP ASP A . n A 1 245 SER 245 245 245 SER SER A . n A 1 246 ARG 246 246 246 ARG ARG A . n A 1 247 GLY 247 247 247 GLY GLY A . n A 1 248 GLY 248 248 248 GLY GLY A . n A 1 249 ILE 249 249 249 ILE ILE A . n A 1 250 TYR 250 250 250 TYR TYR A . n A 1 251 ASN 251 251 251 ASN ASN A . n A 1 252 PRO 252 252 252 PRO PRO A . n A 1 253 ASP 253 253 253 ASP ASP A . n A 1 254 GLY 254 254 254 GLY GLY A . n A 1 255 LEU 255 255 255 LEU LEU A . n A 1 256 ASP 256 256 256 ASP ASP A . n A 1 257 PRO 257 257 257 PRO PRO A . n A 1 258 ASP 258 258 258 ASP ASP A . n A 1 259 GLU 259 259 259 GLU GLU A . n A 1 260 VAL 260 260 260 VAL VAL A . n A 1 261 LEU 261 261 261 LEU LEU A . n A 1 262 LYS 262 262 262 LYS LYS A . n A 1 263 TRP 263 263 263 TRP TRP A . n A 1 264 LYS 264 264 264 LYS LYS A . n A 1 265 ARG 265 265 265 ARG ARG A . n A 1 266 GLU 266 266 266 GLU GLU A . n A 1 267 HIS 267 267 267 HIS HIS A . n A 1 268 GLY 268 268 268 GLY GLY A . n A 1 269 SER 269 269 269 SER SER A . n A 1 270 VAL 270 270 270 VAL VAL A . n A 1 271 LYS 271 271 271 LYS LYS A . n A 1 272 ASP 272 272 272 ASP ASP A . n A 1 273 PHE 273 273 273 PHE PHE A . n A 1 274 PRO 274 274 274 PRO PRO A . n A 1 275 GLY 275 275 275 GLY GLY A . n A 1 276 ALA 276 276 276 ALA ALA A . n A 1 277 THR 277 277 277 THR THR A . n A 1 278 ASN 278 278 278 ASN ASN A . n A 1 279 ILE 279 279 279 ILE ILE A . n A 1 280 THR 280 280 280 THR THR A . n A 1 281 ASN 281 281 281 ASN ASN A . n A 1 282 GLU 282 282 282 GLU GLU A . n A 1 283 GLU 283 283 283 GLU GLU A . n A 1 284 LEU 284 284 284 LEU LEU A . n A 1 285 LEU 285 285 285 LEU LEU A . n A 1 286 GLU 286 286 286 GLU GLU A . n A 1 287 LEU 287 287 287 LEU LEU A . n A 1 288 GLU 288 288 288 GLU GLU A . n A 1 289 VAL 289 289 289 VAL VAL A . n A 1 290 ASP 290 290 290 ASP ASP A . n A 1 291 VAL 291 291 291 VAL VAL A . n A 1 292 LEU 292 292 292 LEU LEU A . n A 1 293 ALA 293 293 293 ALA ALA A . n A 1 294 PRO 294 294 294 PRO PRO A . n A 1 295 ALA 295 295 295 ALA ALA A . n A 1 296 ALA 296 296 296 ALA ALA A . n A 1 297 ILE 297 297 297 ILE ILE A . n A 1 298 GLU 298 298 298 GLU GLU A . n A 1 299 GLU 299 299 299 GLU GLU A . n A 1 300 VAL 300 300 300 VAL VAL A . n A 1 301 ILE 301 301 301 ILE ILE A . n A 1 302 THR 302 302 302 THR THR A . n A 1 303 GLU 303 303 303 GLU GLU A . n A 1 304 LYS 304 304 304 LYS LYS A . n A 1 305 ASN 305 305 305 ASN ASN A . n A 1 306 ALA 306 306 306 ALA ALA A . n A 1 307 ASP 307 307 307 ASP ASP A . n A 1 308 ASN 308 308 308 ASN ASN A . n A 1 309 ILE 309 309 309 ILE ILE A . n A 1 310 LYS 310 310 310 LYS LYS A . n A 1 311 ALA 311 311 311 ALA ALA A . n A 1 312 LYS 312 312 312 LYS LYS A . n A 1 313 ILE 313 313 313 ILE ILE A . n A 1 314 VAL 314 314 314 VAL VAL A . n A 1 315 ALA 315 315 315 ALA ALA A . n A 1 316 GLU 316 316 316 GLU GLU A . n A 1 317 VAL 317 317 317 VAL VAL A . n A 1 318 ALA 318 318 318 ALA ALA A . n A 1 319 ASN 319 319 319 ASN ASN A . n A 1 320 GLY 320 320 320 GLY GLY A . n A 1 321 PRO 321 321 321 PRO PRO A . n A 1 322 VAL 322 322 322 VAL VAL A . n A 1 323 THR 323 323 323 THR THR A . n A 1 324 PRO 324 324 324 PRO PRO A . n A 1 325 GLU 325 325 325 GLU GLU A . n A 1 326 ALA 326 326 326 ALA ALA A . n A 1 327 ASP 327 327 327 ASP ASP A . n A 1 328 ASP 328 328 328 ASP ASP A . n A 1 329 ILE 329 329 329 ILE ILE A . n A 1 330 LEU 330 330 330 LEU LEU A . n A 1 331 ARG 331 331 331 ARG ARG A . n A 1 332 GLU 332 332 332 GLU GLU A . n A 1 333 LYS 333 333 333 LYS LYS A . n A 1 334 GLY 334 334 334 GLY GLY A . n A 1 335 ILE 335 335 335 ILE ILE A . n A 1 336 LEU 336 336 336 LEU LEU A . n A 1 337 GLN 337 337 337 GLN GLN A . n A 1 338 ILE 338 338 338 ILE ILE A . n A 1 339 PRO 339 339 339 PRO PRO A . n A 1 340 ASP 340 340 340 ASP ASP A . n A 1 341 PHE 341 341 341 PHE PHE A . n A 1 342 LEU 342 342 342 LEU LEU A . n A 1 343 CYS 343 343 343 CYS CYS A . n A 1 344 ASN 344 344 344 ASN ASN A . n A 1 345 ALA 345 345 345 ALA ALA A . n A 1 346 GLY 346 346 346 GLY GLY A . n A 1 347 GLY 347 347 347 GLY GLY A . n A 1 348 VAL 348 348 348 VAL VAL A . n A 1 349 THR 349 349 349 THR THR A . n A 1 350 VAL 350 350 350 VAL VAL A . n A 1 351 SER 351 351 351 SER SER A . n A 1 352 TYR 352 352 352 TYR TYR A . n A 1 353 PHE 353 353 353 PHE PHE A . n A 1 354 GLU 354 354 354 GLU GLU A . n A 1 355 TRP 355 355 355 TRP TRP A . n A 1 356 VAL 356 356 356 VAL VAL A . n A 1 357 GLN 357 357 357 GLN GLN A . n A 1 358 ASN 358 358 358 ASN ASN A . n A 1 359 ILE 359 359 359 ILE ILE A . n A 1 360 ASN 360 360 360 ASN ASN A . n A 1 361 GLY 361 361 361 GLY GLY A . n A 1 362 TYR 362 362 362 TYR TYR A . n A 1 363 TYR 363 363 363 TYR TYR A . n A 1 364 TRP 364 364 364 TRP TRP A . n A 1 365 THR 365 365 365 THR THR A . n A 1 366 GLU 366 366 366 GLU GLU A . n A 1 367 GLU 367 367 367 GLU GLU A . n A 1 368 GLU 368 368 368 GLU GLU A . n A 1 369 VAL 369 369 369 VAL VAL A . n A 1 370 ARG 370 370 370 ARG ARG A . n A 1 371 GLU 371 371 371 GLU GLU A . n A 1 372 LYS 372 372 372 LYS LYS A . n A 1 373 LEU 373 373 373 LEU LEU A . n A 1 374 ASP 374 374 374 ASP ASP A . n A 1 375 LYS 375 375 