data_9NEK # _entry.id 9NEK # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.404 _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 9NEK pdb_00009nek 10.2210/pdb9nek/pdb WWPDB D_1000293204 ? ? EMDB EMD-49314 ? ? # 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 _pdbx_audit_revision_history.part_number 1 'Structure model' 1 0 2025-03-05 ? 2 'EM metadata' 1 0 2025-03-05 ? 3 'Additional map' 1 0 2025-03-05 1 4 FSC 1 0 2025-03-05 ? 5 'Half map' 1 0 2025-03-05 1 6 'Half map' 1 0 2025-03-05 2 7 Image 1 0 2025-03-05 ? 8 'Primary map' 1 0 2025-03-05 ? 9 'Structure model' 1 1 2025-07-30 ? # loop_ _pdbx_audit_revision_details.ordinal _pdbx_audit_revision_details.revision_ordinal _pdbx_audit_revision_details.data_content_type _pdbx_audit_revision_details.provider _pdbx_audit_revision_details.type _pdbx_audit_revision_details.description _pdbx_audit_revision_details.details 1 1 'Structure model' repository 'Initial release' ? ? 2 2 'EM metadata' repository 'Initial release' ? ? 3 3 'Additional map' repository 'Initial release' ? ? 4 4 FSC repository 'Initial release' ? ? 5 5 'Half map' repository 'Initial release' ? ? 6 6 'Half map' repository 'Initial release' ? ? 7 7 Image repository 'Initial release' ? ? 8 8 'Primary map' repository 'Initial release' ? ? # 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 9 'Structure model' 'Data collection' 2 9 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 9 'Structure model' citation 2 9 'Structure model' em_admin # 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 9 'Structure model' '_citation.country' 2 9 'Structure model' '_citation.journal_abbrev' 3 9 'Structure model' '_citation.journal_id_CSD' 4 9 'Structure model' '_citation.journal_id_ISSN' 5 9 'Structure model' '_citation.journal_volume' 6 9 'Structure model' '_citation.pdbx_database_id_DOI' 7 9 'Structure model' '_citation.pdbx_database_id_PubMed' 8 9 'Structure model' '_citation.title' 9 9 'Structure model' '_citation.year' 10 9 'Structure model' '_em_admin.last_update' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 9NEK _pdbx_database_status.recvd_initial_deposition_date 2025-02-19 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # _pdbx_database_related.db_name EMDB _pdbx_database_related.details 'Capsid structure of the Syngnathus scovelli chapparvovirus virus-like particle' _pdbx_database_related.db_id EMD-49314 _pdbx_database_related.content_type 'associated EM volume' # _pdbx_contact_author.id 2 _pdbx_contact_author.email jason.kaelber@rutgers.edu _pdbx_contact_author.name_first Jason _pdbx_contact_author.name_last Kaelber _pdbx_contact_author.name_mi T _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0001-9426-1030 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Penzes, J.J.' 1 0000-0002-0366-9004 'Kaelber, J.T.' 2 0000-0001-9426-1030 # _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 CH _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Viruses _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 1999-4915 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 17 _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Capsid Structure of the Fish Pathogen Syngnathus Scovelli Chapparvovirus Offers a New Perspective on Parvovirus Structural Biology.' _citation.year 2025 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.3390/v17050679 _citation.pdbx_database_id_PubMed 40431691 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Penzes, J.J.' 1 0000-0002-0366-9004 primary 'Kaelber, J.T.' 2 0000-0001-9426-1030 # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'Putative structural protein VP' _entity.formula_weight 41969.145 _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 ;MKFSNSYYAYIENQKNDYPDIGLERNPSEYQTGYHRIPNQYWASFLTPKDWFNLIYNNKAFRVVGARCTVSNMIPLTEQA AIQGNTTITTFNNTIYALCYTDNNYETEWEEPAARDLSFMWREGLTNGARHMLPTYKHGIYRTTTSQAHNVFYGWDPLCK AENILELRPGKNAVTFEWHAKEEIWLNTHMMQQFDPTHTPGIANTATVYSQEIHNQTHSNVTPHSHLNRWISQTDTAPAT ARHWSKQAIQRPGIMEQQFRYPIPNWFIKMIPLFDSQNNLIKTTAQVLITMELTVDTIPQSLAINMPIIDDIIAPNHTPN SVPYCMFRYQPIIPINVGVLPAPPTKGVFIPELPARSDPTSDVE ; _entity_poly.pdbx_seq_one_letter_code_can ;MKFSNSYYAYIENQKNDYPDIGLERNPSEYQTGYHRIPNQYWASFLTPKDWFNLIYNNKAFRVVGARCTVSNMIPLTEQA AIQGNTTITTFNNTIYALCYTDNNYETEWEEPAARDLSFMWREGLTNGARHMLPTYKHGIYRTTTSQAHNVFYGWDPLCK AENILELRPGKNAVTFEWHAKEEIWLNTHMMQQFDPTHTPGIANTATVYSQEIHNQTHSNVTPHSHLNRWISQTDTAPAT ARHWSKQAIQRPGIMEQQFRYPIPNWFIKMIPLFDSQNNLIKTTAQVLITMELTVDTIPQSLAINMPIIDDIIAPNHTPN SVPYCMFRYQPIIPINVGVLPAPPTKGVFIPELPARSDPTSDVE ; _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 PHE n 1 4 SER n 1 5 ASN n 1 6 SER n 1 7 TYR n 1 8 TYR n 1 9 ALA n 1 10 TYR n 1 11 ILE n 1 12 GLU n 1 13 ASN n 1 14 GLN n 1 15 LYS n 1 16 ASN n 1 17 ASP n 1 18 TYR n 1 19 PRO n 1 20 ASP n 1 21 ILE n 1 22 GLY n 1 23 LEU n 1 24 GLU n 1 25 ARG n 1 26 ASN n 1 27 PRO n 1 28 SER n 1 29 GLU n 1 30 TYR n 1 31 GLN n 1 32 THR n 1 33 GLY n 1 34 TYR n 1 35 HIS n 1 36 ARG n 1 37 ILE n 1 38 PRO n 1 39 ASN n 1 40 GLN n 1 41 TYR n 1 42 TRP n 1 43 ALA n 1 44 SER n 1 45 PHE n 1 46 LEU n 1 47 THR n 1 48 PRO n 1 49 LYS n 1 50 ASP n 1 51 TRP n 1 52 PHE n 1 53 ASN n 1 54 LEU n 1 55 ILE n 1 56 TYR n 1 57 ASN n 1 58 ASN n 1 59 LYS n 1 60 ALA n 1 61 PHE n 1 62 ARG n 1 63 VAL n 1 64 VAL n 1 65 GLY n 1 66 ALA n 1 67 ARG n 1 68 CYS n 1 69 THR n 1 70 VAL n 1 71 SER n 1 72 ASN n 1 73 MET n 1 74 ILE n 1 75 PRO n 1 76 LEU n 1 77 THR n 1 78 GLU n 1 79 GLN n 1 80 ALA n 1 81 ALA n 1 82 ILE n 1 83 GLN n 1 84 GLY n 1 85 ASN n 1 86 THR n 1 87 THR n 1 88 ILE n 1 89 THR n 1 90 THR n 1 91 PHE n 1 92 ASN n 1 93 ASN n 1 94 THR n 1 95 ILE n 1 96 TYR n 1 97 ALA n 1 98 LEU n 1 99 CYS n 1 100 TYR n 1 101 THR n 1 102 ASP n 1 103 ASN n 1 104 ASN n 1 105 TYR n 1 106 GLU n 1 107 THR n 1 108 GLU n 1 109 TRP n 1 110 GLU n 1 111 GLU n 1 112 PRO n 1 113 ALA n 1 114 ALA n 1 115 ARG n 1 116 ASP n 1 117 LEU n 1 118 SER n 1 119 PHE n 1 120 MET n 1 121 TRP n 1 122 ARG n 1 123 GLU n 1 124 GLY n 1 125 LEU n 1 126 THR n 1 127 ASN n 1 128 GLY n 1 129 ALA n 1 130 ARG n 1 131 HIS n 1 132 MET n 1 133 LEU n 1 134 PRO n 1 135 THR n 1 136 TYR n 1 137 LYS n 1 138 HIS n 1 139 GLY n 1 140 ILE n 1 141 TYR n 1 142 ARG n 1 143 THR n 1 144 THR n 1 145 THR n 1 146 SER n 1 147 GLN n 1 148 ALA n 1 149 HIS n 1 150 ASN n 1 151 VAL n 1 152 PHE n 1 153 TYR n 1 154 GLY n 1 155 TRP n 1 156 ASP n 1 157 PRO n 1 158 LEU n 1 159 CYS n 1 160 LYS n 1 161 ALA n 1 162 GLU n 1 163 ASN n 1 164 ILE n 1 165 LEU n 1 166 GLU n 1 167 LEU n 1 168 ARG n 1 169 PRO n 1 170 GLY n 1 171 LYS n 1 172 ASN n 1 173 ALA n 1 174 VAL n 1 175 THR n 1 176 PHE n 1 177 GLU n 1 178 TRP n 1 179 HIS n 1 180 ALA n 1 181 LYS n 1 182 GLU n 1 183 GLU n 1 184 ILE n 1 185 TRP n 1 186 LEU n 1 187 ASN n 1 188 THR n 1 189 HIS n 1 190 MET n 1 191 MET n 1 192 GLN n 1 193 GLN n 1 194 PHE n 1 195 ASP n 1 196 PRO n 1 197 THR n 1 198 HIS n 1 199 THR n 1 200 PRO n 1 201 GLY n 1 202 ILE n 1 203 ALA n 1 204 ASN n 1 205 THR n 1 206 ALA n 1 207 THR n 1 208 VAL n 1 209 TYR n 1 210 SER n 1 211 GLN n 1 212 GLU n 1 213 ILE n 1 214 HIS n 1 215 ASN n 1 216 GLN n 1 217 THR n 1 218 HIS n 1 219 SER n 1 220 ASN n 1 221 VAL n 1 222 THR n 1 223 PRO n 1 224 HIS n 1 225 SER n 1 226 HIS n 1 227 LEU n 1 228 ASN n 1 229 ARG n 1 230 TRP n 1 231 ILE n 1 232 SER n 1 233 GLN n 1 234 THR n 1 235 ASP n 1 236 THR n 1 237 ALA n 1 238 PRO n 1 239 ALA n 1 240 THR n 1 241 ALA n 1 242 ARG n 1 243 HIS n 1 244 TRP n 1 245 SER n 1 246 LYS n 1 247 GLN n 1 248 ALA n 1 249 ILE n 1 250 GLN n 1 251 ARG n 1 252 PRO n 1 253 GLY n 1 254 ILE n 1 255 MET n 1 256 GLU n 1 257 GLN n 1 258 GLN n 1 259 PHE n 1 260 ARG n 1 261 TYR n 1 262 PRO n 1 263 ILE n 1 264 PRO n 1 265 ASN n 1 266 TRP n 1 267 PHE n 1 268 ILE n 1 269 LYS n 1 270 MET n 1 271 ILE n 1 272 PRO n 1 273 LEU n 1 274 PHE n 1 275 ASP n 1 276 SER n 1 277 GLN n 1 278 ASN n 1 279 ASN n 1 280 LEU n 1 281 ILE n 1 282 LYS n 1 283 THR n 1 284 THR n 1 285 ALA n 1 286 GLN n 1 287 VAL n 1 288 LEU n 1 289 ILE n 1 290 THR n 1 291 MET n 1 292 GLU n 1 293 LEU n 1 294 THR n 1 295 VAL n 1 296 ASP n 1 297 THR n 1 298 ILE n 1 299 PRO n 1 300 GLN n 1 301 SER n 1 302 LEU n 1 303 ALA n 1 304 ILE n 1 305 ASN n 1 306 MET n 1 307 PRO n 1 308 ILE n 1 309 ILE n 1 310 ASP n 1 311 ASP n 1 312 ILE n 1 313 ILE n 1 314 ALA n 1 315 PRO n 1 316 ASN n 1 317 HIS n 1 318 THR n 1 319 PRO n 