data_6AB5 # _entry.id 6AB5 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 6AB5 pdb_00006ab5 10.2210/pdb6ab5/pdb WWPDB D_1300008343 ? ? EMDB EMD-6999 ? ? # 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 2019-03-20 2 'Structure model' 1 1 2019-11-06 3 'Structure model' 1 2 2024-03-27 # _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 ? # 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' 'Data collection' 2 2 'Structure model' Other 3 3 'Structure model' 'Data collection' 4 3 'Structure model' 'Database references' 5 3 'Structure model' 'Derived calculations' # 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' atom_sites 2 2 'Structure model' cell 3 3 'Structure model' chem_comp_atom 4 3 'Structure model' chem_comp_bond 5 3 'Structure model' database_2 6 3 'Structure model' pdbx_struct_oper_list # 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' '_atom_sites.fract_transf_matrix[1][1]' 2 2 'Structure model' '_atom_sites.fract_transf_matrix[2][2]' 3 2 'Structure model' '_atom_sites.fract_transf_matrix[3][3]' 4 2 'Structure model' '_cell.Z_PDB' 5 3 'Structure model' '_database_2.pdbx_DOI' 6 3 'Structure model' '_database_2.pdbx_database_accession' 7 3 'Structure model' '_pdbx_struct_oper_list.name' 8 3 'Structure model' '_pdbx_struct_oper_list.symmetry_operation' 9 3 'Structure model' '_pdbx_struct_oper_list.type' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6AB5 _pdbx_database_status.recvd_initial_deposition_date 2018-07-20 _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.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.details _pdbx_database_related.db_id _pdbx_database_related.content_type EMDB 'Cryo-EM structure of T=1 Penaeus vannamei nodavirus' EMD-6999 'associated EM volume' EMDB . EMD-9576 'other EM volume' # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Chen, N.C.' 1 ? 'Miyazaki, N.' 2 ? 'Yoshimura, M.' 3 ? 'Guan, H.H.' 4 ? 'Lin, C.C.' 5 ? 'Iwasaki, K.' 6 ? 'Chen, C.J.' 7 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Commun Biol' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2399-3642 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 2 _citation.language ? _citation.page_first 72 _citation.page_last 72 _citation.title 'The atomic structures of shrimp nodaviruses reveal new dimeric spike structures and particle polymorphism.' _citation.year 2019 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1038/s42003-019-0311-z _citation.pdbx_database_id_PubMed 30820467 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chen, N.C.' 1 ? primary 'Yoshimura, M.' 2 0000-0002-7466-2192 primary 'Miyazaki, N.' 3 ? primary 'Guan, H.H.' 4 ? primary 'Chuankhayan, P.' 5 ? primary 'Lin, C.C.' 6 ? primary 'Chen, S.K.' 7 ? primary 'Lin, P.J.' 8 ? primary 'Huang, Y.C.' 9 ? primary 'Iwasaki, K.' 10 ? primary 'Nakagawa, A.' 11 0000-0002-1700-7861 primary 'Chan, S.I.' 12 ? primary 'Chen, C.J.' 13 0000-0002-5157-4288 # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'Capsid protein' _entity.formula_weight 40262.168 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _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 ;MKRKPNSNQNNNNNRGNGNGLRRVRGGRVSRRRVVINQSNQSMPVTSNGAPLQALTSYSRPNVNKISRLGPDSDFLTSVV AKASTSIVTPADRILVKQPLSASSFPGTRITGLSSYWERYKWLSAVARYVPAVPNTVACQFVMYIDTDPLDDPSNISDDN QIVRQAVSQAGSNQFNFNTSKTVPLIVRADNQYYYTGVDKQNLRFSLQGILYIIQVTDLINFNGELITQDLTCGSLFLDW LVNFSIPQINPTSLTDVRVDKAVNFIKPEVSGVAEIQTVTGLSPSTSYLLTPAFLEQNFQSEAGIYILSATPVEGEGTIS INMDPTVTTVSGFIKVKTDTFGTFDLSVVLTTASKKQTTGFNIIAATS ; _entity_poly.pdbx_seq_one_letter_code_can ;MKRKPNSNQNNNNNRGNGNGLRRVRGGRVSRRRVVINQSNQSMPVTSNGAPLQALTSYSRPNVNKISRLGPDSDFLTSVV AKASTSIVTPADRILVKQPLSASSFPGTRITGLSSYWERYKWLSAVARYVPAVPNTVACQFVMYIDTDPLDDPSNISDDN QIVRQAVSQAGSNQFNFNTSKTVPLIVRADNQYYYTGVDKQNLRFSLQGILYIIQVTDLINFNGELITQDLTCGSLFLDW LVNFSIPQINPTSLTDVRVDKAVNFIKPEVSGVAEIQTVTGLSPSTSYLLTPAFLEQNFQSEAGIYILSATPVEGEGTIS INMDPTVTTVSGFIKVKTDTFGTFDLSVVLTTASKKQTTGFNIIAATS ; _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 MET n 1 2 LYS n 1 3 ARG n 1 4 LYS n 1 5 PRO n 1 6 ASN n 1 7 SER n 1 8 ASN n 1 9 GLN n 1 10 ASN n 1 11 ASN n 1 12 ASN n 1 13 ASN n 1 14 ASN n 1 15 ARG n 1 16 GLY n 1 17 ASN n 1 18 GLY n 1 19 ASN n 1 20 GLY n 1 21 LEU n 1 22 ARG n 1 23 ARG n 1 24 VAL n 1 25 ARG n 1 26 GLY n 1 27 GLY n 1 28 ARG n 1 29 VAL n 1 30 SER n 1 31 ARG n 1 32 ARG n 1 33 ARG n 1 34 VAL n 1 35 VAL n 1 36 ILE n 1 37 ASN n 1 38 GLN n 1 39 SER n 1 40 ASN n 1 41 GLN n 1 42 SER n 1 43 MET n 1 44 PRO n 1 45 VAL n 1 46 THR n 1 47 SER n 1 48 ASN n 1 49 GLY n 1 50 ALA n 1 51 PRO n 1 52 LEU n 1 53 GLN n 1 54 ALA n 1 55 LEU n 1 56 THR n 1 57 SER n 1 58 TYR n 1 59 SER n 1 60 ARG n 1 61 PRO n 1 62 ASN n 1 63 VAL n 1 64 ASN n 1 65 LYS n 1 66 ILE n 1 67 SER n 1 68 ARG n 1 69 LEU n 1 70 GLY n 1 71 PRO n 1 72 ASP n 1 73 SER n 1 74 ASP n 1 75 PHE n 1 76 LEU n 1 77 THR n 1 78 SER n 1 79 VAL n 1 80 VAL n 1 81 ALA n 1 82 LYS n 1 83 ALA n 1 84 SER n 1 85 THR n 1 86 SER n 1 87 ILE n 1 88 VAL n 1 89 THR n 1 90 PRO n 1 91 ALA n 1 92 ASP n 1 93 ARG n 1 94 ILE n 1 95 LEU n 1 96 VAL n 1 97 LYS n 1 98 GLN n 1 99 PRO n 1 100 LEU n 1 101 SER n 1 102 ALA n 1 103 SER n 1 104 SER n 1 105 PHE n 1 106 PRO n 1 107 GLY n 1 108 THR n 1 109 ARG n 1 110 ILE n 1 111 THR n 1 112 GLY n 1 113 LEU n 1 114 SER n 1 115 SER n 1 116 TYR n 1 117 TRP n 1 118 GLU n 1 119 ARG n 1 120 TYR n 1 121 LYS n 1 122 TRP n 1 123 LEU n 1 124 SER n 1 125 ALA n 1 126 VAL n 1 127 ALA n 1 128 ARG n 1 129 TYR n 1 130 VAL n 1 131 PRO n 1 132 ALA n 1 133 VAL n 1 134 PRO n 1 135 ASN n 1 136 THR n 1 137 VAL n 1 138 ALA n 1 139 CYS n 1 140 GLN n 1 141 PHE n 1 142 VAL n 1 143 MET n 1 144 TYR n 1 145 ILE n 1 146 ASP n 1 147 THR n 1 148 ASP n 1 149 PRO n 1 150 LEU n 1 151 ASP n 1 152 ASP n 1 153 PRO n 1 154 SER n 1 155 ASN n 1 156 ILE n 1 157 SER n 1 158 ASP n 1 159 ASP n 1 160 ASN n 1 161 GLN n 1 162 ILE n 1 163 VAL n 1 164 ARG n 1 165 GLN n 1 166 ALA n 1 167 VAL n 1 168 SER n 1 169 GLN n 1 170 ALA n 1 171 GLY n 1 172 SER n 1 173 ASN n 1 174 GLN n 1 175 PHE n 1 176 ASN n 1 177 PHE n 1 178 ASN n 1 179 THR n 1 180 SER n 1 181 LYS n 1 182 THR n 1 183 VAL n 1 184 PRO n 1 185 LEU n 1 186 ILE n 1 187 VAL n 1 188 ARG n 1 189 ALA n 1 190 ASP n 1 191 ASN n 1 192 GLN n 1 193 TYR n 1 194 TYR n 1 195 TYR n 1 196 THR n 1 197 GLY n 1 198 VAL n 1 199 ASP n 1 200 LYS n 1 201 GLN n 1 202 ASN n 1 203 LEU n 1 204 ARG n 1 205 PHE n 1 206 SER n 1 207 LEU n 1 208 GLN n 1 209 GLY n 1 210 ILE n 1 211 LEU n 1 212 TYR n 1 213 ILE n 1 214 ILE n 1 215 GLN n 1 216 VAL n 1 217 THR n 1 218 ASP n 1 219 LEU n 1 220 ILE n 1 221 ASN n 1 222 PHE n 1 223 ASN n 1 224 GLY n 1 225 GLU n 1 226 LEU n 1 227 ILE n 1 228 THR n 1 229 GLN n 1 230 ASP n 1 231 LEU n 1 232 THR n 1 233 CYS n 1 234 GLY n 1 235 SER n 1 236 LEU n 1 237 PHE n 1 238 LEU n 1 239 ASP n 1 240 TRP n 1 241 LEU n 1 242 VAL n 1 243 ASN n 1 244 PHE n 1 245 SER n 1 246 ILE n 1 247 PRO n 1 248 GLN n 1 249 ILE n 1 250 ASN n 1 251 PRO n 1 252 THR n 1 253 SER n 1 254 LEU n 1 255 THR n 1 256 ASP n 1 257 VAL n 1 258 ARG n 1 259 VAL n 1 260 ASP n 1 261 LYS n 1 262 ALA n 1 263 VAL n 1 264 ASN n 1 265 PHE n 1 266 ILE n 1 267 LYS n 1 268 PRO n 1 269 GLU n 1 270 VAL n 1 271 SER n 1 272 GLY n 1 273 VAL n 1 274 ALA n 1 275 GLU n 1 276 ILE n 1 277 GLN n 1 278 THR n 1 279 VAL n 1 280 THR n 1 281 GLY n 1 282 LEU n 1 283 SER n 1 284 PRO n 1 285 SER n 1 286 THR n 1 287 SER n 1 288 TYR n 1 289 LEU n 1 290 LEU n 1 291 THR n 1 292 PRO n 1 293 ALA n 1 294 PHE n 1 295 