375 LYS LYS A . n A 1 376 LYS 376 376 376 LYS LYS A . n A 1 377 MET 377 377 377 MET MET A . n A 1 378 THR 378 378 378 THR THR A . n A 1 379 LYS 379 379 379 LYS LYS A . n A 1 380 ALA 380 380 380 ALA ALA A . n A 1 381 PHE 381 381 381 PHE PHE A . n A 1 382 TRP 382 382 382 TRP TRP A . n A 1 383 GLU 383 383 383 GLU GLU A . n A 1 384 VAL 384 384 384 VAL VAL A . n A 1 385 TYR 385 385 385 TYR TYR A . n A 1 386 ASN 386 386 386 ASN ASN A . n A 1 387 THR 387 387 387 THR THR A . n A 1 388 HIS 388 388 388 HIS HIS A . n A 1 389 LYS 389 389 389 LYS LYS A . n A 1 390 ASP 390 390 390 ASP ASP A . n A 1 391 LYS 391 391 391 LYS LYS A . n A 1 392 ASN 392 392 392 ASN ASN A . n A 1 393 ILE 393 393 393 ILE ILE A . n A 1 394 HIS 394 394 394 HIS HIS A . n A 1 395 MET 395 395 395 MET MET A . n A 1 396 ARG 396 396 396 ARG ARG A . n A 1 397 ASP 397 397 397 ASP ASP A . n A 1 398 ALA 398 398 398 ALA ALA A . n A 1 399 ALA 399 399 399 ALA ALA A . n A 1 400 TYR 400 400 400 TYR TYR A . n A 1 401 VAL 401 401 401 VAL VAL A . n A 1 402 VAL 402 402 402 VAL VAL A . n A 1 403 ALA 403 403 403 ALA ALA A . n A 1 404 VAL 404 404 404 VAL VAL A . n A 1 405 SER 405 405 405 SER SER A . n A 1 406 ARG 406 406 406 ARG ARG A . n A 1 407 VAL 407 407 407 VAL VAL A . n A 1 408 TYR 408 408 408 TYR TYR A . n A 1 409 GLN 409 409 409 GLN GLN A . n A 1 410 ALA 410 410 410 ALA ALA A . n A 1 411 MET 411 411 411 MET MET A . n A 1 412 LYS 412 412 412 LYS LYS A . n A 1 413 ASP 413 413 413 ASP ASP A . n A 1 414 ARG 414 414 414 ARG ARG A . n A 1 415 GLY 415 415 415 GLY GLY A . n A 1 416 TRP 416 416 416 TRP TRP A . n A 1 417 VAL 417 417 417 VAL VAL A . n A 1 418 LYS 418 418 418 LYS LYS A . n A 1 419 LYS 419 419 419 LYS LYS A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 NAP 1 500 500 NAP NAP A . C 3 GGL 1 501 501 GGL GGL A . D 4 HOH 1 601 609 HOH HOH A . D 4 HOH 2 602 603 HOH HOH A . D 4 HOH 3 603 601 HOH HOH A . D 4 HOH 4 604 608 HOH HOH A . D 4 HOH 5 605 606 HOH HOH A . D 4 HOH 6 606 602 HOH HOH A . D 4 HOH 7 607 607 HOH HOH A . D 4 HOH 8 608 611 HOH HOH A . D 4 HOH 9 609 605 HOH HOH A . D 4 HOH 10 610 604 HOH HOH A . D 4 HOH 11 611 610 HOH HOH A . # 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 LYS 271 ? CG ? A LYS 271 CG 2 1 Y 1 A LYS 271 ? CD ? A LYS 271 CD 3 1 Y 1 A LYS 271 ? CE ? A LYS 271 CE 4 1 Y 1 A LYS 271 ? NZ ? A LYS 271 NZ 5 1 N 1 A NAP 500 ? O4D ? B NAP 1 O4D 6 1 N 1 A NAP 500 ? C3D ? B NAP 1 C3D 7 1 N 1 A NAP 500 ? O3D ? B NAP 1 O3D 8 1 N 1 A NAP 500 ? C2D ? B NAP 1 C2D 9 1 N 1 A NAP 500 ? O2D ? B NAP 1 O2D 10 1 N 1 A NAP 500 ? C1D ? B NAP 1 C1D 11 1 N 1 A NAP 500 ? N1N ? B NAP 1 N1N 12 1 N 1 A NAP 500 ? C2N ? B NAP 1 C2N 13 1 N 1 A NAP 500 ? C3N ? B NAP 1 C3N 14 1 N 1 A NAP 500 ? C7N ? B NAP 1 C7N 15 1 N 1 A NAP 500 ? O7N ? B NAP 1 O7N 16 1 N 1 A NAP 500 ? N7N ? B NAP 1 N7N 17 1 N 1 A NAP 500 ? C4N ? B NAP 1 C4N 18 1 N 1 A NAP 500 ? C5N ? B NAP 1 C5N 19 1 N 1 A NAP 500 ? C6N ? B NAP 1 C6N # _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 8XD3 _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 8XD3 _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 ? # _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 8XD3 _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.entry_id 8XD3 _refine.pdbx_diffrn_id ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low ? _refine.ls_d_res_high . _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # 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' ? 0.002 ? 3299 ? f_bond_d ? ? 'ELECTRON MICROSCOPY' ? 0.448 ? 4481 ? f_angle_d ? ? 'ELECTRON MICROSCOPY' ? 3.502 ? 450 ? f_dihedral_angle_d ? ? 'ELECTRON MICROSCOPY' ? 0.042 ? 493 ? f_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.004 ? 576 ? f_plane_restr ? ? # _struct.entry_id 8XD3 _struct.title 'Cryo-EM structure of Glutamate dehydrogenase from Thermococcus profundus incorporating NADP and GLU in the steady stage of reaction' _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 8XD3 _struct_keywords.text 'Complex, Coenzyme, NADP, Glutamate, OXIDOREDUCTASE' _struct_keywords.pdbx_keywords OXIDOREDUCTASE # 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 ? C N N 3 ? D N N 4 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code DHE3_THEPR _struct_ref.pdbx_db_accession O74024 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MVEIDPFEMAVKQLERAAQYMDISEEALEWLKKPMRIVEVSVPIEMDDGSVKVFTGFRVQHNWARGPTKGGIRWHPAETL STVKALATWMTWKVAVVDLPYGGGKGGIIVNPKELSEREQERLARAYIRAVYDVIGPWTDIPAPDVYTNPKIMGWMMDEY ETIMRRKGPAFGVITGKPLSIGGSLGRGTATAQGAIFTIREAAKALGIDLKGKKIAVQGYGNAGYYTAKLAKEQLGMTVV AVSDSRGGIYNPDGLDPDEVLKWKREHGSVKDFPGATNITNEELLELEVDVLAPAAIEEVITEKNADNIKAKIVAEVANG PVTPEADDILREKGILQIPDFLCNAGGVTVSYFEWVQNINGYYWTEEEVREKLDKKMTKAFWEVYNTHKDKNIHMRDAAY VVAVSRVYQAMKDRGWVKK ; _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 8XD3 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 419 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession O74024 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 419 