1 320 ASN n 1 321 SER n 1 322 VAL n 1 323 PRO n 1 324 TYR n 1 325 CYS n 1 326 MET n 1 327 PHE n 1 328 ARG n 1 329 TYR n 1 330 GLN n 1 331 PRO n 1 332 ILE n 1 333 ILE n 1 334 PRO n 1 335 ILE n 1 336 ASN n 1 337 VAL n 1 338 GLY n 1 339 VAL n 1 340 LEU n 1 341 PRO n 1 342 ALA n 1 343 PRO n 1 344 PRO n 1 345 THR n 1 346 LYS n 1 347 GLY n 1 348 VAL n 1 349 PHE n 1 350 ILE n 1 351 PRO n 1 352 GLU n 1 353 LEU n 1 354 PRO n 1 355 ALA n 1 356 ARG n 1 357 SER n 1 358 ASP n 1 359 PRO n 1 360 THR n 1 361 SER n 1 362 ASP n 1 363 VAL n 1 364 GLU 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 364 _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 'Gill tissue of male Syngnathus scovelli' _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Syngnathus scovelli chapparvovirus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 2662396 _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 'Autographa californica nucleopolyhedrovirus' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 46015 _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 Sf9 _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 pFastBac1 _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 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # 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 1 MET MET A . n A 1 2 LYS 2 2 2 LYS LYS A . n A 1 3 PHE 3 3 3 PHE PHE A . n A 1 4 SER 4 4 4 SER SER A . n A 1 5 ASN 5 5 5 ASN ASN A . n A 1 6 SER 6 6 6 SER SER A . n A 1 7 TYR 7 7 7 TYR TYR A . n A 1 8 TYR 8 8 8 TYR TYR A . n A 1 9 ALA 9 9 9 ALA ALA A . n A 1 10 TYR 10 10 10 TYR TYR A . n A 1 11 ILE 11 11 11 ILE ILE A . n A 1 12 GLU 12 12 12 GLU GLU A . n A 1 13 ASN 13 13 13 ASN ASN A . n A 1 14 GLN 14 14 14 GLN GLN A . n A 1 15 LYS 15 15 15 LYS LYS A . n A 1 16 ASN 16 16 16 ASN ASN A . n A 1 17 ASP 17 17 17 ASP ASP A . n A 1 18 TYR 18 18 18 TYR TYR A . n A 1 19 PRO 19 19 19 PRO PRO A . n A 1 20 ASP 20 20 20 ASP ASP A . n A 1 21 ILE 21 21 21 ILE ILE A . n A 1 22 GLY 22 22 22 GLY GLY A . n A 1 23 LEU 23 23 23 LEU LEU A . n A 1 24 GLU 24 24 24 GLU GLU A . n A 1 25 ARG 25 25 25 ARG ARG A . n A 1 26 ASN 26 26 26 ASN ASN A . n A 1 27 PRO 27 27 27 PRO PRO A . n A 1 28 SER 28 28 28 SER SER A . n A 1 29 GLU 29 29 29 GLU GLU A . n A 1 30 TYR 30 30 30 TYR TYR A . n A 1 31 GLN 31 31 31 GLN GLN A . n A 1 32 THR 32 32 32 THR THR A . n A 1 33 GLY 33 33 33 GLY GLY A . n A 1 34 TYR 34 34 34 TYR TYR A . n A 1 35 HIS 35 35 35 HIS HIS 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 PRO 38 38 38 PRO PRO A . n A 1 39 ASN 39 39 39 ASN ASN A . n A 1 40 GLN 40 40 40 GLN GLN A . n A 1 41 TYR 41 41 41 TYR TYR A . n A 1 42 TRP 42 42 42 TRP TRP A . n A 1 43 ALA 43 43 43 ALA ALA A . n A 1 44 SER 44 44 44 SER SER A . n A 1 45 PHE 45 45 45 PHE PHE A . n A 1 46 LEU 46 46 46 LEU LEU A . n A 1 47 THR 47 47 47 THR THR A . n A 1 48 PRO 48 48 48 PRO PRO A . n A 1 49 LYS 49 49 49 LYS LYS A . n A 1 50 ASP 50 50 50 ASP ASP A . n A 1 51 TRP 51 51 51 TRP TRP A . n A 1 52 PHE 52 52 52 PHE PHE A . n A 1 53 ASN 53 53 53 ASN ASN A . n A 1 54 LEU 54 54 54 LEU LEU A . n A 1 55 ILE 55 55 55 ILE ILE A . n A 1 56 TYR 56 56 56 TYR TYR A . n A 1 57 ASN 57 57 57 ASN ASN A . n A 1 58 ASN 58 58 58 ASN ASN A . n A 1 59 LYS 59 59 59 LYS LYS A . n A 1 60 ALA 60 60 60 ALA ALA A . n A 1 61 PHE 61 61 61 PHE PHE A . n A 1 62 ARG 62 62 62 ARG ARG A . n A 1 63 VAL 63 63 63 VAL VAL A . n A 1 64 VAL 64 64 64 VAL VAL A . n A 1 65 GLY 65 65 65 GLY GLY A . n A 1 66 ALA 66 66 66 ALA ALA A . n A 1 67 ARG 67 67 67 ARG ARG A . n A 1 68 CYS 68 68 68 CYS CYS A . n A 1 69 THR 69 69 69 THR THR A . n A 1 70 VAL 70 70 70 VAL VAL A . n A 1 71 SER 71 71 71 SER SER A . n A 1 72 ASN 72 72 72 ASN ASN A . n A 1 73 MET 73 73 73 MET MET A . n A 1 74 ILE 74 74 74 ILE ILE A . n A 1 75 PRO 75 75 75 PRO PRO 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 GLU 78 78 78 GLU GLU A . n A 1 79 GLN 79 79 79 GLN GLN A . n A 1 80 ALA 80 80 80 ALA ALA A . n A 1 81 ALA 81 82 ? ? ? A . n A 1 82 ILE 82 83 ? ? ? A . n A 1 83 GLN 83 84 ? ? ? A . n A 1 84 GLY 84 85 ? ? ? A . n A 1 85 ASN 85 86 ? ? ? A . n A 1 86 THR 86 87 ? ? ? A . n A 1 87 THR 87 88 88 THR THR A . n A 1 88 