LEU n 1 296 GLU n 1 297 GLN n 1 298 ASN n 1 299 PHE n 1 300 GLN n 1 301 SER n 1 302 GLU n 1 303 ALA n 1 304 GLY n 1 305 ILE n 1 306 TYR n 1 307 ILE n 1 308 LEU n 1 309 SER n 1 310 ALA n 1 311 THR n 1 312 PRO n 1 313 VAL n 1 314 GLU n 1 315 GLY n 1 316 GLU n 1 317 GLY n 1 318 THR n 1 319 ILE n 1 320 SER n 1 321 ILE n 1 322 ASN n 1 323 MET n 1 324 ASP n 1 325 PRO n 1 326 THR n 1 327 VAL n 1 328 THR n 1 329 THR n 1 330 VAL n 1 331 SER n 1 332 GLY n 1 333 PHE n 1 334 ILE n 1 335 LYS n 1 336 VAL n 1 337 LYS n 1 338 THR n 1 339 ASP n 1 340 THR n 1 341 PHE n 1 342 GLY n 1 343 THR n 1 344 PHE n 1 345 ASP n 1 346 LEU n 1 347 SER n 1 348 VAL n 1 349 VAL n 1 350 LEU n 1 351 THR n 1 352 THR n 1 353 ALA n 1 354 SER n 1 355 LYS n 1 356 LYS n 1 357 GLN n 1 358 THR n 1 359 THR n 1 360 GLY n 1 361 PHE n 1 362 ASN n 1 363 ILE n 1 364 ILE n 1 365 ALA n 1 366 ALA n 1 367 THR n 1 368 SER 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 368 _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene ? _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 'Penaeus vannamei nodavirus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 430911 _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 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 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 # 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 LYS 2 2 ? ? ? A . n A 1 3 ARG 3 3 ? ? ? A . n A 1 4 LYS 4 4 ? ? ? A . n A 1 5 PRO 5 5 ? ? ? A . n A 1 6 ASN 6 6 ? ? ? A . n A 1 7 SER 7 7 ? ? ? A . n A 1 8 ASN 8 8 ? ? ? A . n A 1 9 GLN 9 9 ? ? ? A . n A 1 10 ASN 10 10 ? ? ? A . n A 1 11 ASN 11 11 ? ? ? A . n A 1 12 ASN 12 12 ? ? ? A . n A 1 13 ASN 13 13 ? ? ? A . n A 1 14 ASN 14 14 ? ? ? A . n A 1 15 ARG 15 15 ? ? ? A . n A 1 16 GLY 16 16 ? ? ? A . n A 1 17 ASN 17 17 ? ? ? A . n A 1 18 GLY 18 18 ? ? ? A . n A 1 19 ASN 19 19 ? ? ? A . n A 1 20 GLY 20 20 ? ? ? A . n A 1 21 LEU 21 21 ? ? ? A . n A 1 22 ARG 22 22 ? ? ? A . n A 1 23 ARG 23 23 ? ? ? A . n A 1 24 VAL 24 24 ? ? ? A . n A 1 25 ARG 25 25 ? ? ? A . n A 1 26 GLY 26 26 ? ? ? A . n A 1 27 GLY 27 27 ? ? ? A . n A 1 28 ARG 28 28 ? ? ? A . n A 1 29 VAL 29 29 ? ? ? A . n A 1 30 SER 30 30 ? ? ? A . n A 1 31 ARG 31 31 ? ? ? A . n A 1 32 ARG 32 32 ? ? ? A . n A 1 33 ARG 33 33 ? ? ? A . n A 1 34 VAL 34 34 ? ? ? A . n A 1 35 VAL 35 35 ? ? ? A . n A 1 36 ILE 36 36 ? ? ? A . n A 1 37 ASN 37 37 ? ? ? A . n A 1 38 GLN 38 38 ? ? ? A . n A 1 39 SER 39 39 ? ? ? A . n A 1 40 ASN 40 40 ? ? ? A . n A 1 41 GLN 41 41 ? ? ? A . n A 1 42 SER 42 42 ? ? ? A . n A 1 43 MET 43 43 ? ? ? A . n A 1 44 PRO 44 44 ? ? ? A . n A 1 45 VAL 45 45 ? ? ? A . n A 1 46 THR 46 46 ? ? ? A . n A 1 47 SER 47 47 ? ? ? A . n A 1 48 ASN 48 48 ? ? ? A . n A 1 49 GLY 49 49 ? ? ? A . n A 1 50 ALA 50 50 ? ? ? A . n A 1 51 PRO 51 51 ? ? ? A . n A 1 52 LEU 52 52 ? ? ? A . n A 1 53 GLN 53 53 ? ? ? A . n A 1 54 ALA 54 54 ? ? ? A . n A 1 55 LEU 55 55 ? ? ? A . n A 1 56 THR 56 56 ? ? ? A . n A 1 57 SER 57 57 ? ? ? A . n A 1 58 TYR 58 58 ? ? ? A . n A 1 59 SER 59 59 ? ? ? A . n A 1 60 ARG 60 60 ? ? ? A . n A 1 61 PRO 61 61 ? ? ? A . n A 1 62 ASN 62 62 ? ? ? A . n A 1 63 VAL 63 63 ? ? ? A . n A 1 64 ASN 64 64 ? ? ? A . n A 1 65 LYS 65 65 ? ? ? A . n A 1 66 ILE 66 66 66 ILE ILE A . n A 1 67 SER 67 67 67 SER SER A . n A 1 68 ARG 68 68 68 ARG ARG A . n A 1 69 LEU 69 69 69 LEU LEU A . n A 1 70 GLY 70 70 70 GLY GLY A . n A 1 71 PRO 71 71 71 PRO PRO A . n A 1 72 ASP 72 72 72 ASP ASP A . n A 1 73 SER 73 73 73 SER SER A . n A 1 74 ASP 74 74 74 ASP ASP A . n A 1 75 PHE 75 75 75 PHE PHE A . n A 1 76 LEU 76 76 76 LEU LEU A . n A 1 77 THR 77 77 77 THR THR A . n A 1 78 SER 78 78 78 SER SER A . n A 1 79 VAL 79 79 79 VAL VAL A . n A 1 80 VAL 80 80 80 VAL VAL A . n A 1 81 ALA 81 81 81 ALA ALA A . n A 1 82 LYS 82 82 82 LYS LYS A . n A 1 83 ALA 83 83 83 ALA ALA A . n A 1 84 SER 84 84 84 SER SER A . n A 1 85 THR 85 85 85 THR THR A . n A 1 86 SER 86 86 86 SER SER A . n A 1 87 ILE 87 87 87 ILE ILE A . n A 1 88 VAL 88 88 88 VAL VAL A . n A 1 89 THR 89 89 89 THR THR A . n A 1 90 PRO 90 90 90 PRO PRO A . n A 1 91 ALA 91 91 91 ALA ALA A . n A 1 92 ASP 92 92 92 ASP ASP A . n A 1 93 ARG 93 93 93 ARG ARG A . n A 1 94 ILE 94 94 94 ILE ILE A . n A 1 95 LEU 95 95 95 LEU LEU A . n A 1 96 VAL 96 96 96 VAL VAL A . n A 1 97 LYS 97 97 97 LYS LYS A . n A 1 98 GLN 98 98 98 GLN GLN A . n A 1 99 PRO 99 99 99 PRO PRO A . n A 1 100 LEU 100 100 100 LEU LEU A . n A 1 101 SER 101 101 101 SER SER A . n A 1 102 ALA 102 102 102 ALA ALA A . n A 1 103 SER 103 103 103 SER SER A . n A 1 104 SER 104 104 104 SER SER A . n A 1 105 PHE 105 105 105 PHE PHE A . n A 1 106 PRO 106 106 106 PRO PRO A . n A 1 107 GLY 107 107 107 GLY GLY A . n A 1 108 THR 108 108 108 THR THR A . n A 1 109 ARG 109 109 109 ARG ARG A . n A 1 110 ILE 110 110 110 ILE ILE A . n A 1 111 THR 111 111 111 THR THR A . n A 1 112 GLY 112 112 112 GLY GLY A . n A 1 113 LEU 113 113 113 LEU LEU A . n A 1 114 SER 114 114 114 SER SER A . n A 1 115 SER 115 115 115 SER SER A . n A 1 116 TYR 116 116 116 TYR TYR A . n A 1 117 TRP 117 117 117 TRP TRP A . n A 1 118 GLU 118 118 118 GLU GLU A . n A 1 119 ARG 119 119 119 ARG ARG A . n A 1 120 TYR 120 120 120 TYR TYR A . n A 1 121 LYS 121 121 121 LYS LYS A . n A 1 122 TRP 122 122 122 TRP TRP A . n A 1 123 LEU 123 123 123 LEU LEU A . n A 1 124 SER 124 124 124 SER SER A . n A 1 125 ALA 125 125 125 ALA ALA A . n A 1 126 VAL 126 126 126 VAL VAL A . n A 1 127 ALA 127 127 127 ALA ALA A . n A 1 128 ARG 128 128 128 ARG ARG A . n A 1 129 TYR 129 129 129 TYR TYR A . n A 1 130 VAL 130 130 130 VAL VAL A . n A 1 131 PRO 131 131 131 PRO PRO A . n A 1 132 ALA 132 132 132 ALA ALA A . n A 1 133 VAL 133 133 133 VAL VAL A . n A 1 134 PRO 134 134 134 PRO PRO A . n A 1 135 ASN 135 135 135 ASN ASN A . n A 1 136 THR 136 136 136 THR THR A . n A 1 137 VAL 137 137 137 VAL VAL A . n A 1 138 ALA 138 138 138 ALA ALA A . n A 1 139 CYS 139 139 139 CYS CYS A . n A 1 140 GLN 140 140 140 GLN GLN A . n A 1 141 PHE 141 141 141 PHE PHE A . n A 1 142 VAL 142 142 142 VAL VAL A . n A 1 143 MET 143 143 143 MET MET A . n A 1 144 TYR 144 144 144 TYR TYR A . n A 1 145 ILE 145 145 145 ILE ILE A . n A 1 146 ASP 146 146 146 ASP ASP A . n A 1 147 THR 147 147 147 THR THR A . n A 1 148 ASP 148 148 148 ASP ASP A . n A 1 149 PRO 149 149 149 PRO PRO A . n A 1 150 LEU 150 150 150 LEU LEU A . n A 1 151 ASP 151 151 151 ASP ASP A . n A 1 152 ASP 152 152 152 ASP ASP A . n A 1 153 PRO 153 153 153 PRO PRO A . n A 1 154 SER 154 154 154 SER SER A . n A 1 155 ASN 155 155 155 ASN ASN A . n A 1 156 ILE 156 156 156 ILE ILE A . n A 1 157 SER 157 157 157 SER SER A . n A 1 158 ASP 158 158 158 ASP ASP A . n A 1 159 ASP 159 159 159 ASP ASP A . n A 1 160 ASN 160 160 160 ASN ASN A . n A 1 161 GLN 161 161 161 GLN GLN A . n A 1 162 ILE 162 162 162 ILE ILE A . n A 1 163 VAL 163 163 163 VAL VAL A . n A 1 164 ARG 164 164 164 ARG ARG A . n A 1 165 GLN 165 165 165 GLN GLN A . n A 1 166 ALA 166 166 166 ALA ALA A . n A 1 167 VAL 167 167 167 VAL VAL A . n A 1 168 SER 168 168 168 SER SER A . n A 1 169 GLN 169 169 169 GLN GLN A . n A 1 170 ALA 170 170 170 ALA ALA A . n A 1 171 GLY 171 171 171 GLY GLY A . n A 1 172 SER 172 172 172 SER SER A . n A 1 173 ASN 173 173 173 ASN ASN A . n A 1 174 GLN 174 174 174 GLN GLN A . n A 1 175 PHE 175 175 175 PHE PHE A . n A 1 176 ASN 176 176 176 ASN ASN A . n A 1 177 PHE 177 177 177 PHE PHE A . n A 1 178 ASN 178 178 178 ASN ASN A . n A 1 179 THR 179 179 179 THR THR A . n A 1 180 SER 180 180 180 