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 419 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_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,C,D # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'electron microscopy' _pdbx_struct_assembly_auth_evidence.details 'not applicable' # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0 _pdbx_struct_oper_list.matrix[1][2] 0.0 _pdbx_struct_oper_list.matrix[1][3] 0.0 _pdbx_struct_oper_list.vector[1] 0.0 _pdbx_struct_oper_list.matrix[2][1] 0.0 _pdbx_struct_oper_list.matrix[2][2] 1.0 _pdbx_struct_oper_list.matrix[2][3] 0.0 _pdbx_struct_oper_list.vector[2] 0.0 _pdbx_struct_oper_list.matrix[3][1] 0.0 _pdbx_struct_oper_list.matrix[3][2] 0.0 _pdbx_struct_oper_list.matrix[3][3] 1.0 _pdbx_struct_oper_list.vector[3] 0.0 # 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 ASP A 5 ? GLN A 19 ? ASP A 5 GLN A 19 1 ? 15 HELX_P HELX_P2 AA2 SER A 24 ? LYS A 32 ? SER A 24 LYS A 32 1 ? 9 HELX_P HELX_P3 AA3 THR A 79 ? VAL A 97 ? THR A 79 VAL A 97 1 ? 19 HELX_P HELX_P4 AA4 ASN A 111 ? LEU A 115 ? ASN A 111 LEU A 115 5 ? 5 HELX_P HELX_P5 AA5 SER A 116 ? TYR A 132 ? SER A 116 TYR A 132 1 ? 17 HELX_P HELX_P6 AA6 ASP A 133 ? ILE A 135 ? ASP A 133 ILE A 135 5 ? 3 HELX_P HELX_P7 AA7 ASN A 149 ? ARG A 165 ? ASN A 149 ARG A 165 1 ? 17 HELX_P HELX_P8 AA8 PRO A 169 ? ILE A 174 ? PRO A 169 ILE A 174 5 ? 6 HELX_P HELX_P9 AA9 THR A 189 ? GLY A 207 ? THR A 189 GLY A 207 1 ? 19 HELX_P HELX_P10 AB1 GLY A 221 ? LEU A 235 ? GLY A 221 LEU A 235 1 ? 15 HELX_P HELX_P11 AB2 ASP A 256 ? GLY A 268 ? ASP A 256 GLY A 268 1 ? 13 HELX_P HELX_P12 AB3 THR A 280 ? LEU A 285 ? THR A 280 LEU A 285 1 ? 6 HELX_P HELX_P13 AB4 THR A 302 ? ASP A 307 ? THR A 302 ASP A 307 1 ? 6 HELX_P HELX_P14 AB5 THR A 323 ? LYS A 333 ? THR A 323 LYS A 333 1 ? 11 HELX_P HELX_P15 AB6 PRO A 339 ? ASN A 344 ? PRO A 339 ASN A 344 1 ? 6 HELX_P HELX_P16 AB7 ALA A 345 ? GLY A 361 ? ALA A 345 GLY A 361 1 ? 17 HELX_P HELX_P17 AB8 THR A 365 ? LYS A 391 ? THR A 365 LYS A 391 1 ? 27 HELX_P HELX_P18 AB9 HIS A 394 ? ARG A 414 ? HIS A 394 ARG A 414 1 ? 21 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 4 ? AA2 ? 5 ? AA3 ? 7 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense AA1 1 2 ? anti-parallel AA1 2 3 ? anti-parallel AA1 3 4 ? parallel AA2 1 2 ? anti-parallel AA2 2 3 ? anti-parallel AA2 3 4 ? parallel AA2 4 5 ? parallel AA3 1 2 ? anti-parallel AA3 2 3 ? anti-parallel AA3 3 4 ? parallel AA3 4 5 ? parallel AA3 5 6 ? parallel AA3 6 7 ? parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id AA1 1 ARG A 36 ? GLU A 45 ? ARG A 36 GLU A 45 AA1 2 VAL A 51 ? ASN A 62 ? VAL A 51 ASN A 62 AA1 3 GLY A 102 ? ILE A 109 ? GLY A 102 ILE A 109 AA1 4 ILE A 72 ? HIS A 75 ? ILE A 72 HIS A 75 AA2 1 ARG A 36 ? GLU A 45 ? ARG A 36 GLU A 45 AA2 2 VAL A 51 ? ASN A 62 ? VAL A 51 ASN A 62 AA2 3 GLY A 102 ? ILE A 109 ? GLY A 102 ILE A 109 AA2 4 THR A 68 ? LYS A 69 ? THR A 68 LYS A 69 AA2 5 ASP A 140 ? ILE A 141 ? ASP A 140 ILE A 141 AA3 1 THR A 277 ? ILE A 279 ? THR A 277 ILE A 279 AA3 2 GLY A 248 ? TYR A 250 ? GLY A 248 TYR A 250 AA3 3 THR A 238 ? SER A 243 ? THR A 238 SER A 243 AA3 4 LYS A 214 ? GLN A 218 ? LYS A 214 GLN A 218 AA3 5 VAL A 291 ? PRO A 294 ? VAL A 291 PRO A 294 AA3 6 ILE A 313 ? ALA A 315 ? ILE A 313 ALA A 315 AA3 7 LEU A 336 ? ILE A 338 ? LEU A 336 ILE A 338 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id AA1 1 2 N VAL A 42 ? N VAL A 42 O PHE A 54 ? O PHE A 54 AA1 2 3 N PHE A 57 ? N PHE A 57 O GLY A 107 ? O GLY A 107 AA1 3 4 O ILE A 108 ? O ILE A 108 N ARG A 73 ? N ARG A 73 AA2 1 2 N VAL A 42 ? N VAL A 42 O PHE A 54 ? O PHE A 54 AA2 2 3 N PHE A 57 ? N PHE A 57 O GLY A 107 ? O GLY A 107 AA2 3 4 O GLY A 104 ? O GLY A 104 N LYS A 69 ? N LYS A 69 AA2 4 5 N THR A 68 ? N THR A 68 O ILE A 141 ? O ILE A 141 AA3 1 2 O ILE A 279 ? O ILE A 279 N GLY A 248 ? N GLY A 248 AA3 2 3 O ILE A 249 ? O ILE A 249 N VAL A 242 ? N VAL A 242 AA3 3 4 O ALA A 241 ? O ALA A 241 N VAL A 217 ? N VAL A 217 AA3 4 5 N ALA A 216 ? N ALA A 216 O VAL A 291 ? O VAL A 291 AA3 5 6 N LEU A 292 ? N LEU A 292 O ILE A 313 ? O ILE A 313 AA3 6 7 N VAL A 314 ? N VAL A 314 O ILE A 338 ? O ILE A 338 # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id ASP _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 98 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi 60.95 _pdbx_validate_torsion.psi 60.68 # _pdbx_entry_details.entry_id 8XD3 _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 8XD3 _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 'RIGID BODY FIT' # _em_3d_reconstruction.entry_id 8XD3 _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 2.87 _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 78546 _em_3d_reconstruction.euler_angles_details ? _em_3d_reconstruction.num_class_averages 1 _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 7.5 # _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 'Hexamer of glutamate dehydrogenase in the presence of NADP and glutamate' _em_entity_assembly.details ? _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list 1 # _em_imaging.entry_id 8XD3 _em_imaging.id 1 _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.residual_tilt ? _em_imaging.microscope_model 'JEOL CRYO ARM 300' _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model ? _em_imaging.details ;Grid information as following: Company/model: Quantifoil Cu 1.2/1.3 Material:Cu Grid mesh: 200 ; _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 400 _em_imaging.nominal_defocus_max 47000 _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 NITROGEN # _em_sample_support.id 1 _em_sample_support.specimen_id 1 _em_sample_support.method ? _em_sample_support.film_material ? _em_sample_support.grid_material ? _em_sample_support.grid_mesh_size ? _em_sample_support.grid_type ? _em_sample_support.details ? # _em_vitrification.entry_id 8XD3 _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity 100 _em_vitrification.temp ? _em_vitrification.chamber_temperature 281 _em_vitrification.instrument 'FEI VITROBOT MARK IV' _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.details 'The sample solution kept at room temperature was flash-frozen 1-h after mixing GDH, NADP and glutamate solutions.' # _em_experiment.entry_id 8XD3 _em_experiment.id 1 _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.aggregation_state PARTICLE _em_experiment.entity_assembly_id 1 # _pdbx_unobs_or_zero_occ_residues.id 1 _pdbx_unobs_or_zero_occ_residues.PDB_model_num 1 _pdbx_unobs_or_zero_occ_residues.polymer_flag Y _pdbx_unobs_or_zero_occ_residues.occupancy_flag 1 _pdbx_unobs_or_zero_occ_residues.auth_asym_id A _pdbx_unobs_or_zero_occ_residues.auth_comp_id MET _pdbx_unobs_or_zero_occ_residues.auth_seq_id 1 _pdbx_unobs_or_zero_occ_residues.PDB_ins_code ? _pdbx_unobs_or_zero_occ_residues.label_asym_id A _pdbx_unobs_or_zero_occ_residues.label_comp_id MET _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ARG N N N N 14 ARG CA C N S 15 ARG C C N N 16 ARG O O N N 17 ARG CB C N N 18 ARG CG C N N 19 ARG CD C N N 20 ARG NE N N N 21 ARG CZ C N N 22 ARG NH1 N N N 23 ARG NH2 N N N 24 ARG OXT O N N 25 ARG H H N N 26 ARG H2 H N N 27 ARG HA H N N 28 ARG HB2 H N N 29 ARG HB3 H N N 30 ARG HG2 H N N 31 ARG HG3 H N N 32 ARG HD2 H N N 33 ARG HD3 H N N 34 ARG HE H N N 35 ARG HH11 H N N 36 ARG HH12 H N N 37 ARG HH21 H N N 38 ARG HH22 H N N 39 ARG HXT H N N 40 ASN N N N N 41 ASN CA C N S 42 ASN C C N N 43 ASN O O N N 44 ASN CB C N N 45 ASN CG C N N 46 ASN OD1 O N N 47 ASN ND2 N N N 48 ASN OXT O N N 49 ASN H H N N 50 ASN H2 H N N 51 ASN HA H N N 52 ASN HB2 H N N 53 ASN HB3 H N N 54 ASN HD21 H N N 55 ASN HD22 H N N 56 ASN HXT H N N 57 ASP N N N N 58 ASP CA C N S 59 ASP C C N N 60 ASP O O N N 61 ASP CB C N N 62 ASP CG C N N 63 ASP OD1 O N N 64 ASP OD2 O N N 65 ASP OXT O N N 66 ASP H H N N 67 ASP H2 H N N 68 ASP HA H N N 69 ASP HB2 H N N 70 ASP HB3 H N N 71 ASP HD2 H N N 72 ASP HXT H N N 73 CYS N N N N 74 CYS CA C N R 75 CYS C C N N 76 CYS O O N N 77 CYS CB C N N 78 CYS SG S N N 79 CYS OXT O N N 80 CYS H H N N 81 CYS H2 H N N 82 CYS HA H N N 83 CYS HB2 H N N 84 CYS HB3 H N N 85 CYS HG H N N 86 CYS HXT H N N 87 GGL N N N N 88 GGL CA C N S 89 GGL C C N N 90 GGL O O N N 91 GGL CB C N N 92 GGL CG C N N 93 GGL CD C N N 94 GGL OE1 O N N 95 GGL OE2 O N N 96 GGL OXT O N N 97 GGL H H N N 98 GGL H2 H N N 99 GGL HA H N N 100 GGL HB2 H N N 101 GGL HB3 H N N 102 GGL HG2 H N N 103 GGL HG3 H N N 104 GGL HE2 H N N 105 GGL HXT H N N 106 GLN N N N N 107 GLN CA C N S 108 GLN C C N N 109 GLN O O N N 110 GLN CB C N N 111 GLN CG C N N 112 GLN CD C N N 113 GLN OE1 O N N 114 GLN NE2 N N N 115 GLN OXT O N N 116 GLN H H N N 117 GLN H2 H N N 118 GLN HA H N N 119 GLN HB2 H N N 120 GLN HB3 H N N 121 GLN HG2 H N N 122 GLN HG3 H N N 123 GLN HE21 H N N 124 GLN HE22 H N N 125 GLN HXT H N N 126 GLU N N N N 127 GLU CA C N S 128 GLU C C N N 129 GLU O O N N 130 GLU CB C N N 131 GLU CG C N N 132 GLU CD C N N 133 GLU OE1 O N N 134 GLU OE2 O N N 135 GLU OXT O N N 136 GLU H H N N 137 GLU H2 H N N 138 GLU HA H N N 139 GLU HB2 H N N 140 GLU HB3 H N N 141 GLU HG2 H N N 142 GLU HG3 H N N 143 GLU HE2 H N N 144 GLU HXT H N N 145 GLY N N N N 146 GLY CA C N N 147 GLY C C N N 148 GLY O O N N 149 GLY OXT O N N 150 GLY H H N N 151 GLY H2 H N N 152 GLY HA2 H N N 153 GLY HA3 H N N 154 GLY HXT H N N 155 HIS N N N N 156 HIS CA C N S 157 HIS C C N N 158 HIS O O N N 159 HIS CB C N N 160 HIS CG C Y N 161 HIS ND1 N Y N 162 HIS CD2 C Y N 163 HIS CE1 C Y N 164 HIS NE2 N Y N 165 HIS OXT O N N 166 HIS H H N N 167 HIS H2 H N N 168 HIS HA H N N 169 HIS HB2 H N N 170 HIS HB3 H N N 171 HIS HD1 H N N 172 HIS HD2 H N N 173 HIS HE1 H N N 174 HIS HE2 H N N 175 HIS HXT H N N 176 HOH O O N N 177 HOH H1 H N N 178 HOH H2 H N N 179 ILE N N N N 180 ILE CA C N S 181 ILE C C N N 182 ILE O O N N 183 ILE CB C N S 184 ILE CG1 C N N 185 ILE CG2 C N N 186 ILE CD1 C N N 187 ILE OXT O N N 188 ILE H H N N 189 ILE H2 H N N 190 ILE HA H N N 191 ILE HB H N N 192 ILE HG12 H N N 193 ILE HG13 H N N 194 ILE HG21 H N N 195 