ILE 88 89 89 ILE ILE A . n A 1 89 THR 89 90 90 THR THR A . n A 1 90 THR 90 91 91 THR THR A . n A 1 91 PHE 91 92 92 PHE PHE A . n A 1 92 ASN 92 93 93 ASN ASN A . n A 1 93 ASN 93 94 94 ASN ASN A . n A 1 94 THR 94 95 95 THR THR A . n A 1 95 ILE 95 96 96 ILE ILE A . n A 1 96 TYR 96 97 97 TYR TYR A . n A 1 97 ALA 97 98 98 ALA ALA A . n A 1 98 LEU 98 99 99 LEU LEU A . n A 1 99 CYS 99 100 100 CYS CYS A . n A 1 100 TYR 100 101 101 TYR TYR A . n A 1 101 THR 101 102 102 THR THR A . n A 1 102 ASP 102 103 103 ASP ASP A . n A 1 103 ASN 103 104 104 ASN ASN A . n A 1 104 ASN 104 105 105 ASN ASN A . n A 1 105 TYR 105 106 106 TYR TYR A . n A 1 106 GLU 106 107 107 GLU GLU A . n A 1 107 THR 107 108 108 THR THR A . n A 1 108 GLU 108 109 109 GLU GLU A . n A 1 109 TRP 109 110 110 TRP TRP A . n A 1 110 GLU 110 111 111 GLU GLU A . n A 1 111 GLU 111 112 112 GLU GLU A . n A 1 112 PRO 112 113 113 PRO PRO A . n A 1 113 ALA 113 114 114 ALA ALA A . n A 1 114 ALA 114 115 115 ALA ALA A . n A 1 115 ARG 115 116 116 ARG ARG A . n A 1 116 ASP 116 117 117 ASP ASP A . n A 1 117 LEU 117 118 118 LEU LEU A . n A 1 118 SER 118 119 119 SER SER A . n A 1 119 PHE 119 120 120 PHE PHE A . n A 1 120 MET 120 121 121 MET MET A . n A 1 121 TRP 121 122 122 TRP TRP A . n A 1 122 ARG 122 123 123 ARG ARG A . n A 1 123 GLU 123 124 124 GLU GLU A . n A 1 124 GLY 124 125 125 GLY GLY A . n A 1 125 LEU 125 126 126 LEU LEU A . n A 1 126 THR 126 127 127 THR THR A . n A 1 127 ASN 127 128 128 ASN ASN A . n A 1 128 GLY 128 129 129 GLY GLY A . n A 1 129 ALA 129 130 130 ALA ALA A . n A 1 130 ARG 130 131 131 ARG ARG A . n A 1 131 HIS 131 132 132 HIS HIS A . n A 1 132 MET 132 133 133 MET MET A . n A 1 133 LEU 133 134 134 LEU LEU A . n A 1 134 PRO 134 135 135 PRO PRO A . n A 1 135 THR 135 136 136 THR THR A . n A 1 136 TYR 136 137 137 TYR TYR A . n A 1 137 LYS 137 138 138 LYS LYS A . n A 1 138 HIS 138 139 139 HIS HIS A . n A 1 139 GLY 139 140 140 GLY GLY A . n A 1 140 ILE 140 141 141 ILE ILE A . n A 1 141 TYR 141 142 142 TYR TYR A . n A 1 142 ARG 142 143 143 ARG ARG A . n A 1 143 THR 143 144 144 THR THR A . n A 1 144 THR 144 145 145 THR THR A . n A 1 145 THR 145 146 146 THR THR A . n A 1 146 SER 146 147 147 SER SER A . n A 1 147 GLN 147 148 148 GLN GLN A . n A 1 148 ALA 148 149 149 ALA ALA A . n A 1 149 HIS 149 150 150 HIS HIS A . n A 1 150 ASN 150 151 151 ASN ASN A . n A 1 151 VAL 151 152 152 VAL VAL A . n A 1 152 PHE 152 153 153 PHE PHE A . n A 1 153 TYR 153 154 154 TYR TYR A . n A 1 154 GLY 154 155 155 GLY GLY A . n A 1 155 TRP 155 156 156 TRP TRP A . n A 1 156 ASP 156 157 157 ASP ASP A . n A 1 157 PRO 157 158 158 PRO PRO A . n A 1 158 LEU 158 159 159 LEU LEU A . n A 1 159 CYS 159 160 160 CYS CYS A . n A 1 160 LYS 160 161 161 LYS LYS A . n A 1 161 ALA 161 162 162 ALA ALA A . n A 1 162 GLU 162 163 163 GLU GLU A . n A 1 163 ASN 163 164 164 ASN ASN A . n A 1 164 ILE 164 165 165 ILE ILE A . n A 1 165 LEU 165 166 166 LEU LEU A . n A 1 166 GLU 166 167 167 GLU GLU A . n A 1 167 LEU 167 168 168 LEU LEU A . n A 1 168 ARG 168 169 169 ARG ARG A . n A 1 169 PRO 169 170 170 PRO PRO A . n A 1 170 GLY 170 171 171 GLY GLY A . n A 1 171 LYS 171 172 172 LYS LYS A . n A 1 172 ASN 172 173 173 ASN ASN A . n A 1 173 ALA 173 174 174 ALA ALA A . n A 1 174 VAL 174 175 175 VAL VAL A . n A 1 175 THR 175 176 176 THR THR A . n A 1 176 PHE 176 177 177 PHE PHE A . n A 1 177 GLU 177 178 178 GLU GLU A . n A 1 178 TRP 178 179 179 TRP TRP A . n A 1 179 HIS 179 180 180 HIS HIS A . n A 1 180 ALA 180 181 181 ALA ALA A . n A 1 181 LYS 181 182 182 LYS LYS A . n A 1 182 GLU 182 183 183 GLU GLU A . n A 1 183 GLU 183 184 184 GLU GLU A . n A 1 184 ILE 184 185 185 ILE ILE A . n A 1 185 TRP 185 186 186 TRP TRP A . n A 1 186 LEU 186 187 187 LEU LEU A . n A 1 187 ASN 187 188 188 ASN ASN A . n A 1 188 THR 188 189 189 THR THR A . n A 1 189 HIS 189 190 190 HIS HIS A . n A 1 190 MET 190 191 191 MET MET A . n A 1 191 MET 191 192 192 MET MET A . n A 1 192 GLN 192 193 193 GLN GLN A . n A 1 193 GLN 193 194 194 GLN GLN A . n A 1 194 PHE 194 195 195 PHE PHE A . n A 1 195 ASP 195 196 196 ASP ASP A . n A 1 196 PRO 196 197 197 PRO PRO A . n A 1 197 THR 197 198 198 THR THR