SER SER A . n A 1 181 LYS 181 181 181 LYS LYS A . n A 1 182 THR 182 182 182 THR THR A . n A 1 183 VAL 183 183 183 VAL VAL A . n A 1 184 PRO 184 184 184 PRO PRO A . n A 1 185 LEU 185 185 185 LEU LEU A . n A 1 186 ILE 186 186 186 ILE ILE A . n A 1 187 VAL 187 187 187 VAL VAL A . n A 1 188 ARG 188 188 188 ARG ARG A . n A 1 189 ALA 189 189 189 ALA ALA A . n A 1 190 ASP 190 190 190 ASP ASP A . n A 1 191 ASN 191 191 191 ASN ASN A . n A 1 192 GLN 192 192 192 GLN GLN A . n A 1 193 TYR 193 193 193 TYR TYR A . n A 1 194 TYR 194 194 194 TYR TYR A . n A 1 195 TYR 195 195 195 TYR TYR A . n A 1 196 THR 196 196 196 THR THR A . n A 1 197 GLY 197 197 197 GLY GLY A . n A 1 198 VAL 198 198 198 VAL VAL A . n A 1 199 ASP 199 199 199 ASP ASP A . n A 1 200 LYS 200 200 200 LYS LYS A . n A 1 201 GLN 201 201 201 GLN GLN A . n A 1 202 ASN 202 202 202 ASN ASN A . n A 1 203 LEU 203 203 203 LEU LEU A . n A 1 204 ARG 204 204 204 ARG ARG A . n A 1 205 PHE 205 205 205 PHE PHE A . n A 1 206 SER 206 206 206 SER SER A . n A 1 207 LEU 207 207 207 LEU LEU A . n A 1 208 GLN 208 208 208 GLN GLN A . n A 1 209 GLY 209 209 209 GLY GLY A . n A 1 210 ILE 210 210 210 ILE ILE A . n A 1 211 LEU 211 211 211 LEU LEU A . n A 1 212 TYR 212 212 212 TYR TYR A . n A 1 213 ILE 213 213 213 ILE ILE A . n A 1 214 ILE 214 214 214 ILE ILE A . n A 1 215 GLN 215 215 215 GLN GLN A . n A 1 216 VAL 216 216 216 VAL VAL A . n A 1 217 THR 217 217 217 THR THR A . n A 1 218 ASP 218 218 218 ASP ASP A . n A 1 219 LEU 219 219 219 LEU LEU A . n A 1 220 ILE 220 220 220 ILE ILE A . n A 1 221 ASN 221 221 221 ASN ASN A . n A 1 222 PHE 222 222 222 PHE PHE A . n A 1 223 ASN 223 223 223 ASN ASN A . n A 1 224 GLY 224 224 224 GLY GLY A . n A 1 225 GLU 225 225 225 GLU GLU A . n A 1 226 LEU 226 226 226 LEU LEU A . n A 1 227 ILE 227 227 227 ILE ILE A . n A 1 228 THR 228 228 228 THR THR A . n A 1 229 GLN 229 229 229 GLN GLN A . n A 1 230 ASP 230 230 230 ASP ASP A . n A 1 231 LEU 231 231 231 LEU LEU A . n A 1 232 THR 232 232 232 THR THR A . n A 1 233 CYS 233 233 233 CYS CYS A . n A 1 234 GLY 234 234 234 GLY GLY A . n A 1 235 SER 235 235 235 SER SER A . n A 1 236 LEU 236 236 236 LEU LEU A . n A 1 237 PHE 237 237 237 PHE PHE A . n A 1 238 LEU 238 238 238 LEU LEU A . n A 1 239 ASP 239 239 239 ASP ASP A . n A 1 240 TRP 240 240 240 TRP TRP A . n A 1 241 LEU 241 241 241 LEU LEU A . n A 1 242 VAL 242 242 242 VAL VAL A . n A 1 243 ASN 243 243 243 ASN ASN A . n A 1 244 PHE 244 244 244 PHE PHE A . n A 1 245 SER 245 245 245 SER SER A . n A 1 246 ILE 246 246 246 ILE ILE A . n A 1 247 PRO 247 247 247 PRO PRO A . n A 1 248 GLN 248 248 248 GLN GLN A . n A 1 249 ILE 249 249 249 ILE ILE A . n A 1 250 ASN 250 250 250 ASN ASN A . n A 1 251 PRO 251 251 251 PRO PRO A . n A 1 252 THR 252 252 252 THR THR A . n A 1 253 SER 253 253 253 SER SER A . n A 1 254 LEU 254 254 254 LEU LEU A . n A 1 255 THR 255 255 255 THR THR A . n A 1 256 ASP 256 256 256 ASP ASP A . n A 1 257 VAL 257 257 257 VAL VAL A . n A 1 258 ARG 258 258 258 ARG ARG A . n A 1 259 VAL 259 259 259 VAL VAL A . n A 1 260 ASP 260 260 260 ASP ASP A . n A 1 261 LYS 261 261 261 LYS LYS A . n A 1 262 ALA 262 262 262 ALA ALA A . n A 1 263 VAL 263 263 263 VAL VAL A . n A 1 264 ASN 264 264 264 ASN ASN A . n A 1 265 PHE 265 265 265 PHE PHE A . n A 1 266 ILE 266 266 266 ILE ILE A . n A 1 267 LYS 267 267 267 LYS LYS A . n A 1 268 PRO 268 268 268 PRO PRO A . n A 1 269 GLU 269 269 269 GLU GLU A . n A 1 270 VAL 270 270 270 VAL VAL A . n A 1 271 SER 271 271 271 SER SER A . n A 1 272 GLY 272 272 272 GLY GLY A . n A 1 273 VAL 273 273 273 VAL VAL A . n A 1 274 ALA 274 274 274 ALA ALA A . n A 1 275 GLU 275 275 275 GLU GLU A . n A 1 276 ILE 276 276 276 ILE ILE A . n A 1 277 GLN 277 277 277 GLN GLN A . n A 1 278 THR 278 278 278 THR THR A . n A 1 279 VAL 279 279 279 VAL VAL A . n A 1 280 THR 280 280 280 THR THR A . n A 1 281 GLY 281 281 281 GLY GLY A . n A 1 282 LEU 282 282 282 LEU LEU A . n A 1 283 SER 283 283 283 SER SER A . n A 1 284 PRO 284 284 284 PRO PRO A . n A 1 285 SER 285 285 285 SER SER A . n A 1 286 THR 286 286 286 THR THR A . n A 1 287 SER 287 287 287 SER SER A . n A 1 288 TYR 288 288 288 TYR TYR A . n A 1 289 LEU 289 289 289 LEU LEU A . n A 1 290 LEU 290 290 290 LEU LEU A . n A 1 291 THR 291 291 291 THR THR A . n A 1 292 PRO 292 292 292 PRO PRO A . n A 1 293 ALA 293 293 293 ALA ALA A . n A 1 294 PHE 294 294 294 PHE PHE A . n A 1 295 LEU 295 295 295 LEU LEU A . n A 1 296 GLU 296 296 296 GLU GLU A . n A 1 297 GLN 297 297 297 GLN GLN A . n A 1 298 ASN 298 298 298 ASN ASN A . n A 1 299 PHE 299 299 299 PHE PHE A . n A 1 300 GLN 300 300 300 GLN GLN A . n A 1 301 SER 301 301 301 SER SER A . n A 1 302 GLU 302 302 302 GLU GLU A . n A 1 303 ALA 303 303 303 ALA ALA A . n A 1 304 GLY 304 304 304 GLY GLY A . n A 1 305 ILE 305 305 305 ILE ILE A . n A 1 306 TYR 306 306 306 TYR TYR A . n A 1 307 ILE 307 307 307 ILE ILE A . n A 1 308 LEU 308 308 308 LEU LEU A . n A 1 309 SER 309 309 309 SER SER A . n A 1 310 ALA 310 310 310 ALA ALA A . n A 1 311 THR 311 311 311 THR THR A . n A 1 312 PRO 312 312 312 PRO PRO A . n A 1 313 VAL 313 313 313 VAL VAL A . n A 1 314 GLU 314 314 314 GLU GLU A . n A 1 315 GLY 315 315 315 GLY GLY A . n A 1 316 GLU 316 316 316 GLU GLU A . n A 1 317 GLY 317 317 317 GLY GLY A . n A 1 318 THR 318 318 318 THR THR A . n A 1 319 ILE 319 319 319 ILE ILE A . n A 1 320 SER 320 320 320 SER SER A . n A 1 321 ILE 321 321 321 ILE ILE A . n A 1 322 ASN 322 322 322 ASN ASN A . n A 1 323 MET 323 323 323 MET MET A . n A 1 324 ASP 324 324 324 ASP ASP A . n A 1 325 PRO 325 325 325 PRO PRO A . n A 1 326 THR 326 326 326 THR THR A . n A 1 327 VAL 327 327 327 VAL VAL A . n A 1 328 THR 328 328 328 THR THR A . n A 1 329 THR 329 329 329 THR THR A . n A 1 330 VAL 330 330 330 VAL VAL A . n A 1 331 SER 331 331 331 SER SER A . n A 1 332 GLY 332 332 332 GLY GLY A . n A 1 333 PHE 333 333 333 PHE PHE A . n A 1 334 ILE 334 334 334 ILE ILE A . n A 1 335 LYS 335 335 335 LYS LYS A . n A 1 336 VAL 336 336 336 VAL VAL A . n A 1 337 LYS 337 337 337 LYS LYS A . n A 1 338 THR 338 338 338 THR THR A . n A 1 339 ASP 339 339 339 ASP ASP A . n A 1 340 THR 340 340 340 THR THR A . n A 1 341 PHE 341 341 341 PHE PHE A . n A 1 342 GLY 342 342 342 GLY GLY A . n A 1 343 THR 343 343 343 THR THR A . n A 1 344 PHE 344 344 344 PHE PHE A . n A 1 345 ASP 345 345 345 ASP ASP A . n A 1 346 LEU 346 346 346 LEU LEU A . n A 1 347 SER 347 347 347 SER SER A . n A 1 348 VAL 348 348 348 VAL VAL A . n A 1 349 VAL 349 349 349 VAL VAL A . n A 1 350 LEU 350 350 350 LEU LEU A . n A 1 351 THR 351 351 351 THR THR A . n A 1 352 THR 352 352 352 THR THR A . n A 1 353 ALA 353 353 353 ALA ALA A . n A 1 354 SER 354 354 354 SER SER A . n A 1 355 LYS 355 355 355 LYS LYS A . n A 1 356 LYS 356 356 356 LYS LYS A . n A 1 357 GLN 357 357 357 GLN GLN A . n A 1 358 THR 358 358 358 THR THR A . n A 1 359 THR 359 359 359 THR THR A . n A 1 360 GLY 360 360 360 GLY GLY A . n A 1 361 PHE 361 361 361 PHE PHE A . n A 1 362 ASN 362 362 362 ASN ASN A . n A 1 363 ILE 363 363 363 ILE ILE A . n A 1 364 ILE 364 364 364 ILE ILE A . n A 1 365 ALA 365 365 365 ALA ALA A . n A 1 366 ALA 366 366 366 ALA ALA A . n A 1 367 THR 367 367 367 THR THR A . n A 1 368 SER 368 368 368 SER SER A . n # _software.citation_id ? _software.classification refinement _software.compiler_name ? _software.compiler_version ? _software.contact_author ? _software.contact_author_email ? _software.date ? _software.description ? _software.dependencies ? _software.hardware ? _software.language ? _software.location ? _software.mods ? _software.name PHENIX _software.os ? _software.os_version ? _software.type ? _software.version 1.11.1_2575: _software.pdbx_ordinal 1 # _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 6AB5 _cell.details ? _cell.formula_units_Z ? _cell.length_a 1.0 _cell.length_a_esd ? _cell.length_b 1.0 _cell.length_b_esd ? _cell.length_c 1.0 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 1 _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 ? # _symmetry.entry_id 6AB5 _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 6AB5 _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean ? _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 6AB5 _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high . _refine.ls_d_res_low ? _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_R_free ? _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs ? _refine.ls_percent_reflns_R_free ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work ? _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id ? _refine.overall_SU_B ? _refine.overall_SU_ML ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # 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' ? 0.006 ? 2376 ? f_bond_d ? ? 'ELECTRON MICROSCOPY' ? 0.847 ? 3250 ? f_angle_d ? ? 'ELECTRON MICROSCOPY' ? 8.076 ? 1420 ? f_dihedral_angle_d ? ? 'ELECTRON MICROSCOPY' ? 0.060 ? 396 ? f_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.007 ? 415 ? f_plane_restr ? ? # _struct.entry_id 6AB5 _struct.title 'Cryo-EM structure of T=1 Penaeus vannamei nodavirus' _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 6AB5 _struct_keywords.text 'Nodaviridae, shrimp nodavirus, VIRUS LIKE PARTICLE' _struct_keywords.pdbx_keywords 'VIRUS LIKE PARTICLE' # _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 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code A5H7Q8_9VIRU _struct_ref.pdbx_db_accession A5H7Q8 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MKRKPNSNQNNNNNRGNGNGLRRVRGGRVSRRRVVINQSNQSMPVTSNGAPLQALTSYSRPNVNKISRLGPDSDFLTSVV AKASTSIVTPADRILVKQPLSASSFPGTRITGLSSYWERYKWLSAVARYVPAVPNTVACQFVMYIDTDPLDDPSNISDDN QIVRQAVSQAGSNQFNFNTSKTVPLIVRADNQYYYTGVDKQNLRFSLQGILYIIQVTDLINFNGELITQDLTCGSLFLDW LVNFSIPQINPTSLTDVRVDKAVNFIKPEVSGVAEIQTVTGLSPSTSYLLTPAFLEQNFQSEAGIYILSATPVEGEGTIS INMDPTVTTVSGFIKVKTDTFGTFDLSVVLTTASKKQTTGFNIIAATS ; _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 6AB5 _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 368 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession A5H7Q8 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 368 _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 368 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 'complete icosahedral assembly' ? 60-meric 60 2 'icosahedral asymmetric unit' ? monomeric 1 3 'icosahedral pentamer' ? pentameric 5 4 'icosahedral 23 hexamer' ? hexameric 6 5 'icosahedral asymmetric unit, std point frame' ? monomeric 1 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 0 ? 1 MORE 0 ? 1 'SSA (A^2)' 15700 ? # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 '(1-60)' A 2 1 A 3 '(1-5)' A 4 '(1,2,6,10,23,24)' A 5 P A # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'assay for oligomerization' _pdbx_struct_assembly_auth_evidence.details ? # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] P 'transform to point frame' ? ? -0.50000000 0.80901699 0.30901699 -0.56830 -0.30901699 -0.50000000 0.80901699 -0.34153 0.80901699 0.30901699 0.50000000 0.89282 1 'identity operation' 1_555 x,y,z 1.00000000 0.00000000 0.00000000 0.00000 0.00000000 1.00000000 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 0.00000 2 'point symmetry operation' ? ? 0.50000000 -0.80901700 0.30901699 -0.54710 0.80901699 0.30901699 -0.50000000 0.91143 0.30901700 0.50000000 0.80901699 0.33813 3 'point symmetry operation' ? ? -0.30901699 -0.50000000 0.80901699 -1.45353 0.50000000 -0.80901700 -0.30901699 0.58140 0.80901700 0.30901699 0.50000000 0.89833 4 'point symmetry operation' ? ? -0.30901700 0.50000000 0.80901699 -1.46663 -0.50000000 -0.80901699 0.30901700 -0.53400 0.80901699 -0.30901700 0.50000000 0.90643 5 'point symmetry operation' ? ? 0.50000000 0.80901699 0.30901699 -0.56830 -0.80901699 0.30901700 0.50000000 -0.89332 0.30901699 -0.50000000 0.80901700 0.35123 6 'point symmetry operation' ? ? 0.30901699 0.49999999 0.80901700 -0.77938 0.50000001 -0.80901699 0.30901700 0.57800 0.80901699 0.30901699 -0.50000000 0.90384 7 'point symmetry operation' ? ? 0.80901699 0.30901699 0.50000000 -0.21918 -0.30901699 -0.50000000 0.80901700 -0.32843 0.50000000 -0.80901700 -0.30901699 0.57381 8 'point symmetry operation' ? ? 0.80901700 -0.30901699 0.50000000 -0.21108 -0.30901699 0.50000000 0.80901699 -0.34153 -0.50000000 -0.80901699 0.30901700 -0.54159 9 'point symmetry operation' ? ? 0.30901700 -0.50000000 0.80901699 -0.76627 0.50000000 0.80901699 0.30901700 0.55680 -0.80901699 0.30901700 0.50000000 -0.90092 10 'point symmetry operation' ? ? 0.00000000 0.00000000 1.00000000 -1.11750 1.00000000 0.00000000 0.00000000 1.12510 0.00000000 1.00000000 0.00000000 -0.00759 11 'point symmetry operation' ? ? -0.80901699 0.30901700 -0.50000001 -2.01291 0.30901699 -0.50000000 -0.80901699 0.36774 -0.49999999 -0.80901700 0.30901699 -0.54159 12 'point symmetry operation' ? ? -0.30901700 0.50000000 -0.80901700 -1.45772 -0.50000000 -0.80901699 -0.30901700 -0.53059 -0.80901700 0.30901699 0.50000000 -0.90092 13 'point symmetry operation' ? ? 0.00000000 0.00000000 -1.00000000 -1.10649 -1.00000000 0.00000000 0.00000000 -1.09889 0.00000000 1.00000000 0.00000000 -0.00759 14 'point symmetry operation' ? ? -0.30901700 -0.50000000 -0.80901699 -1.44461 -0.50000000 0.80901699 -0.30901700 -0.55179 0.80901699 0.30901700 -0.50000000 0.90384 15 'point symmetry operation' ? ? -0.80901700 -0.30901699 -0.50000000 -2.00482 0.30901699 0.50000000 -0.80901700 0.35463 0.50000000 -0.80901699 -0.30901699 0.57381 16 'point symmetry operation' ? ? -0.50000000 -0.80901699 -0.30901699 -1.65569 -0.80901700 0.30901699 0.49999999 -0.89332 -0.30901700 0.50000001 -0.80901699 -0.34021 17 'point symmetry operation' ? ? -1.00000000 0.00000000 0.00000000 -2.22399 0.00000000 1.00000000 0.00000000 0.00000 0.00000000 0.00000000 -1.00000000 0.01102 18 'point symmetry operation' ? ? -0.50000000 0.80901700 -0.30901700 -1.67689 0.80901699 0.30901700 -0.50000000 0.91143 -0.30901699 -0.50000000 -0.80901700 -0.32711 19 'point symmetry operation' ? ? 0.30901700 0.50000000 -0.80901699 -0.77047 0.50000000 -0.80901699 -0.30901700 0.58140 -0.80901699 -0.30901700 -0.50000000 -0.88731 20 'point symmetry operation' ? ? 0.30901700 -0.50000000 -0.80901699 -0.75736 -0.50000000 -0.80901700 0.30901699 -0.53400 -0.80901700 0.30901700 -0.50000000 -0.89541 21 'point symmetry operation' ? ? -0.49999999 -0.80901700 0.30901699 -1.65909 0.80901699 -0.30901700 0.50000001 0.91402 -0.30901699 0.50000000 0.80901699 -0.34912 22 'point symmetry operation' ? ? -0.80901700 0.30901699 0.50000000 -2.01842 0.30901700 -0.50000000 0.80901700 0.35882 0.50000000 0.80901699 0.30901700 0.54920 23 'point symmetry operation' ? ? 0.00000000 1.00000000 0.00000000 -1.12510 0.00000000 0.00000000 1.00000000 0.00759 1.00000000 0.00000000 0.00000000 1.11750 24 'point symmetry operation' ? ? 0.80901699 0.30901700 -0.50000000 -0.21367 0.30901700 0.50000000 0.80901699 0.34572 0.50000000 -0.80901699 0.30901700 0.57040 25 'point symmetry operation' ? ? 