ILE HG22 H N N 196 ILE HG23 H N N 197 ILE HD11 H N N 198 ILE HD12 H N N 199 ILE HD13 H N N 200 ILE HXT H N N 201 LEU N N N N 202 LEU CA C N S 203 LEU C C N N 204 LEU O O N N 205 LEU CB C N N 206 LEU CG C N N 207 LEU CD1 C N N 208 LEU CD2 C N N 209 LEU OXT O N N 210 LEU H H N N 211 LEU H2 H N N 212 LEU HA H N N 213 LEU HB2 H N N 214 LEU HB3 H N N 215 LEU HG H N N 216 LEU HD11 H N N 217 LEU HD12 H N N 218 LEU HD13 H N N 219 LEU HD21 H N N 220 LEU HD22 H N N 221 LEU HD23 H N N 222 LEU HXT H N N 223 LYS N N N N 224 LYS CA C N S 225 LYS C C N N 226 LYS O O N N 227 LYS CB C N N 228 LYS CG C N N 229 LYS CD C N N 230 LYS CE C N N 231 LYS NZ N N N 232 LYS OXT O N N 233 LYS H H N N 234 LYS H2 H N N 235 LYS HA H N N 236 LYS HB2 H N N 237 LYS HB3 H N N 238 LYS HG2 H N N 239 LYS HG3 H N N 240 LYS HD2 H N N 241 LYS HD3 H N N 242 LYS HE2 H N N 243 LYS HE3 H N N 244 LYS HZ1 H N N 245 LYS HZ2 H N N 246 LYS HZ3 H N N 247 LYS HXT H N N 248 MET N N N N 249 MET CA C N S 250 MET C C N N 251 MET O O N N 252 MET CB C N N 253 MET CG C N N 254 MET SD S N N 255 MET CE C N N 256 MET OXT O N N 257 MET H H N N 258 MET H2 H N N 259 MET HA H N N 260 MET HB2 H N N 261 MET HB3 H N N 262 MET HG2 H N N 263 MET HG3 H N N 264 MET HE1 H N N 265 MET HE2 H N N 266 MET HE3 H N N 267 MET HXT H N N 268 NAP PA P N R 269 NAP O1A O N N 270 NAP O2A O N N 271 NAP O5B O N N 272 NAP C5B C N N 273 NAP C4B C N R 274 NAP O4B O N N 275 NAP C3B C N R 276 NAP O3B O N N 277 NAP C2B C N R 278 NAP O2B O N N 279 NAP C1B C N R 280 NAP N9A N Y N 281 NAP C8A C Y N 282 NAP N7A N Y N 283 NAP C5A C Y N 284 NAP C6A C Y N 285 NAP N6A N N N 286 NAP N1A N Y N 287 NAP C2A C Y N 288 NAP N3A N Y N 289 NAP C4A C Y N 290 NAP O3 O N N 291 NAP PN P N N 292 NAP O1N O N N 293 NAP O2N O N N 294 NAP O5D O N N 295 NAP C5D C N N 296 NAP C4D C N R 297 NAP O4D O N N 298 NAP C3D C N S 299 NAP O3D O N N 300 NAP C2D C N R 301 NAP O2D O N N 302 NAP C1D C N R 303 NAP N1N N Y N 304 NAP C2N C Y N 305 NAP C3N C Y N 306 NAP C7N C N N 307 NAP O7N O N N 308 NAP N7N N N N 309 NAP C4N C Y N 310 NAP C5N C Y N 311 NAP C6N C Y N 312 NAP P2B P N N 313 NAP O1X O N N 314 NAP O2X O N N 315 NAP O3X O N N 316 NAP HOA2 H N N 317 NAP H51A H N N 318 NAP H52A H N N 319 NAP H4B H N N 320 NAP H3B H N N 321 NAP HO3A H N N 322 NAP H2B H N N 323 NAP H1B H N N 324 NAP H8A H N N 325 NAP H61A H N N 326 NAP H62A H N N 327 NAP H2A H N N 328 NAP H51N H N N 329 NAP H52N H N N 330 NAP H4D H N N 331 NAP H3D H N N 332 NAP HO3N H N N 333 NAP H2D H N N 334 NAP HO2N H N N 335 NAP H1D H N N 336 NAP H2N H N N 337 NAP H71N H N N 338 NAP H72N H N N 339 NAP H4N H N N 340 NAP H5N H N N 341 NAP H6N H N N 342 NAP HOP2 H N N 343 NAP HOP3 H N N 344 PHE N N N N 345 PHE CA C N S 346 PHE C C N N 347 PHE O O N N 348 PHE CB C N N 349 PHE CG C Y N 350 PHE CD1 C Y N 351 PHE CD2 C Y N 352 PHE CE1 C Y N 353 PHE CE2 C Y N 354 PHE CZ C Y N 355 PHE OXT O N N 356 PHE H H N N 357 PHE H2 H N N 358 PHE HA H N N 359 PHE HB2 H N N 360 PHE HB3 H N N 361 PHE HD1 H N N 362 PHE HD2 H N N 363 PHE HE1 H N N 364 PHE HE2 H N N 365 PHE HZ H N N 366 PHE HXT H N N 367 PRO N N N N 368 PRO CA C N S 369 PRO C C N N 370 PRO O O N N 371 PRO CB C N N 372 PRO CG C N N 373 PRO CD C N N 374 PRO OXT O N N 375 PRO H H N N 376 PRO HA H N N 377 PRO HB2 H N N 378 PRO HB3 H N N 379 PRO HG2 H N N 380 PRO HG3 H N N 381 PRO HD2 H N N 382 PRO HD3 H N N 383 PRO HXT H N N 384 SER N N N N 385 SER CA C N S 386 SER C C N N 387 SER O O N N 388 SER CB C N N 389 SER OG O N N 390 SER OXT O N N 391 SER H H N N 392 SER H2 H N N 393 SER HA H N N 394 SER HB2 H N N 395 SER HB3 H N N 396 SER HG H N N 397 SER HXT H N N 398 THR N N N N 399 THR CA C N S 400 THR C C N N 401 THR O O N N 402 THR CB C N R 403 THR OG1 O N N 404 THR CG2 C N N 405 THR OXT O N N 406 THR H H N N 407 THR H2 H N N 408 THR HA H N N 409 THR HB H N N 410 THR HG1 H N N 411 THR HG21 H N N 412 THR HG22 H N N 413 THR HG23 H N N 414 THR HXT H N N 415 TRP N N N N 416 TRP CA C N S 417 TRP C C N N 418 TRP O O N N 419 TRP CB C N N 420 TRP CG C Y N 421 TRP CD1 C Y N 422 TRP CD2 C Y N 423 TRP NE1 N Y N 424 TRP CE2 C Y N 425 TRP CE3 C Y N 426 TRP CZ2 C Y N 427 TRP CZ3 C Y N 428 TRP CH2 C Y N 429 TRP OXT O N N 430 TRP H H N N 431 TRP H2 H N N 432 TRP HA H N N 433 TRP HB2 H N N 434 TRP HB3 H N N 435 TRP HD1 H N N 436 TRP HE1 H N N 437 TRP HE3 H N N 438 TRP HZ2 H N N 439 TRP HZ3 H N N 440 TRP HH2 H N N 441 TRP HXT H N N 442 TYR N N N N 443 TYR CA C N S 444 TYR C C N N 445 TYR O O N N 446 TYR CB C N N 447 TYR CG C Y N 448 TYR CD1 C Y N 449 TYR CD2 C Y N 450 TYR CE1 C Y N 451 TYR CE2 C Y N 452 TYR CZ C Y N 453 TYR OH O N N 454 TYR OXT O N N 455 TYR H H N N 456 TYR H2 H N N 457 TYR HA H N N 458 TYR HB2 H N N 459 TYR HB3 H N N 460 TYR HD1 H N N 461 TYR HD2 H N N 462 TYR HE1 H N N 463 TYR HE2 H N N 464 TYR HH H N N 465 TYR HXT H N N 466 VAL N N N N 467 VAL CA C N S 468 VAL C C N N 469 VAL O O N N 470 VAL CB C N N 471 VAL CG1 C N N 472 VAL CG2 C N N 473 VAL OXT O N N 474 VAL H H N N 475 VAL H2 H N N 476 VAL HA H N N 477 VAL HB H N