A . n A 1 198 HIS 198 199 199 HIS HIS A . n A 1 199 THR 199 200 200 THR THR A . n A 1 200 PRO 200 201 201 PRO PRO A . n A 1 201 GLY 201 202 202 GLY GLY A . n A 1 202 ILE 202 203 203 ILE ILE A . n A 1 203 ALA 203 204 204 ALA ALA A . n A 1 204 ASN 204 205 205 ASN ASN A . n A 1 205 THR 205 206 206 THR THR A . n A 1 206 ALA 206 207 207 ALA ALA A . n A 1 207 THR 207 208 208 THR THR A . n A 1 208 VAL 208 209 209 VAL VAL A . n A 1 209 TYR 209 210 210 TYR TYR A . n A 1 210 SER 210 211 211 SER SER A . n A 1 211 GLN 211 212 212 GLN GLN A . n A 1 212 GLU 212 213 213 GLU GLU A . n A 1 213 ILE 213 214 214 ILE ILE A . n A 1 214 HIS 214 215 215 HIS HIS A . n A 1 215 ASN 215 216 216 ASN ASN A . n A 1 216 GLN 216 217 217 GLN GLN A . n A 1 217 THR 217 218 218 THR THR A . n A 1 218 HIS 218 219 219 HIS HIS A . n A 1 219 SER 219 220 220 SER SER A . n A 1 220 ASN 220 221 221 ASN ASN A . n A 1 221 VAL 221 222 222 VAL VAL A . n A 1 222 THR 222 223 223 THR THR A . n A 1 223 PRO 223 224 224 PRO PRO A . n A 1 224 HIS 224 225 225 HIS HIS A . n A 1 225 SER 225 226 226 SER SER A . n A 1 226 HIS 226 227 227 HIS HIS A . n A 1 227 LEU 227 228 228 LEU LEU A . n A 1 228 ASN 228 229 229 ASN ASN A . n A 1 229 ARG 229 230 230 ARG ARG A . n A 1 230 TRP 230 231 231 TRP TRP A . n A 1 231 ILE 231 232 232 ILE ILE A . n A 1 232 SER 232 233 233 SER SER A . n A 1 233 GLN 233 234 234 GLN GLN A . n A 1 234 THR 234 235 235 THR THR A . n A 1 235 ASP 235 236 236 ASP ASP A . n A 1 236 THR 236 237 237 THR THR A . n A 1 237 ALA 237 238 238 ALA ALA A . n A 1 238 PRO 238 239 239 PRO PRO A . n A 1 239 ALA 239 240 240 ALA ALA A . n A 1 240 THR 240 241 241 THR THR A . n A 1 241 ALA 241 242 242 ALA ALA A . n A 1 242 ARG 242 243 243 ARG ARG A . n A 1 243 HIS 243 244 244 HIS HIS A . n A 1 244 TRP 244 245 245 TRP TRP A . n A 1 245 SER 245 246 246 SER SER A . n A 1 246 LYS 246 247 247 LYS LYS A . n A 1 247 GLN 247 248 248 GLN GLN A . n A 1 248 ALA 248 249 249 ALA ALA A . n A 1 249 ILE 249 250 250 ILE ILE A . n A 1 250 GLN 250 251 251 GLN GLN A . n A 1 251 ARG 251 252 252 ARG ARG A . n A 1 252 PRO 252 253 253 PRO PRO A . n A 1 253 GLY 253 254 254 GLY GLY A . n A 1 254 ILE 254 255 255 ILE ILE A . n A 1 255 MET 255 256 256 MET MET A . n A 1 256 GLU 256 257 257 GLU GLU A . n A 1 257 GLN 257 258 258 GLN GLN A . n A 1 258 GLN 258 259 259 GLN GLN A . n A 1 259 PHE 259 260 260 PHE PHE A . n A 1 260 ARG 260 261 261 ARG ARG A . n A 1 261 TYR 261 262 262 TYR TYR A . n A 1 262 PRO 262 263 263 PRO PRO A . n A 1 263 ILE 263 264 264 ILE ILE A . n A 1 264 PRO 264 265 265 PRO PRO A . n A 1 265 ASN 265 266 266 ASN ASN A . n A 1 266 TRP 266 267 267 TRP TRP A . n A 1 267 PHE 267 268 268 PHE PHE A . n A 1 268 ILE 268 269 269 ILE ILE A . n A 1 269 LYS 269 270 270 LYS LYS A . n A 1 270 MET 270 271 271 MET MET A . n A 1 271 ILE 271 272 272 ILE ILE A . n A 1 272 PRO 272 273 273 PRO PRO A . n A 1 273 LEU 273 274 274 LEU LEU A . n A 1 274 PHE 274 275 275 PHE PHE A . n A 1 275 ASP 275 276 276 ASP ASP A . n A 1 276 SER 276 277 277 SER SER A . n A 1 277 GLN 277 278 278 GLN GLN A . n A 1 278 ASN 278 279 279 ASN ASN A . n A 1 279 ASN 279 280 280 ASN ASN A . n A 1 280 LEU 280 281 281 LEU LEU A . n A 1 281 ILE 281 282 282 ILE ILE A . n A 1 282 LYS 282 283 283 LYS LYS A . n A 1 283 THR 283 284 284 THR THR A . n A 1 284 THR 284 285 285 THR THR A . n A 1 285 ALA 285 286 286 ALA ALA A . n A 1 286 GLN 286 287 287 GLN GLN A . n A 1 287 VAL 287 288 288 VAL VAL A . n A 1 288 LEU 288 289 289 LEU LEU A . n A 1 289 ILE 289 290 290 ILE ILE A . n A 1 290 THR 290 291 291 THR THR A . n A 1 291 MET 291 292 292 MET MET A . n A 1 292 GLU 292 293 293 GLU GLU A . n A 1 293 LEU 293 294 294 LEU LEU A . n A 1 294 THR 294 295 295 THR THR A . n A 1 295 VAL 295 296 296 VAL VAL A . n A 1 296 ASP 296 297 297 ASP ASP A . n A 1 297 THR 297 298 298 THR THR A . n A 1 298 ILE 298 299 299 ILE ILE A . n A 1 299 PRO 299 300 300 PRO PRO A . n A 1 300 GLN 300 301 301 GLN GLN A . n A 1 301 SER 301 302 302 SER SER A . n A 1 302 LEU 302 303 303 LEU LEU A . n A 1 303 ALA 303 304 304 ALA ALA A . n A 1 304 ILE 304 305 305 ILE ILE A . n A 1 305 ASN 305 306 306 ASN ASN A . n A 1 306 