0.50000000 -0.80901699 -0.30901699 -0.54370 0.80901700 0.30901699 0.50000000 0.90592 -0.30901699 -0.50000000 0.80901700 -0.33602 26 'point symmetry operation' ? ? -0.30901700 0.50000001 -0.80901699 -1.45772 0.50000000 0.80901699 0.30901699 0.55680 0.80901700 -0.30901699 -0.49999999 0.91193 27 'point symmetry operation' ? ? 0.00000000 0.00000000 -1.00000000 -1.10649 1.00000000 0.00000000 0.00000000 1.12510 0.00000000 -1.00000000 0.00000000 0.01861 28 'point symmetry operation' ? ? -0.30901699 -0.50000000 -0.80901700 -1.44461 0.50000000 -0.80901700 0.30901700 0.57800 -0.80901699 -0.30901700 0.50000000 -0.89282 29 'point symmetry operation' ? ? -0.80901699 -0.30901700 -0.50000000 -2.00482 -0.30901700 -0.50000000 0.80901699 -0.32843 -0.50000000 0.80901699 0.30901700 -0.56279 30 'point symmetry operation' ? ? -0.80901700 0.30901700 -0.50000000 -2.01291 -0.30901700 0.50000000 0.80901699 -0.34153 0.50000000 0.80901700 -0.30901699 0.55261 31 'point symmetry operation' ? ? 0.00000000 0.00000000 1.00000000 -1.11750 -1.00000000 0.00000000 0.00000000 -1.09889 0.00000000 -1.00000000 0.00000000 0.01861 32 'point symmetry operation' ? ? 0.30901700 0.50000000 0.80901699 -0.77938 -0.50000000 0.80901700 -0.30901699 -0.55179 -0.80901699 -0.30901699 0.50000000 -0.89282 33 'point symmetry operation' ? ? 0.80901700 0.30901699 0.50000000 -0.21918 0.30901699 0.50000000 -0.80901699 0.35463 -0.50000000 0.80901700 0.30901699 -0.56279 34 'point symmetry operation' ? ? 0.80901699 -0.30901700 0.50000000 -0.21108 0.30901700 -0.50000000 -0.80901699 0.36774 0.50000000 0.80901699 -0.30901700 0.55261 35 'point symmetry operation' ? ? 0.30901699 -0.50000000 0.80901700 -0.76627 -0.50000000 -0.80901699 -0.30901699 -0.53059 0.80901699 -0.30901700 -0.50000000 0.91193 36 'point symmetry operation' ? ? 0.80901699 0.30901699 -0.50000000 -0.21367 -0.30901699 -0.49999999 -0.80901700 -0.31952 -0.50000001 0.80901699 -0.30901700 -0.55939 37 'point symmetry operation' ? ? 0.50000000 -0.80901700 -0.30901699 -0.54370 -0.80901699 -0.30901699 -0.50000000 -0.87972 0.30901699 0.50000000 -0.80901700 0.34704 38 'point symmetry operation' ? ? -0.50000000 -0.80901699 0.30901700 -1.65909 -0.80901700 0.30901699 -0.50000000 -0.88782 0.30901699 -0.50000000 -0.80901699 0.36014 39 'point symmetry operation' ? ? -0.80901699 0.30901700 0.50000000 -2.01842 -0.30901700 0.50000000 -0.80901699 -0.33262 -0.50000000 -0.80901699 -0.30901700 -0.53819 40 'point symmetry operation' ? ? 0.00000000 1.00000000 0.00000000 -1.12510 0.00000000 0.00000000 -1.00000000 0.01861 -1.00000000 0.00000000 0.00000000 -1.10649 41 'point symmetry operation' ? ? -0.50000001 0.80901699 -0.30901700 -1.67689 -0.80901699 -0.30901699 0.50000000 -0.88523 0.30901699 0.49999999 0.80901700 0.33813 42 'point symmetry operation' ? ? 0.30901699 0.50000000 -0.80901700 -0.77047 -0.50000000 0.80901700 0.30901699 -0.55520 0.80901699 0.30901699 0.50000000 0.89833 43 'point symmetry operation' ? ? 0.30901699 -0.50000000 -0.80901699 -0.75736 0.50000000 0.80901699 -0.30901700 0.56020 0.80901700 -0.30901699 0.50000000 0.90643 44 'point symmetry operation' ? ? -0.50000000 -0.80901699 -0.30901700 -1.65569 0.80901699 -0.30901700 -0.50000000 0.91953 0.30901700 -0.50000000 0.80901699 0.35123 45 'point symmetry operation' ? ? -1.00000000 0.00000000 0.00000000 -2.22399 0.00000000 -1.00000000 0.00000000 0.02621 0.00000000 0.00000000 1.00000000 0.00000 46 'point symmetry operation' ? ? 0.00000000 -1.00000000 0.00000000 -1.09889 0.00000000 0.00000000 -1.00000000 0.01861 1.00000000 0.00000000 0.00000000 1.11750 47 'point symmetry operation' ? ? -0.80901699 -0.30901699 0.50000000 -2.01032 -0.30901700 -0.50000000 -0.80901699 -0.31952 0.50000000 -0.80901700 0.30901699 0.57040 48 'point symmetry operation' ? ? -0.50000000 0.80901700 0.30901699 -1.68030 -0.80901700 -0.30901699 -0.50000000 -0.87972 -0.30901699 -0.50000000 0.80901699 -0.33602 49 'point symmetry operation' ? ? 0.50000000 0.80901699 -0.30901700 -0.56490 -0.80901699 0.30901700 -0.50000000 -0.88782 -0.30901700 0.50000000 0.80901699 -0.34912 50 'point symmetry operation' ? ? 0.80901699 -0.30901700 -0.50000000 -0.20557 -0.30901699 0.50000000 -0.80901700 -0.33262 0.50000000 0.80901699 0.30901699 0.54920 51 'point symmetry operation' ? ? 0.80901700 -0.30901699 -0.49999999 -0.20557 0.30901700 -0.50000001 0.80901699 0.35882 -0.50000000 -0.80901699 -0.30901699 -0.53819 52 'point symmetry operation' ? ? 0.00000000 -1.00000000 0.00000000 -1.09889 0.00000000 0.00000000 1.00000000 0.00759 -1.00000000 0.00000000 0.00000000 -1.10649 53 'point symmetry operation' ? ? -0.80901699 -0.30901700 0.50000000 -2.01032 0.30901699 0.50000000 0.80901700 0.34572 -0.50000000 0.80901700 -0.30901700 -0.55939 54 'point symmetry operation' ? ? -0.50000000 0.80901699 0.30901700 -1.68030 0.80901699 0.30901700 0.50000000 0.90592 0.30901700 0.50000000 -0.80901699 0.34704 55 'point symmetry operation' ? ? 0.50000000 0.80901700 -0.30901699 -0.56490 0.80901700 -0.30901700 0.50000000 0.91402 0.30901700 -0.50000000 -0.80901699 0.36014 56 'point symmetry operation' ? ? -0.30901699 0.50000000 0.80901699 -1.46663 0.49999999 0.80901700 -0.30901699 0.56020 -0.80901699 0.30901700 -0.50000001 -0.89541 57 'point symmetry operation' ? ? 0.50000000 0.80901699 0.30901700 -0.56830 0.80901700 -0.30901699 -0.50000000 0.91953 -0.30901700 0.50000000 -0.80901700 -0.34021 58 'point symmetry operation' ? ? 1.00000000 0.00000000 0.00000000 0.00000 0.00000000 -1.00000000 0.00000000 0.02621 0.00000000 0.00000000 -1.00000000 0.01102 59 'point symmetry operation' ? ? 0.50000000 -0.80901699 0.30901700 -0.54710 -0.80901699 -0.30901700 0.50000000 -0.88523 -0.30901700 -0.50000000 -0.80901699 -0.32711 60 'point symmetry operation' ? ? -0.30901699 -0.50000000 0.80901700 -1.45353 -0.50000000 0.80901699 0.30901699 -0.55520 -0.80901700 -0.30901699 -0.50000000 -0.88731 # 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 THR A 89 ? ASP A 92 ? THR A 89 ASP A 92 5 ? 4 HELX_P HELX_P2 AA2 THR A 108 ? SER A 115 ? THR A 108 SER A 115 1 ? 8 HELX_P HELX_P3 AA3 ASP A 152 ? ILE A 156 ? ASP A 152 ILE A 156 5 ? 5 HELX_P HELX_P4 AA4 ASN A 160 ? GLN A 169 ? ASN A 160 GLN A 169 1 ? 10 HELX_P HELX_P5 AA5 ASN A 202 ? SER A 206 ? ASN A 202 SER A 206 5 ? 5 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id GLY _struct_mon_prot_cis.label_seq_id 70 _struct_mon_prot_cis.label_asym_id A _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id GLY _struct_mon_prot_cis.auth_seq_id 70 _struct_mon_prot_cis.auth_asym_id A _struct_mon_prot_cis.pdbx_label_comp_id_2 PRO _struct_mon_prot_cis.pdbx_label_seq_id_2 71 _struct_mon_prot_cis.pdbx_label_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 PRO _struct_mon_prot_cis.pdbx_auth_seq_id_2 71 _struct_mon_prot_cis.pdbx_auth_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle 1.03 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 4 ? AA2 ? 4 ? AA3 ? 2 ? AA4 ? 