N 478 VAL HG11 H N N 479 VAL HG12 H N N 480 VAL HG13 H N N 481 VAL HG21 H N N 482 VAL HG22 H N N 483 VAL HG23 H N N 484 VAL HXT H N N 485 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 ARG N CA sing N N 13 ARG N H sing N N 14 ARG N H2 sing N N 15 ARG CA C sing N N 16 ARG CA CB sing N N 17 ARG CA HA sing N N 18 ARG C O doub N N 19 ARG C OXT sing N N 20 ARG CB CG sing N N 21 ARG CB HB2 sing N N 22 ARG CB HB3 sing N N 23 ARG CG CD sing N N 24 ARG CG HG2 sing N N 25 ARG CG HG3 sing N N 26 ARG CD NE sing N N 27 ARG CD HD2 sing N N 28 ARG CD HD3 sing N N 29 ARG NE CZ sing N N 30 ARG NE HE sing N N 31 ARG CZ NH1 sing N N 32 ARG CZ NH2 doub N N 33 ARG NH1 HH11 sing N N 34 ARG NH1 HH12 sing N N 35 ARG NH2 HH21 sing N N 36 ARG NH2 HH22 sing N N 37 ARG OXT HXT sing N N 38 ASN N CA sing N N 39 ASN N H sing N N 40 ASN N H2 sing N N 41 ASN CA C sing N N 42 ASN CA CB sing N N 43 ASN CA HA sing N N 44 ASN C O doub N N 45 ASN C OXT sing N N 46 ASN CB CG sing N N 47 ASN CB HB2 sing N N 48 ASN CB HB3 sing N N 49 ASN CG OD1 doub N N 50 ASN CG ND2 sing N N 51 ASN ND2 HD21 sing N N 52 ASN ND2 HD22 sing N N 53 ASN OXT HXT sing N N 54 ASP N CA sing N N 55 ASP N H sing N N 56 ASP N H2 sing N N 57 ASP CA C sing N N 58 ASP CA CB sing N N 59 ASP CA HA sing N N 60 ASP C O doub N N 61 ASP C OXT sing N N 62 ASP CB CG sing N N 63 ASP CB HB2 sing N N 64 ASP CB HB3 sing N N 65 ASP CG OD1 doub N N 66 ASP CG OD2 sing N N 67 ASP OD2 HD2 sing N N 68 ASP OXT HXT sing N N 69 CYS N CA sing N N 70 CYS N H sing N N 71 CYS N H2 sing N N 72 CYS CA C sing N N 73 CYS CA CB sing N N 74 CYS CA HA sing N N 75 CYS C O doub N N 76 CYS C OXT sing N N 77 CYS CB SG sing N N 78 CYS CB HB2 sing N N 79 CYS CB HB3 sing N N 80 CYS SG HG sing N N 81 CYS OXT HXT sing N N 82 GGL N CA sing N N 83 GGL N H sing N N 84 GGL N H2 sing N N 85 GGL CA C sing N N 86 GGL CA CB sing N N 87 GGL CA HA sing N N 88 GGL C O doub N N 89 GGL C OXT sing N N 90 GGL CB CG sing N N 91 GGL CB HB2 sing N N 92 GGL CB HB3 sing N N 93 GGL CG CD sing N N 94 GGL CG HG2 sing N N 95 GGL CG HG3 sing N N 96 GGL CD OE1 doub N N 97 GGL CD OE2 sing N N 98 GGL OE2 HE2 sing N N 99 GGL OXT HXT sing N N 100 GLN N CA sing N N 101 GLN N H sing N N 102 GLN N H2 sing N N 103 GLN CA C sing N N 104 GLN CA CB sing N N 105 GLN CA HA sing N N 106 GLN C O doub N N 107 GLN C OXT sing N N 108 GLN CB CG sing N N 109 GLN CB HB2 sing N N 110 GLN CB HB3 sing N N 111 GLN CG CD sing N N 112 GLN CG HG2 sing N N 113 GLN CG HG3 sing N N 114 GLN CD OE1 doub N N 115 GLN CD NE2 sing N N 116 GLN NE2 HE21 sing N N 117 GLN NE2 HE22 sing N N 118 GLN OXT HXT sing N N 119 GLU N CA sing N N 120 GLU N H sing N N 121 GLU N H2 sing N N 122 GLU CA C sing N N 123 GLU CA CB sing N N 124 GLU CA HA sing N N 125 GLU C O doub N N 126 GLU C OXT sing N N 127 GLU CB CG sing N N 128 GLU CB HB2 sing N N 129 GLU CB HB3 sing N N 130 GLU CG CD sing N N 131 GLU CG HG2 sing N N 132 GLU CG HG3 sing N N 133 GLU CD OE1 doub N N 134 GLU CD OE2 sing N N 135 GLU OE2 HE2 sing N N 136 GLU OXT HXT sing N N 137 GLY N CA sing N N 138 GLY N H sing N N 139 GLY N H2 sing N N 140 GLY CA C sing N N 141 GLY CA HA2 sing N N 142 GLY CA HA3 sing N N 143 GLY C O doub N N 144 GLY C OXT sing N N 145 GLY OXT HXT sing N N 146 HIS N CA sing N N 147 HIS N H sing N N 148 HIS N H2 sing N N 149 HIS CA C sing N N 150 HIS CA CB sing N N 151 HIS CA HA sing N N 152 HIS C O doub N N 153 HIS C OXT sing N N 154 HIS CB CG sing N N 155 HIS CB HB2 sing N N 156 HIS CB HB3 sing N N 157 HIS CG ND1 sing Y N 158 HIS CG CD2 doub Y N 159 HIS ND1 CE1 doub Y N 160 HIS ND1 HD1 sing N N 161 HIS CD2 NE2 sing Y N 162 HIS CD2 HD2 sing N N 163 HIS CE1 NE2 sing Y N 164 HIS CE1 HE1 sing N N 165 HIS NE2 HE2 sing N N 166 HIS OXT HXT sing N N 167 HOH O H1 sing N N 168 HOH O H2 sing N N 169 ILE N CA sing N N 170 ILE N H sing N N 171 ILE N H2 sing N N 172 ILE CA C sing N N 173 ILE CA CB sing N N 174 ILE CA HA sing N N 175 ILE C O doub N N 176 ILE C OXT sing N N 177 ILE CB CG1 sing N N 178 ILE CB CG2 sing N N 179 ILE CB HB sing N N 180 ILE CG1 CD1 sing N N 181 ILE CG1 HG12 sing N N 182 ILE CG1 HG13 sing N N 183 ILE CG2 HG21 sing N N 184 ILE CG2 HG22 sing N N 185 ILE CG2 HG23 sing N N 186 ILE CD1 HD11 sing N N 187 ILE CD1 HD12 sing N N 188 ILE CD1 HD13 sing N N 189 ILE OXT HXT sing N N 190 LEU N CA sing N N 191 LEU N H sing N N 192 LEU N H2 sing N N 193 LEU CA C sing N N 194 LEU CA CB sing N N 195 LEU CA HA sing N N 196 LEU C O doub N N 197 LEU C OXT sing N N 198 LEU CB CG sing N N 199 LEU CB HB2 sing N N 200 LEU CB HB3 sing N N 201 LEU CG CD1 sing N N 202 LEU CG CD2 sing N N 203 LEU CG HG sing N N 204 LEU CD1 HD11 sing N N 205 LEU CD1 HD12 sing N N 206 LEU CD1 HD13 sing N N 207 LEU CD2 HD21 sing N N 208 LEU CD2 HD22 sing N N 209 LEU CD2 HD23 sing N N 210 LEU OXT HXT sing N N 211 LYS N CA sing N N 212 LYS N H sing N N 213 LYS N H2 sing N N 214 LYS CA C sing N N 215 LYS CA CB sing N N 216 LYS CA HA sing N N 217 LYS C O doub N N 218 LYS C OXT sing N N 219 LYS CB CG sing N N 220 LYS CB HB2 