MET 306 307 307 MET MET A . n A 1 307 PRO 307 308 308 PRO PRO A . n A 1 308 ILE 308 309 309 ILE ILE A . n A 1 309 ILE 309 310 310 ILE ILE A . n A 1 310 ASP 310 311 311 ASP ASP A . n A 1 311 ASP 311 312 312 ASP ASP A . n A 1 312 ILE 312 313 313 ILE ILE A . n A 1 313 ILE 313 314 314 ILE ILE A . n A 1 314 ALA 314 315 315 ALA ALA A . n A 1 315 PRO 315 316 316 PRO PRO A . n A 1 316 ASN 316 317 317 ASN ASN A . n A 1 317 HIS 317 318 318 HIS HIS A . n A 1 318 THR 318 319 319 THR THR A . n A 1 319 PRO 319 320 320 PRO PRO A . n A 1 320 ASN 320 321 321 ASN ASN A . n A 1 321 SER 321 322 322 SER SER A . n A 1 322 VAL 322 323 323 VAL VAL A . n A 1 323 PRO 323 324 324 PRO PRO A . n A 1 324 TYR 324 325 325 TYR TYR A . n A 1 325 CYS 325 326 326 CYS CYS A . n A 1 326 MET 326 327 327 MET MET A . n A 1 327 PHE 327 328 328 PHE PHE A . n A 1 328 ARG 328 329 329 ARG ARG A . n A 1 329 TYR 329 330 330 TYR TYR A . n A 1 330 GLN 330 331 331 GLN GLN A . n A 1 331 PRO 331 332 332 PRO PRO A . n A 1 332 ILE 332 333 333 ILE ILE A . n A 1 333 ILE 333 334 334 ILE ILE A . n A 1 334 PRO 334 335 335 PRO PRO A . n A 1 335 ILE 335 336 336 ILE ILE A . n A 1 336 ASN 336 337 337 ASN ASN A . n A 1 337 VAL 337 338 338 VAL VAL A . n A 1 338 GLY 338 339 339 GLY GLY A . n A 1 339 VAL 339 340 340 VAL VAL A . n A 1 340 LEU 340 341 341 LEU LEU A . n A 1 341 PRO 341 342 342 PRO PRO A . n A 1 342 ALA 342 343 343 ALA ALA A . n A 1 343 PRO 343 344 344 PRO PRO A . n A 1 344 PRO 344 345 345 PRO PRO A . n A 1 345 THR 345 346 346 THR THR A . n A 1 346 LYS 346 347 347 LYS LYS A . n A 1 347 GLY 347 348 348 GLY GLY A . n A 1 348 VAL 348 349 349 VAL VAL A . n A 1 349 PHE 349 350 350 PHE PHE A . n A 1 350 ILE 350 351 351 ILE ILE A . n A 1 351 PRO 351 352 352 PRO PRO A . n A 1 352 GLU 352 353 353 GLU GLU A . n A 1 353 LEU 353 354 354 LEU LEU A . n A 1 354 PRO 354 355 355 PRO PRO A . n A 1 355 ALA 355 356 356 ALA ALA A . n A 1 356 ARG 356 357 ? ? ? A . n A 1 357 SER 357 358 ? ? ? A . n A 1 358 ASP 358 359 ? ? ? A . n A 1 359 PRO 359 360 ? ? ? A . n A 1 360 THR 360 361 ? ? ? A . n A 1 361 SER 361 362 ? ? ? A . n A 1 362 ASP 362 363 ? ? ? A . n A 1 363 VAL 363 364 ? ? ? A . n A 1 364 GLU 364 365 ? ? ? A . n # _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 9NEK _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 9NEK _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 9NEK _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 9NEK _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 2.93 _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.correlation_coeff_I_to_Fcsqd_work ? _refine.correlation_coeff_I_to_Fcsqd_free ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'REAL-SPACE (WEIGHTED MAP SUM AT ATOM CENTERS)' _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' ? 0.004 ? 17646 ? f_bond_d ? ? 'ELECTRON MICROSCOPY' ? 0.554 ? 24156 ? f_angle_d ? ? 'ELECTRON MICROSCOPY' ? 4.932 ? 2274 ? f_dihedral_angle_d ? ? 'ELECTRON MICROSCOPY' ? 0.044 ? 2598 ? f_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.005 ? 3132 ? f_plane_restr ? ? # _struct.entry_id 9NEK _struct.title 'Capsid structure of the Syngnathus scovelli chapparvovirus virus-like particle' _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 9NEK _struct_keywords.text 'parvovirus, fish virus, virus capsid, T=1, icosahedral virus particle, chapparvovirus, chaphamaparvovirus, 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 A0A6B9D5B5_9VIRU _struct_ref.pdbx_db_accession A0A6B9D5B5 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MKFSNSYYAYIENQKNDYPDIGLERNPSEYQTGYHRIPNQYWASFLTPKDWFNLIYNNKAFRVVGARCTVSNMIPLTEQA AIQGNTTITTFNNTIYALCYTDNNYETEWEEPAARDLSFMWREGLTNGARHMLPTYKHGIYRTTTSQAHNVFYGWDPLCK AENILELRPGKNAVTFEWHAKEEIWLNTHMMQQFDPTHTPGIANTATVYSQEIHNQTHSNVTPHSHLNRWISQTDTAPAT ARHWSKQAIQRPGIMEQQFRYPIPNWFIKMIPLFDSQNNLIKTTAQVLITMELTVDTIPQSLAINMPIIDDIIAPNHTPN SVPYCMFRYQPIIPINVGVLPAPPTKGVFIPELPARSDPTSDVE ; _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 9NEK _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 364 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession A0A6B9D5B5 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 