8 ? # 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 ? anti-parallel AA2 1 2 ? anti-parallel AA2 2 3 ? anti-parallel AA2 3 4 ? anti-parallel AA3 1 2 ? anti-parallel AA4 1 2 ? anti-parallel AA4 2 3 ? anti-parallel AA4 3 4 ? anti-parallel AA4 4 5 ? anti-parallel AA4 5 6 ? anti-parallel AA4 6 7 ? anti-parallel AA4 7 8 ? anti-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 SER A 67 ? ALA A 81 ? SER A 67 ALA A 81 AA1 2 LEU A 231 ? PHE A 244 ? LEU A 231 PHE A 244 AA1 3 ALA A 127 ? PRO A 131 ? ALA A 127 PRO A 131 AA1 4 LYS A 181 ? VAL A 183 ? LYS A 181 VAL A 183 AA2 1 ILE A 94 ? PRO A 99 ? ILE A 94 PRO A 99 AA2 2 ILE A 210 ? GLN A 215 ? ILE A 210 GLN A 215 AA2 3 GLN A 140 ? ASP A 146 ? GLN A 140 ASP A 146 AA2 4 ASN A 173 ? ASN A 176 ? ASN A 173 ASN A 176 AA3 1 ARG A 119 ? TYR A 120 ? ARG A 119 TYR A 120 AA3 2 TYR A 194 ? TYR A 195 ? TYR A 194 TYR A 195 AA4 1 VAL A 257 ? ASN A 264 ? VAL A 257 ASN A 264 AA4 2 GLY A 360 ? ALA A 366 ? GLY A 360 ALA A 366 AA4 3 SER A 287 ? PRO A 292 ? SER A 287 PRO A 292 AA4 4 THR A 328 ? LYS A 337 ? THR A 328 LYS A 337 AA4 5 GLU A 316 ? MET A 323 ? GLU A 316 MET A 323 AA4 6 ILE A 307 ? PRO A 312 ? ILE A 307 PRO A 312 AA4 7 PHE A 344 ? LEU A 350 ? PHE A 344 LEU A 350 AA4 8 GLU A 275 ? VAL A 279 ? GLU A 275 VAL A 279 # 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 LEU A 76 ? N LEU A 76 O LEU A 236 ? O LEU A 236 AA1 2 3 O PHE A 237 ? O PHE A 237 N ARG A 128 ? N ARG A 128 AA1 3 4 N ALA A 127 ? N ALA A 127 O VAL A 183 ? O VAL A 183 AA2 1 2 N GLN A 98 ? N GLN A 98 O LEU A 211 ? O LEU A 211 AA2 2 3 O ILE A 214 ? O ILE A 214 N VAL A 142 ? N VAL A 142 AA2 3 4 N PHE A 141 ? N PHE A 141 O PHE A 175 ? O PHE A 175 AA3 1 2 N TYR A 120 ? N TYR A 120 O TYR A 194 ? O TYR A 194 AA4 1 2 N ASP A 260 ? N ASP A 260 O ILE A 363 ? O ILE A 363 AA4 2 3 O ASN A 362 ? O ASN A 362 N THR A 291 ? N THR A 291 AA4 3 4 N LEU A 290 ? N LEU A 290 O ILE A 334 ? O ILE A 334 AA4 4 5 O LYS A 335 ? O LYS A 335 N GLU A 316 ? N GLU A 316 AA4 5 6 O ILE A 321 ? O ILE A 321 N LEU A 308 ? N LEU A 308 AA4 6 7 N THR A 311 ? N THR A 311 O SER A 347 ? O SER A 347 AA4 7 8 O VAL A 348 ? O VAL A 348 N GLU A 275 ? N GLU A 275 # 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 NH2 A ARG 188 ? ? CB A GLN 192 ? ? 1.95 2 1 NH2 A ARG 188 ? ? CG A GLN 192 ? ? 2.18 3 1 O A PHE 299 ? ? NZ A LYS 355 ? ? 2.19 # 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 LYS A 200 ? ? -88.71 -158.71 2 1 ASN A 221 ? ? -119.88 -166.70 3 1 LEU A 241 ? ? -160.49 111.35 4 1 ILE A 246 ? ? 60.05 80.62 5 1 ASN A 250 ? ? 61.70 81.87 6 1 PRO A 251 ? ? -66.14 -174.66 7 1 GLU A 296 ? ? 61.13 62.28 # _pdbx_point_symmetry.entry_id 6AB5 _pdbx_point_symmetry.Schoenflies_symbol I # _em_3d_fitting.entry_id 6AB5 _em_3d_fitting.id 1 _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_protocol ? _em_3d_fitting.ref_space ? _em_3d_fitting.target_criteria ? _em_3d_fitting.method ? # _em_3d_reconstruction.entry_id 6AB5 _em_3d_reconstruction.id 1 _em_3d_reconstruction.algorithm 'FOURIER SPACE' _em_3d_reconstruction.details ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.num_particles 70543 _em_3d_reconstruction.resolution 3.7 _em_3d_reconstruction.resolution_method 'FSC 0.143 CUT-OFF' _em_3d_reconstruction.symmetry_type POINT _em_3d_reconstruction.method ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.citation_id ? _em_3d_reconstruction.euler_angles_details ? # _em_buffer.id 1 _em_buffer.details ? _em_buffer.pH 7.4 _em_buffer.specimen_id 1 _em_buffer.name ? # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.details ? _em_entity_assembly.name 'Penaeus vannamei nodavirus' _em_entity_assembly.source RECOMBINANT _em_entity_assembly.type VIRUS _em_entity_assembly.entity_id_list 1 _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? # _em_image_scans.entry_id 6AB5 _em_image_scans.id 1 _em_image_scans.dimension_height 4096 _em_image_scans.dimension_width 4096 _em_image_scans.frames_per_image ? _em_image_scans.image_recording_id 1 _em_image_scans.sampling_size ? _em_image_scans.scanner_model ? _em_image_scans.used_frames_per_image ? _em_image_scans.citation_id ? _em_image_scans.number_digital_images ? _em_image_scans.od_range ? _em_image_scans.quant_bit_size ? _em_image_scans.details ? # _em_imaging.id 1 _em_imaging.entry_id 6AB5 _em_imaging.accelerating_voltage 300 _em_imaging.alignment_procedure 'ZEMLIN TABLEAU' _em_imaging.c2_aperture_diameter 100 _em_imaging.calibrated_defocus_max ? _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_magnification ? _em_imaging.cryogen NITROGEN _em_imaging.details ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.microscope_model 'FEI TITAN KRIOS' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs 0.01 _em_imaging.nominal_defocus_max 2750 _em_imaging.nominal_defocus_min 1250 _em_imaging.nominal_magnification 59000 _em_imaging.recording_temperature_maximum ? _em_imaging.recording_temperature_minimum ? _em_imaging.residual_tilt ? _em_imaging.specimen_holder_model 'FEI TITAN KRIOS AUTOGRID HOLDER' _em_imaging.specimen_id 1 _em_imaging.citation_id ? _em_imaging.date ? _em_imaging.temperature ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.astigmatism ? _em_imaging.detector_distance ? _em_imaging.electron_beam_tilt_params ? _em_imaging.specimen_holder_type ? # _em_sample_support.id 1 _em_sample_support.specimen_id 1 _em_sample_support.details ? _em_sample_support.grid_material MOLYBDENUM _em_sample_support.grid_mesh_size 300 _em_sample_support.grid_type 'Quantifoil R1.2/1.3' _em_sample_support.method ? _em_sample_support.film_material ? _em_sample_support.citation_id ? # _em_virus_entity.entity_assembly_id 1 _em_virus_entity.empty NO _em_virus_entity.enveloped NO _em_virus_entity.virus_isolate STRAIN _em_virus_entity.virus_type 'VIRUS-LIKE PARTICLE' _em_virus_entity.id 1 _em_virus_entity.virus_host_category ? _em_virus_entity.details ? # _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.chamber_temperature 277 _em_vitrification.cryogen_name ETHANE _em_vitrification.details ? _em_vitrification.humidity 100 _em_vitrification.instrument 'FEI VITROBOT MARK IV' _em_vitrification.entry_id 6AB5 _em_vitrification.citation_id ? _em_vitrification.method ? _em_vitrification.temp ? _em_vitrification.time_resolved_state ? # _em_experiment.entry_id 6AB5 _em_experiment.id 1 _em_experiment.aggregation_state PARTICLE _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.entity_assembly_id 1 # _em_single_particle_entity.entry_id 6AB5 _em_single_particle_entity.id 1 _em_single_particle_entity.image_processing_id 1 _em_single_particle_entity.point_symmetry I # 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 MET 1 ? A MET 1 2 1 Y 1 A LYS 2 ? A LYS 2 3 1 Y 1 A ARG 3 ? A ARG 3 4 1 Y 1 A LYS 4 ? A LYS 4 5 1 Y 1 A PRO 5 ? A PRO 5 6 1 Y 1 A ASN 6 ? A ASN 6 7 1 Y 1 A SER 7 ? A SER 7 8 1 Y 1 A ASN 8 ? A ASN 8 9 1 Y 1 A GLN 9 ? A GLN 9 10 1 Y 1 A ASN 10 ? A ASN 10 11 1 Y 1 A ASN 11 ? A ASN 11 12 1 Y 1 A ASN 12 ? A ASN 12 13 1 Y 1 A ASN 13 ? A ASN 13 14 1 Y 1 A ASN 14 ? A ASN 14 15 1 Y 1 A ARG 15 ? A ARG 15 16 1 Y 1 A GLY 16 ? A GLY 16 17 1 Y 1 A ASN 17 ? A ASN 17 18 1 Y 1 A GLY 18 ? A GLY 18 19 1 Y 1 A ASN 19 ? A ASN 19 20 1 Y 1 A GLY 20 ? A GLY 20 21 1 Y 1 A LEU 21 ? A LEU 21 22 1 Y 1 A ARG 22 ? A ARG 22 23 1 Y 1 A ARG 23 ? A ARG 23 24 1 Y 1 A VAL 24 ? A VAL 24 25 1 Y 1 A ARG 25 ? A ARG 25 26 1 Y 1 A GLY 26 ? A GLY 26 27 1 Y 1 A GLY 27 ? A GLY 27 28 1 Y 1 A ARG 28 ? A ARG 28 29 1 Y 1 A VAL 29 ? A VAL 29 30 1 Y 1 A SER 30 ? A SER 30 31 1 Y 1 A ARG 31 ? A ARG 31 32 1 Y 1 A ARG 32 ? A ARG 32 33 1 Y 1 A ARG 33 ? A ARG 33 34 1 Y 1 A VAL 34 ? A VAL 34 35 1 Y 1 A VAL 35 ? A VAL 35 36 1 Y 1 A ILE 36 ? A ILE 36 37 1 Y 1 A ASN 37 ? A ASN 37 38 1 Y 1 A GLN 38 ? A GLN 38 39 1 Y 1 A SER 39 ? A SER 39 40 1 Y 1 A ASN 40 ? A ASN 40 41 1 Y 1 A GLN 41 ? A GLN 41 42 1 Y 1 A SER 42 ? A SER 42 43 1 Y 1 A MET 43 ? A MET 43 44 1 Y 1 A PRO 44 ? A PRO 44 45 1 Y 1 