sing N N 221 LYS CB HB3 sing N N 222 LYS CG CD sing N N 223 LYS CG HG2 sing N N 224 LYS CG HG3 sing N N 225 LYS CD CE sing N N 226 LYS CD HD2 sing N N 227 LYS CD HD3 sing N N 228 LYS CE NZ sing N N 229 LYS CE HE2 sing N N 230 LYS CE HE3 sing N N 231 LYS NZ HZ1 sing N N 232 LYS NZ HZ2 sing N N 233 LYS NZ HZ3 sing N N 234 LYS OXT HXT sing N N 235 MET N CA sing N N 236 MET N H sing N N 237 MET N H2 sing N N 238 MET CA C sing N N 239 MET CA CB sing N N 240 MET CA HA sing N N 241 MET C O doub N N 242 MET C OXT sing N N 243 MET CB CG sing N N 244 MET CB HB2 sing N N 245 MET CB HB3 sing N N 246 MET CG SD sing N N 247 MET CG HG2 sing N N 248 MET CG HG3 sing N N 249 MET SD CE sing N N 250 MET CE HE1 sing N N 251 MET CE HE2 sing N N 252 MET CE HE3 sing N N 253 MET OXT HXT sing N N 254 NAP PA O1A doub N N 255 NAP PA O2A sing N N 256 NAP PA O5B sing N N 257 NAP PA O3 sing N N 258 NAP O2A HOA2 sing N N 259 NAP O5B C5B sing N N 260 NAP C5B C4B sing N N 261 NAP C5B H51A sing N N 262 NAP C5B H52A sing N N 263 NAP C4B O4B sing N N 264 NAP C4B C3B sing N N 265 NAP C4B H4B sing N N 266 NAP O4B C1B sing N N 267 NAP C3B O3B sing N N 268 NAP C3B C2B sing N N 269 NAP C3B H3B sing N N 270 NAP O3B HO3A sing N N 271 NAP C2B O2B sing N N 272 NAP C2B C1B sing N N 273 NAP C2B H2B sing N N 274 NAP O2B P2B sing N N 275 NAP C1B N9A sing N N 276 NAP C1B H1B sing N N 277 NAP N9A C8A sing Y N 278 NAP N9A C4A sing Y N 279 NAP C8A N7A doub Y N 280 NAP C8A H8A sing N N 281 NAP N7A C5A sing Y N 282 NAP C5A C6A sing Y N 283 NAP C5A C4A doub Y N 284 NAP C6A N6A sing N N 285 NAP C6A N1A doub Y N 286 NAP N6A H61A sing N N 287 NAP N6A H62A sing N N 288 NAP N1A C2A sing Y N 289 NAP C2A N3A doub Y N 290 NAP C2A H2A sing N N 291 NAP N3A C4A sing Y N 292 NAP O3 PN sing N N 293 NAP PN O1N doub N N 294 NAP PN O2N sing N N 295 NAP PN O5D sing N N 296 NAP O5D C5D sing N N 297 NAP C5D C4D sing N N 298 NAP C5D H51N sing N N 299 NAP C5D H52N sing N N 300 NAP C4D O4D sing N N 301 NAP C4D C3D sing N N 302 NAP C4D H4D sing N N 303 NAP O4D C1D sing N N 304 NAP C3D O3D sing N N 305 NAP C3D C2D sing N N 306 NAP C3D H3D sing N N 307 NAP O3D HO3N sing N N 308 NAP C2D O2D sing N N 309 NAP C2D C1D sing N N 310 NAP C2D H2D sing N N 311 NAP O2D HO2N sing N N 312 NAP C1D N1N sing N N 313 NAP C1D H1D sing N N 314 NAP N1N C2N sing Y N 315 NAP N1N C6N doub Y N 316 NAP C2N C3N doub Y N 317 NAP C2N H2N sing N N 318 NAP C3N C7N sing N N 319 NAP C3N C4N sing Y N 320 NAP C7N O7N doub N N 321 NAP C7N N7N sing N N 322 NAP N7N H71N sing N N 323 NAP N7N H72N sing N N 324 NAP C4N C5N doub Y N 325 NAP C4N H4N sing N N 326 NAP C5N C6N sing Y N 327 NAP C5N H5N sing N N 328 NAP C6N H6N sing N N 329 NAP P2B O1X doub N N 330 NAP P2B O2X sing N N 331 NAP P2B O3X sing N N 332 NAP O2X HOP2 sing N N 333 NAP O3X HOP3 sing N N 334 PHE N CA sing N N 335 PHE N H sing N N 336 PHE N H2 sing N N 337 PHE CA C sing N N 338 PHE CA CB sing N N 339 PHE CA HA sing N N 340 PHE C O doub N N 341 PHE C OXT sing N N 342 PHE CB CG sing N N 343 PHE CB HB2 sing N N 344 PHE CB HB3 sing N N 345 PHE CG CD1 doub Y N 346 PHE CG CD2 sing Y N 347 PHE CD1 CE1 sing Y N 348 PHE CD1 HD1 sing N N 349 PHE CD2 CE2 doub Y N 350 PHE CD2 HD2 sing N N 351 PHE CE1 CZ doub Y N 352 PHE CE1 HE1 sing N N 353 PHE CE2 CZ sing Y N 354 PHE CE2 HE2 sing N N 355 PHE CZ HZ sing N N 356 PHE OXT HXT sing N N 357 PRO N CA sing N N 358 PRO N CD sing N N 359 PRO N H sing N N 360 PRO CA C sing N N 361 PRO CA CB sing N N 362 PRO CA HA sing N N 363 PRO C O doub N N 364 PRO C OXT sing N N 365 PRO CB CG sing N N 366 PRO CB HB2 sing N N 367 PRO CB HB3 sing N N 368 PRO CG CD sing N N 369 PRO CG HG2 sing N N 370 PRO CG HG3 sing N N 371 PRO CD HD2 sing N N 372 PRO CD HD3 sing N N 373 PRO OXT HXT sing N N 374 SER N CA sing N N 375 SER N H sing N N 376 SER N H2 sing N N 377 SER CA C sing N N 378 SER CA CB sing N N 379 SER CA HA sing N N 380 SER C O doub N N 381 SER C OXT sing N N 382 SER CB OG sing N N 383 SER CB HB2 sing N N 384 SER CB HB3 sing N N 385 SER OG HG sing N N 386 SER OXT HXT sing N N 387 THR N CA sing N N 388 THR N H sing N N 389 THR N H2 sing N N 390 THR CA C sing N N 391 THR CA CB sing N N 392 THR CA HA sing N N 393 THR C O doub N N 394 THR C OXT sing N N 395 THR CB OG1 sing N N 396 THR CB CG2 sing N N 397 THR CB HB sing N N 398 THR OG1 HG1 sing N N 399 THR CG2 HG21 sing N N 400 THR CG2 HG22 sing N N 401 THR CG2 HG23 sing N N 402 THR OXT HXT sing N N 403 TRP N CA sing N N 404 TRP N H sing N N 405 TRP N H2 sing N N 406 TRP CA C sing N N 407 TRP CA CB sing N N 408 TRP CA HA sing N N 409 TRP C O doub N N 410 TRP C OXT sing N N 411 TRP CB CG sing N N 412 TRP CB HB2 sing N N 413 TRP CB HB3 sing N N 414 TRP CG CD1 doub Y N 415 TRP CG CD2 sing Y N 416 TRP CD1 NE1 sing Y N 417 TRP CD1 HD1 sing N N 418 TRP CD2 CE2 doub Y N 419 TRP CD2 CE3 sing Y N 420 TRP NE1 CE2 sing Y N 421 TRP NE1 HE1 sing N N 422 TRP CE2 CZ2 sing Y N 423 TRP CE3 CZ3 doub Y N 424 TRP CE3 HE3 sing N N 425 TRP CZ2 CH2 doub Y N 426 TRP CZ2 HZ2 sing N N 427 TRP CZ3 