364 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 365 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details 'UCSF CHIMERA 1.18_b42531.' _pdbx_struct_assembly.oligomeric_details 60-meric _pdbx_struct_assembly.oligomeric_count 60 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression ;1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60 ; _pdbx_struct_assembly_gen.asym_id_list A # _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' # 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] 1 'identity operation' 1_555 x,y,z 1.0 0.0 0.0 0.0 0.0 1.0 0.0 0.0 0.0 0.0 1.0 0.0 2 'point symmetry operation' ? ? -0.809017 -0.500000 0.309017 485.59244 -0.500000 0.309017 -0.809017 484.46210 0.309017 -0.809017 -0.500000 483.76351 3 'point symmetry operation' ? ? 0.0 1.0 0.0 0.00001 0.0 0.0 -1.0 484.26901 -1.0 0.0 0.0 484.26902 4 'point symmetry operation' ? ? 0.809017 -0.500000 -0.309017 242.32759 -0.500000 -0.309017 -0.809017 634.42187 0.309017 0.809017 -0.500000 91.16374 5 'point symmetry operation' ? ? 0.500000 0.309017 -0.809017 241.82210 -0.309017 -0.809017 -0.500000 634.73428 -0.809017 0.500000 -0.309017 391.27637 6 'point symmetry operation' ? ? -0.309017 -0.809017 -0.500000 634.73429 -0.809017 0.500000 -0.309017 392.28737 0.500000 0.309017 -0.809017 240.81109 7 'point symmetry operation' ? ? -0.809017 0.500000 -0.309017 392.28737 0.500000 0.309017 -0.809017 241.82209 -0.309017 -0.809017 -0.500000 633.72329 8 'point symmetry operation' ? ? -0.809017 -0.500000 -0.309017 634.92738 0.500000 -0.309017 -0.809017 391.78186 0.309017 -0.809017 0.500000 242.13450 9 'point symmetry operation' ? ? -0.309017 0.809017 -0.500000 242.13452 -0.809017 -0.500000 -0.309017 634.92737 -0.500000 0.309017 0.809017 92.48716 10 'point symmetry operation' ? ? 0.500000 -0.309017 -0.809017 391.78187 -0.309017 0.809017 -0.500000 242.13451 0.809017 0.500000 0.309017 -150.65836 11 'point symmetry operation' ? ? 0.0 0.0 -1.0 484.26902 -1.0 0.0 0.0 485.28002 0.0 1.0 0.0 -1.01100 12 'point symmetry operation' ? ? -0.500000 -0.309017 -0.809017 634.42188 0.309017 0.809017 -0.500000 92.17473 0.809017 -0.500000 -0.309017 241.31659 13 'point symmetry operation' ? ? -0.500000 0.309017 -0.809017 484.46211 0.309017 -0.809017 -0.500000 484.77451 -0.809017 -0.500000 0.309017 484.58144 14 'point symmetry operation' ? ? -0.309017 -0.809017 -0.500000 634.73429 0.809017 -0.500000 0.309017 92.99264 -0.500000 -0.309017 0.809017 242.44693 15 'point symmetry operation' ? ? -0.809017 0.500000 -0.309017 392.28737 -0.500000 -0.309017 0.809017 243.45792 0.309017 0.809017 0.500000 -150.46527 16 'point symmetry operation' ? ? 0.500000 0.309017 -0.809017 241.82210 0.309017 0.809017 0.500000 -149.45427 0.809017 -0.500000 0.309017 91.98165 17 'point symmetry operation' ? ? -0.500000 0.309017 -0.809017 484.46211 -0.309017 0.809017 0.500000 0.50550 0.809017 0.500000 -0.309017 -1.32342 18 'point symmetry operation' ? ? 0.0 0.0 -1.0 484.26902 1.0 0.0 0.0 -0.00001 0.0 -1.0 0.0 484.26901 19 'point symmetry operation' ? ? -0.500000 -0.309017 -0.809017 634.42188 -0.309017 -0.809017 0.500000 393.10528 -0.809017 0.500000 0.309017 241.94143 20 'point symmetry operation' ? ? 0.0 -1.0 0.0 485.28002 0.0 0.0 1.0 1.01100 -1.0 0.0 0.0 484.26902 21 'point symmetry operation' ? ? -0.809017 0.500000 0.309017 242.95243 0.500000 0.309017 0.809017 -149.14186 0.309017 0.809017 -0.500000 91.16374 22 'point symmetry operation' ? ? 0.809017 0.500000 -0.309017 -0.31241 0.500000 -0.309017 0.809017 0.81791 0.309017 -0.809017 -0.500000 483.76351 23 'point symmetry operation' ? ? -0.309017 0.809017 -0.500000 242.13452 0.809017 0.500000 0.309017 -149.64736 0.500000 -0.309017 -0.809017 390.77086 24 'point symmetry operation' ? ? 0.500000 -0.309017 -0.809017 391.78187 0.309017 -0.809017 0.500000 243.14550 -0.809017 -0.500000 -0.309017 633.91638 25 'point symmetry operation' ? ? -0.809017 -0.500000 -0.309017 634.92738 -0.500000 0.309017 0.809017 93.49815 -0.309017 0.809017 -0.500000 241.12351 26 'point symmetry operation' ? ? -0.309017 -0.809017 0.500000 393.10528 -0.809017 0.500000 0.309017 242.95243 -0.500000 -0.309017 -0.809017 633.41088 27 'point symmetry operation' ? ? -0.309017 0.809017 0.500000 0.50551 0.809017 0.500000 -0.309017 -0.31242 -0.500000 0.309017 -0.809017 483.45111 28 'point symmetry operation' ? ? 