A VAL 45 ? A VAL 45 46 1 Y 1 A THR 46 ? A THR 46 47 1 Y 1 A SER 47 ? A SER 47 48 1 Y 1 A ASN 48 ? A ASN 48 49 1 Y 1 A GLY 49 ? A GLY 49 50 1 Y 1 A ALA 50 ? A ALA 50 51 1 Y 1 A PRO 51 ? A PRO 51 52 1 Y 1 A LEU 52 ? A LEU 52 53 1 Y 1 A GLN 53 ? A GLN 53 54 1 Y 1 A ALA 54 ? A ALA 54 55 1 Y 1 A LEU 55 ? A LEU 55 56 1 Y 1 A THR 56 ? A THR 56 57 1 Y 1 A SER 57 ? A SER 57 58 1 Y 1 A TYR 58 ? A TYR 58 59 1 Y 1 A SER 59 ? A SER 59 60 1 Y 1 A ARG 60 ? A ARG 60 61 1 Y 1 A PRO 61 ? A PRO 61 62 1 Y 1 A ASN 62 ? A ASN 62 63 1 Y 1 A VAL 63 ? A VAL 63 64 1 Y 1 A ASN 64 ? A ASN 64 65 1 Y 1 A LYS 65 ? A LYS 65 # 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 GLN N N N N 88 GLN CA C N S 89 GLN C C N N 90 GLN O O N N 91 GLN CB C N N 92 GLN CG C N N 93 GLN CD C N N 94 GLN OE1 O N N 95 GLN NE2 N N N 96 GLN OXT O N N 97 GLN H H N N 98 GLN H2 H N N 99 GLN HA H N N 100 GLN HB2 H N N 101 GLN HB3 H N N 102 GLN HG2 H N N 103 GLN HG3 H N N 104 GLN HE21 H N N 105 GLN HE22 H N N 106 GLN HXT H N N 107 GLU N N N N 108 GLU CA C N S 109 GLU C C N N 110 GLU O O N N 111 GLU CB C N N 112 GLU CG C N N 113 GLU CD C N N 114 GLU OE1 O N N 115 GLU OE2 O N N 116 GLU OXT O N N 117 GLU H H N N 118 GLU H2 H N N 119 GLU HA H N N 120 GLU HB2 H N N 121 GLU HB3 H N N 122 GLU HG2 H N N 123 GLU HG3 H N N 124 GLU HE2 H N N 125 GLU HXT H N N 126 GLY N N N N 127 GLY CA C N N 128 GLY C C N N 129 GLY O O N N 130 GLY OXT O N N 131 GLY H H N N 132 GLY H2 H N N 133 GLY HA2 H N N 134 GLY HA3 H N N 135 GLY HXT H N N 136 ILE N N N N 137 ILE CA C N S 138 ILE C C N N 139 ILE O O N N 140 ILE CB C N S 141 ILE CG1 C N N 142 ILE CG2 C N N 143 ILE CD1 C N N 144 ILE OXT O N N 145 ILE H H N N 146 ILE H2 H N N 147 ILE HA H N N 148 ILE HB H N N 149 ILE HG12 H N N 150 ILE HG13 H N N 151 ILE HG21 H N N 152 ILE HG22 H N N 153 ILE HG23 H N N 154 ILE HD11 H N N 155 ILE HD12 H N N 156 ILE HD13 H N N 157 ILE HXT H N N 158 LEU N N N N 159 LEU CA C N S 160 LEU C C N N 161 LEU O O N N 162 LEU CB C N N 163 LEU CG C N N 164 LEU CD1 C N N 165 LEU CD2 C N N 166 LEU OXT O N N 167 LEU H H N N 168 LEU H2 H N N 169 LEU HA H N N 170 LEU HB2 H N N 171 LEU HB3 H N N 172 LEU HG H N N 173 LEU HD11 H N N 174 LEU HD12 H N N 175 LEU HD13 H N N 176 LEU HD21 H N N 177 LEU HD22 H N N 178 LEU HD23 H N N 179 LEU HXT H N N 180 LYS N N N N 181 LYS CA C N S 182 LYS C C N N 183 LYS O O N N 184 LYS CB C N N 185 LYS CG C N N 186 LYS CD C N N 187 LYS CE C N N 188 LYS NZ N N N 189 LYS OXT O N N 190 LYS H H N N 191 LYS H2 H N N 192 LYS HA H N N 193 LYS HB2 H N N 194 LYS HB3 H N N 195 LYS HG2 H N N 196 LYS HG3 H N N 197 LYS HD2 H N N 198 LYS HD3 H N N 199 LYS HE2 H N N 200 LYS HE3 H N N 201 LYS HZ1 H N N 202 LYS HZ2 H N N 203 LYS HZ3 H N N 204 LYS HXT H N N 205 MET N N N N 206 MET CA C N S 207 MET C C N N 208 MET O O N N 209 MET CB C N N 210 MET CG C N N 211 MET SD S N N 212 MET CE C N N 213 MET OXT O N N 214 MET H H N N 215 MET H2 H N N 216 MET HA H N N 217 MET HB2 H N N 218 MET HB3 H N N 219 MET HG2 H N N 220 MET HG3 H N N 221 MET HE1 H N N 222 MET HE2 H N N 223 MET HE3 H N N 224 MET HXT H N N 225 PHE N N N N 226 PHE CA C N S 227 PHE C C N N 228 PHE O O N N 229 PHE CB C N N 230 PHE CG C Y N 231 PHE CD1 C Y N 232 PHE CD2 C Y N 233 PHE CE1 C Y N 234 PHE CE2 C Y N 235 PHE CZ C Y N 236 PHE OXT O N N 237 PHE H H N N 238 PHE H2 H N N 239 PHE HA H N N 240 PHE HB2 H N N 241 PHE HB3 H N N 242 PHE HD1 H N N 243 PHE HD2 H N N 244 PHE HE1 H N N 245 PHE HE2 H N N 246 PHE HZ H N N 247 PHE HXT H N N 248 PRO N N N N 249 PRO CA C N S 250 PRO C C N N 251 PRO O O N N 252 PRO CB C N N 253 PRO CG C N N 254 PRO CD C N N 255 PRO OXT O N N 256 PRO H H N N 257 PRO HA H N N 258 PRO HB2 H N N 259 PRO HB3 H N N 260 PRO HG2 H N N 261 PRO HG3 H N N 262 PRO HD2 H N N 263 PRO HD3 H N N 264 PRO HXT H N N 265 SER N N N N 266 SER CA C N S 267 SER C C N N 268 SER O O N N 269 SER CB C N N 270 SER OG O N N 271 SER OXT O N N 272 SER H H N N 273 SER H2 H N N 274 SER HA H N N 275 SER HB2 H N N 276 SER HB3 H N N 277 SER HG H N N 278 SER HXT H N N 279 THR N N N N 280 THR CA C N S 281 THR C C N N 282 THR O O N N 283 THR CB C N R 284 THR OG1 O N N 285 THR CG2 C N N 286 THR OXT O N N 287 THR H H N N 288 THR H2 H N N 289 THR HA H N N 290 THR HB H N N 291 THR HG1 H N N 292 THR HG21 H N N 293 THR HG22 H N N 294 THR HG23 H N N 295 THR HXT H N N 296 TRP N N N N 297 TRP CA C N S 298 TRP C C N N 299 TRP O O N N 300 TRP CB C N N 301 TRP CG C Y N 302 TRP CD1 C Y N 303 TRP CD2 C Y N 304 TRP NE1 N Y N 305 TRP CE2 C Y N 306 TRP CE3 C Y N 307 TRP CZ2 C Y N 308 TRP CZ3 C Y N 309 TRP CH2 C Y N 310 TRP OXT O N N 311 TRP H H N N 312 TRP H2 H N N 313 TRP HA H N N 314 TRP HB2 H N N 315 TRP HB3 H N N 316 TRP HD1 H N N 317 TRP HE1 H N N 318 TRP HE3 H N N 319 TRP HZ2 H N N 320 TRP HZ3 H N N 321 TRP HH2 H N N 322 TRP HXT H N N 323 TYR N N N N 324 TYR CA C N S 325 TYR C C N N 326 TYR O O N N 327 TYR CB C N N 328 TYR CG C Y N 329 TYR CD1 C Y N 330 TYR CD2 C Y N 331 TYR CE1 C Y N 332 TYR CE2 C Y N 333 TYR CZ C Y N 334 TYR OH O N N 335 TYR OXT O N N 336 TYR H H N N 337 TYR H2 H N N 338 TYR HA H N N 339 TYR HB2 H N N 340 TYR HB3 H N N 341 TYR HD1 H N N 342 TYR HD2 H N N 343 TYR HE1 H N N 344 TYR HE2 H N N 345 TYR HH H N N 346 TYR HXT H N N 347 VAL N N N N 348 VAL CA C N S 349 VAL C C N N 350 VAL O O N N 351 VAL CB C N N 352 VAL CG1 C N N 353 VAL CG2 C N N 354 VAL OXT O N N 355 VAL H H N N 356 VAL H2 H N N 357 VAL HA H N N 358 VAL HB H N N 359 VAL HG11 H N N 360 VAL HG12 H N N 361 VAL HG13 H N N 362 VAL HG21 H N N 363 VAL HG22 H N N 364 VAL HG23 H N N 365 VAL HXT H N N 366 # 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 GLN N CA sing N N 83 GLN N H sing N N 84 GLN N H2 sing N N 85 GLN CA C sing N N 86 GLN CA CB sing N N 87 GLN CA HA sing N N 88 GLN C O doub N N 89 GLN C OXT sing N N 90 GLN CB CG sing N N 91 GLN CB HB2 sing N N 92 GLN CB HB3 sing N N 93 GLN CG CD sing N N 94 GLN CG HG2 sing N N 95 GLN CG HG3 sing N N 96 GLN CD OE1 doub N N 97 GLN CD NE2 sing N N 98 GLN NE2 HE21 sing N N 99 GLN NE2 HE22 sing N N 100 GLN OXT HXT sing N N 101 GLU N CA sing N N 102 GLU N H sing N N 103 GLU N H2 sing N N 104 GLU CA C sing N N 105 GLU CA CB sing N N 106 GLU CA HA sing N N 107 GLU C O doub N N 108 GLU C OXT sing N N 109 GLU CB CG sing N N 110 GLU CB HB2 sing N N 111 GLU CB HB3 sing N N 112 GLU CG CD sing N N 113 GLU CG HG2 sing N N 114 GLU CG HG3 sing N N 115 GLU CD OE1 doub N N 116 GLU CD OE2 sing N N 117 GLU OE2 HE2 sing N N 118 GLU OXT HXT sing N N 119 GLY N CA sing N N 120 GLY N H sing N N 121 GLY N H2 sing N N 122 GLY CA C sing N N 123 GLY CA HA2 sing N N 124 GLY CA HA3 sing N N 125 GLY C O doub N N 126 GLY C OXT sing N N 127 GLY OXT HXT sing N N 128 ILE N CA sing N N 129 ILE N H sing N N 130 ILE N H2 sing N N 131 ILE CA C sing N N 132 ILE CA CB sing N N 133 ILE CA HA sing N N 134 ILE C O doub N N 135 ILE C OXT sing N N 136 ILE CB CG1 sing N N 137 ILE CB CG2 sing N N 138 ILE CB HB sing N N 139 ILE CG1 CD1 sing N N 140 ILE CG1 HG12 sing N N 141 ILE CG1 HG13 sing N N 142 ILE CG2 HG21 sing N N 143 ILE CG2 HG22 sing N N 144 ILE CG2 HG23 sing N N 145 ILE CD1 HD11 sing N N 146 ILE CD1 HD12 sing N N 147 ILE CD1 HD13 sing N N 148 ILE OXT HXT sing N N 149 LEU N CA sing N N 150 LEU N H sing N N 151 LEU N H2 sing N N 152 LEU CA C sing N N 153 LEU CA CB sing N N 154 LEU CA HA sing N N 155 LEU C O doub N N 156 LEU C OXT sing N N 157 LEU CB CG sing N N 158 LEU CB HB2 sing N N 159 LEU CB HB3 sing N N 160 LEU CG CD1 sing N N 161 LEU CG CD2 sing N N 162 