CH2 sing Y N 428 TRP CZ3 HZ3 sing N N 429 TRP CH2 HH2 sing N N 430 TRP OXT HXT sing N N 431 TYR N CA sing N N 432 TYR N H sing N N 433 TYR N H2 sing N N 434 TYR CA C sing N N 435 TYR CA CB sing N N 436 TYR CA HA sing N N 437 TYR C O doub N N 438 TYR C OXT sing N N 439 TYR CB CG sing N N 440 TYR CB HB2 sing N N 441 TYR CB HB3 sing N N 442 TYR CG CD1 doub Y N 443 TYR CG CD2 sing Y N 444 TYR CD1 CE1 sing Y N 445 TYR CD1 HD1 sing N N 446 TYR CD2 CE2 doub Y N 447 TYR CD2 HD2 sing N N 448 TYR CE1 CZ doub Y N 449 TYR CE1 HE1 sing N N 450 TYR CE2 CZ sing Y N 451 TYR CE2 HE2 sing N N 452 TYR CZ OH sing N N 453 TYR OH HH sing N N 454 TYR OXT HXT sing N N 455 VAL N CA sing N N 456 VAL N H sing N N 457 VAL N H2 sing N N 458 VAL CA C sing N N 459 VAL CA CB sing N N 460 VAL CA HA sing N N 461 VAL C O doub N N 462 VAL C OXT sing N N 463 VAL CB CG1 sing N N 464 VAL CB CG2 sing N N 465 VAL CB HB sing N N 466 VAL CG1 HG11 sing N N 467 VAL CG1 HG12 sing N N 468 VAL CG1 HG13 sing N N 469 VAL CG2 HG21 sing N N 470 VAL CG2 HG22 sing N N 471 VAL CG2 HG23 sing N N 472 VAL OXT HXT sing N N 473 # loop_ _em_buffer_component.buffer_id _em_buffer_component.concentration _em_buffer_component.concentration_units _em_buffer_component.formula _em_buffer_component.id _em_buffer_component.name 1 0.5 mM NADP 1 'nicotinamide adenine dinucleotide phosphate' 1 100 mM Glu 2 glutamate 1 5 mM Tris 3 'tris(hydroxymethyl)aminomethane' # _em_ctf_correction.details ? _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.id 1 _em_ctf_correction.type 'PHASE FLIPPING AND AMPLITUDE CORRECTION' # _em_entity_assembly_molwt.entity_assembly_id 1 _em_entity_assembly_molwt.experimental_flag YES _em_entity_assembly_molwt.id 1 _em_entity_assembly_molwt.units MEGADALTONS _em_entity_assembly_molwt.value 0.280 # _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 49899 _em_entity_assembly_naturalsource.organism 'Thermococcus profundus' _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? _em_entity_assembly_naturalsource.details ? # _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 562 _em_entity_assembly_recombinant.organism 'Escherichia coli' _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 1.0 _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 7075 # _em_particle_selection.details 'Auto-picking based on templates from manually picked GDH particles.' _em_particle_selection.id 1 _em_particle_selection.image_processing_id 1 _em_particle_selection.method ? _em_particle_selection.num_particles_selected 6334528 _em_particle_selection.reference_model ? # 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 ? ? RELION 4.0beta 'IMAGE ACQUISITION' ? 2 ? ? 1 SerialEM ? MASKING ? 3 ? ? ? ? ? 'CTF CORRECTION' ? 4 1 ? ? CTFFIND ? 'LAYERLINE INDEXING' ? 5 ? ? ? ? ? 'DIFFRACTION INDEXING' ? 6 ? ? ? ? ? 'MODEL FITTING' ? 7 ? 1 ? Coot ? OTHER ? 8 ? ? ? ? ? 'MODEL REFINEMENT' ? 9 ? 1 ? PHENIX ? 'INITIAL EULER ASSIGNMENT' ? 10 1 ? ? RELION 4.0beta 'FINAL EULER ASSIGNMENT' ? 11 1 ? ? RELION 4.0beta CLASSIFICATION ? 12 1 ? ? RELION 4.0beta RECONSTRUCTION ? 13 1 ? ? RELION 4.0beta # _em_specimen.concentration 4.8 _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 # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Japan Society for the Promotion of Science (JSPS)' Japan jp13480214 1 'Japan Society for the Promotion of Science (JSPS)' Japan jp19204042 2 'Japan Society for the Promotion of Science (JSPS)' Japan jp22244054 3 'Japan Society for the Promotion of Science (JSPS)' Japan jp21H01050 4 'Japan Society for the Promotion of Science (JSPS)' Japan jp26800227 5 'Japan Society for the Promotion of Science (JSPS)' Japan jp18J11653 6 'Ministry of Education, Culture, Sports, Science and Technology (Japan)' Japan jp15076210 7 'Ministry of Education, Culture, Sports, Science and Technology (Japan)' Japan jp20050030 8 'Ministry of Education, Culture, Sports, Science and Technology (Japan)' Japan jp22018027 9 'Ministry of Education, Culture, Sports, Science and Technology (Japan)' Japan jp23120525 10 'Ministry of Education, Culture, Sports, Science and Technology (Japan)' Japan jp25120725 11 'Ministry of Education, Culture, Sports, Science and Technology (Japan)' Japan jp15H01647 12 'Ministry of Education, Culture, Sports, Science and Technology (Japan)' Japan jp17H05891 13 'Japan Science and Technology' Japan JPMJPR22E2 14 # loop_ _pdbx_entity_instance_feature.ordinal _pdbx_entity_instance_feature.comp_id _pdbx_entity_instance_feature.asym_id _pdbx_entity_instance_feature.seq_num _pdbx_entity_instance_feature.auth_comp_id _pdbx_entity_instance_feature.auth_asym_id _pdbx_entity_instance_feature.auth_seq_num _pdbx_entity_instance_feature.feature_type _pdbx_entity_instance_feature.details 1 GGL ? ? GGL ? ? 'SUBJECT OF INVESTIGATION' ? 2 NAP ? ? NAP ? ? 'SUBJECT OF INVESTIGATION' ? # _atom_sites.entry_id 8XD3 _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.Cartn_transform_axes ? _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_