LEU CG HG sing N N 163 LEU CD1 HD11 sing N N 164 LEU CD1 HD12 sing N N 165 LEU CD1 HD13 sing N N 166 LEU CD2 HD21 sing N N 167 LEU CD2 HD22 sing N N 168 LEU CD2 HD23 sing N N 169 LEU OXT HXT sing N N 170 LYS N CA sing N N 171 LYS N H sing N N 172 LYS N H2 sing N N 173 LYS CA C sing N N 174 LYS CA CB sing N N 175 LYS CA HA sing N N 176 LYS C O doub N N 177 LYS C OXT sing N N 178 LYS CB CG sing N N 179 LYS CB HB2 sing N N 180 LYS CB HB3 sing N N 181 LYS CG CD sing N N 182 LYS CG HG2 sing N N 183 LYS CG HG3 sing N N 184 LYS CD CE sing N N 185 LYS CD HD2 sing N N 186 LYS CD HD3 sing N N 187 LYS CE NZ sing N N 188 LYS CE HE2 sing N N 189 LYS CE HE3 sing N N 190 LYS NZ HZ1 sing N N 191 LYS NZ HZ2 sing N N 192 LYS NZ HZ3 sing N N 193 LYS OXT HXT sing N N 194 MET N CA sing N N 195 MET N H sing N N 196 MET N H2 sing N N 197 MET CA C sing N N 198 MET CA CB sing N N 199 MET CA HA sing N N 200 MET C O doub N N 201 MET C OXT sing N N 202 MET CB CG sing N N 203 MET CB HB2 sing N N 204 MET CB HB3 sing N N 205 MET CG SD sing N N 206 MET CG HG2 sing N N 207 MET CG HG3 sing N N 208 MET SD CE sing N N 209 MET CE HE1 sing N N 210 MET CE HE2 sing N N 211 MET CE HE3 sing N N 212 MET OXT HXT sing N N 213 PHE N CA sing N N 214 PHE N H sing N N 215 PHE N H2 sing N N 216 PHE CA C sing N N 217 PHE CA CB sing N N 218 PHE CA HA sing N N 219 PHE C O doub N N 220 PHE C OXT sing N N 221 PHE CB CG sing N N 222 PHE CB HB2 sing N N 223 PHE CB HB3 sing N N 224 PHE CG CD1 doub Y N 225 PHE CG CD2 sing Y N 226 PHE CD1 CE1 sing Y N 227 PHE CD1 HD1 sing N N 228 PHE CD2 CE2 doub Y N 229 PHE CD2 HD2 sing N N 230 PHE CE1 CZ doub Y N 231 PHE CE1 HE1 sing N N 232 PHE CE2 CZ sing Y N 233 PHE CE2 HE2 sing N N 234 PHE CZ HZ sing N N 235 PHE OXT HXT sing N N 236 PRO N CA sing N N 237 PRO N CD sing N N 238 PRO N H sing N N 239 PRO CA C sing N N 240 PRO CA CB sing N N 241 PRO CA HA sing N N 242 PRO C O doub N N 243 PRO C OXT sing N N 244 PRO CB CG sing N N 245 PRO CB HB2 sing N N 246 PRO CB HB3 sing N N 247 PRO CG CD sing N N 248 PRO CG HG2 sing N N 249 PRO CG HG3 sing N N 250 PRO CD HD2 sing N N 251 PRO CD HD3 sing N N 252 PRO OXT HXT sing N N 253 SER N CA sing N N 254 SER N H sing N N 255 SER N H2 sing N N 256 SER CA C sing N N 257 SER CA CB sing N N 258 SER CA HA sing N N 259 SER C O doub N N 260 SER C OXT sing N N 261 SER CB OG sing N N 262 SER CB HB2 sing N N 263 SER CB HB3 sing N N 264 SER OG HG sing N N 265 SER OXT HXT sing N N 266 THR N CA sing N N 267 THR N H sing N N 268 THR N H2 sing N N 269 THR CA C sing N N 270 THR CA CB sing N N 271 THR CA HA sing N N 272 THR C O doub N N 273 THR C OXT sing N N 274 THR CB OG1 sing N N 275 THR CB CG2 sing N N 276 THR CB HB sing N N 277 THR OG1 HG1 sing N N 278 THR CG2 HG21 sing N N 279 THR CG2 HG22 sing N N 280 THR CG2 HG23 sing N N 281 THR OXT HXT sing N N 282 TRP N CA sing N N 283 TRP N H sing N N 284 TRP N H2 sing N N 285 TRP CA C sing N N 286 TRP CA CB sing N N 287 TRP CA HA sing N N 288 TRP C O doub N N 289 TRP C OXT sing N N 290 TRP CB CG sing N N 291 TRP CB HB2 sing N N 292 TRP CB HB3 sing N N 293 TRP CG CD1 doub Y N 294 TRP CG CD2 sing Y N 295 TRP CD1 NE1 sing Y N 296 TRP CD1 HD1 sing N N 297 TRP CD2 CE2 doub Y N 298 TRP CD2 CE3 sing Y N 299 TRP NE1 CE2 sing Y N 300 TRP NE1 HE1 sing N N 301 TRP CE2 CZ2 sing Y N 302 TRP CE3 CZ3 doub Y N 303 TRP CE3 HE3 sing N N 304 TRP CZ2 CH2 doub Y N 305 TRP CZ2 HZ2 sing N N 306 TRP CZ3 CH2 sing Y N 307 TRP CZ3 HZ3 sing N N 308 TRP CH2 HH2 sing N N 309 TRP OXT HXT sing N N 310 TYR N CA sing N N 311 TYR N H sing N N 312 TYR N H2 sing N N 313 TYR CA C sing N N 314 TYR CA CB sing N N 315 TYR CA HA sing N N 316 TYR C O doub N N 317 TYR C OXT sing N N 318 TYR CB CG sing N N 319 TYR CB HB2 sing N N 320 TYR CB HB3 sing N N 321 TYR CG CD1 doub Y N 322 TYR CG CD2 sing Y N 323 TYR CD1 CE1 sing Y N 324 TYR CD1 HD1 sing N N 325 TYR CD2 CE2 doub Y N 326 TYR CD2 HD2 sing N N 327 TYR CE1 CZ doub Y N 328 TYR CE1 HE1 sing N N 329 TYR CE2 CZ sing Y N 330 TYR CE2 HE2 sing N N 331 TYR CZ OH sing N N 332 TYR OH HH sing N N 333 TYR OXT HXT sing N N 334 VAL N CA sing N N 335 VAL N H sing N N 336 VAL N H2 sing N N 337 VAL CA C sing N N 338 VAL CA CB sing N N 339 VAL CA HA sing N N 340 VAL C O doub N N 341 VAL C OXT sing N N 342 VAL CB CG1 sing N N 343 VAL CB CG2 sing N N 344 VAL CB HB sing N N 345 VAL CG1 HG11 sing N N 346 VAL CG1 HG12 sing N N 347 VAL CG1 HG13 sing N N 348 VAL CG2 HG21 sing N N 349 VAL CG2 HG22 sing N N 350 VAL CG2 HG23 sing N N 351 VAL OXT HXT sing N N 352 # loop_ _em_buffer_component.buffer_id _em_buffer_component.id _em_buffer_component.concentration _em_buffer_component.concentration_units _em_buffer_component.formula _em_buffer_component.name 1 1 50 mM HEPES HEPES 1 2 300 mM NaCl 'sodium chloride' # _em_ctf_correction.id 1 _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.type 'PHASE FLIPPING AND AMPLITUDE CORRECTION' _em_ctf_correction.details ? # _em_entity_assembly_naturalsource.id 2 _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.ncbi_tax_id 430911 _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organism 'Penaeus vannamei nodavirus' _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? # _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.cell ? _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.id 1 _em_image_processing.image_recording_id 1 _em_image_processing.details ? # _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.avg_electron_dose_per_image 40 _em_image_recording.average_exposure_time 2.0 _em_image_recording.details ? _em_image_recording.detector_mode INTEGRATING _em_image_recording.film_or_detector_model 'FEI FALCON III (4k x 4k)' _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged 1 _em_image_recording.num_real_images 2806 # _em_imaging_optics.id 1 _em_imaging_optics.imaging_id 1 _em_imaging_optics.chr_aberration_corrector ? _em_imaging_optics.energyfilter_lower ? _em_imaging_optics.energyfilter_name ? _em_imaging_optics.energyfilter_upper ? _em_imaging_optics.energyfilter_slit_width ? _em_imaging_optics.phase_plate ? _em_imaging_optics.sph_aberration_corrector ? # loop_ _em_software.id _em_software.category _em_software.details _em_software.name _em_software.version _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id 1 'CRYSTALLOGRAPHY MERGING' ? ? ? 1 1 1 2 'IMAGE ACQUISITION' ? EPU ? ? ? 1 3 MASKING ? ? ? ? ? ? 4 'CTF CORRECTION' ? ? ? 1 ? ? 5 'LAYERLINE INDEXING' ? ? ? ? ? ? 6 'DIFFRACTION INDEXING' ? ? ? ? ? ? 7 'MODEL FITTING' ? ? ? ? 1 ? 8 OTHER ? ? ? ? ? ? 9 'INITIAL EULER ASSIGNMENT' ? ? ? 1 ? ? 10 'FINAL EULER ASSIGNMENT' ? ? ? 1 ? ? 11 CLASSIFICATION ? RELION 2.1 1 ? ? 12 RECONSTRUCTION ? RELION 2.1 1 ? ? 13 'MODEL REFINEMENT' ? PHENIX ? ? 1 ? # _em_specimen.id 1 _em_specimen.experiment_id 1 _em_specimen.concentration 6 _em_specimen.details ? _em_specimen.embedding_applied NO _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied YES # _em_virus_natural_host.id 1 _em_virus_natural_host.entity_assembly_id 1 _em_virus_natural_host.ncbi_tax_id 6689 _em_virus_natural_host.organism 'Litopenaeus vannamei' _em_virus_natural_host.strain ? # _pdbx_audit_support.funding_organization 'Ministry of Science and Technology (Taiwan)' _pdbx_audit_support.country Taiwan _pdbx_audit_support.grant_number 105-2311-B-213-001-MY3 _pdbx_audit_support.ordinal 1 # _atom_sites.entry_id 6AB5 _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 # loop_ _atom_type.symbol C N O S # loop_