1.0 0.0 0.0 0.0 0.0 -1.0 0.0 485.28001 0.0 0.0 -1.0 483.25802 29 'point symmetry operation' ? ? 0.309017 0.809017 -0.500000 92.17474 0.809017 -0.500000 -0.309017 242.32758 -0.500000 -0.309017 -0.809017 633.41088 30 'point symmetry operation' ? ? 0.309017 -0.809017 -0.500000 484.77452 -0.809017 -0.500000 0.309017 485.59243 -0.500000 0.309017 -0.809017 483.45111 31 'point symmetry operation' ? ? -1.0 0.0 0.0 485.28003 0.0 1.0 0.0 0.0 0.0 0.0 -1.0 483.25802 32 'point symmetry operation' ? ? 0.809017 0.500000 -0.309017 -0.31241 -0.500000 0.309017 -0.809017 484.46210 -0.309017 0.809017 0.500000 -0.50550 33 'point symmetry operation' ? ? 0.0 -1.0 0.0 485.28002 0.0 0.0 -1.0 484.26901 1.0 0.0 0.0 -1.01100 34 'point symmetry operation' ? ? -0.809017 0.500000 0.309017 242.95243 -0.500000 -0.309017 -0.809017 634.42187 -0.309017 -0.809017 0.500000 392.09428 35 'point symmetry operation' ? ? -0.500000 -0.309017 0.809017 243.45793 -0.309017 -0.809017 -0.500000 634.73428 0.809017 -0.500000 0.309017 91.98165 36 'point symmetry operation' ? ? 0.309017 0.809017 0.500000 -149.45427 -0.809017 0.500000 -0.309017 392.28737 -0.500000 -0.309017 0.809017 242.44693 37 'point symmetry operation' ? ? 0.809017 -0.500000 0.309017 92.99265 0.500000 0.309017 -0.809017 241.82209 0.309017 0.809017 0.500000 -150.46527 38 'point symmetry operation' ? ? 0.809017 0.500000 0.309017 -149.64735 0.500000 -0.309017 -0.809017 391.78186 -0.309017 0.809017 -0.500000 241.12351 39 'point symmetry operation' ? ? 0.309017 -0.809017 0.500000 243.14551 -0.809017 -0.500000 -0.309017 634.92737 0.500000 -0.309017 -0.809017 390.77086 40 'point symmetry operation' ? ? -0.500000 0.309017 0.809017 93.49816 -0.309017 0.809017 -0.500000 242.13451 -0.809017 -0.500000 -0.309017 633.91638 41 'point symmetry operation' ? ? 0.0 0.0 1.0 1.01100 -1.0 0.0 0.0 485.28002 0.0 -1.0 0.0 484.26901 42 'point symmetry operation' ? ? 0.500000 0.309017 0.809017 -149.14185 0.309017 0.809017 -0.500000 92.17473 -0.809017 0.500000 0.309017 241.94143 43 'point symmetry operation' ? ? 0.500000 -0.309017 0.809017 0.81792 0.309017 -0.809017 -0.500000 484.77451 0.809017 0.500000 -0.309017 -1.32342 44 'point symmetry operation' ? ? 0.309017 0.809017 0.500000 -149.45427 0.809017 -0.500000 0.309017 92.99264 0.500000 0.309017 -0.809017 240.81109 45 'point symmetry operation' ? ? 0.809017 -0.500000 0.309017 92.99265 -0.500000 -0.309017 0.809017 243.45792 -0.309017 -0.809017 -0.500000 633.72329 46 'point symmetry operation' ? ? -0.500000 -0.309017 0.809017 243.45793 0.309017 0.809017 0.500000 -149.45427 -0.809017 0.500000 -0.309017 391.27637 47 'point symmetry operation' ? ? 0.500000 -0.309017 0.809017 0.81792 -0.309017 0.809017 0.500000 0.50550 -0.809017 -0.500000 0.309017 484.58144 48 'point symmetry operation' ? ? 0.0 0.0 1.0 1.01100 1.0 0.0 0.0 -0.00001 0.0 1.0 0.0 -1.01100 49 'point symmetry operation' ? ? 0.500000 0.309017 0.809017 -149.14185 -0.309017 -0.809017 0.500000 393.10528 0.809017 -0.500000 -0.309017 241.31659 50 'point symmetry operation' ? ? 0.0 1.0 0.0 0.00001 0.0 0.0 1.0 1.01100 1.0 0.0 0.0 -1.01100 51 'point symmetry operation' ? ? 0.809017 -0.500000 -0.309017 242.32759 0.500000 0.309017 0.809017 -149.14186 -0.309017 -0.809017 0.500000 392.09428 52 'point symmetry operation' ? ? -0.809017 -0.500000 0.309017 485.59244 0.500000 -0.309017 0.809017 0.81791 -0.309017 0.809017 0.500000 -0.50550 53 'point symmetry operation' ? ? 0.309017 -0.809017 0.500000 243.14551 0.809017 0.500000 0.309017 -149.64736 -0.500000 0.309017 0.809017 92.48716 54 'point symmetry operation' ? ? -0.500000 0.309017 0.809017 93.49816 0.309017 -0.809017 0.500000 243.14550 0.809017 0.500000 0.309017 -150.65836 55 'point symmetry operation' ? ? 0.809017 0.500000 0.309017 -149.64735 -0.500000 0.309017 0.809017 93.49815 0.309017 -0.809017 0.500000 242.13450 56 'point symmetry operation' ? ? 0.309017 0.809017 -0.500000 92.17474 -0.809017 0.500000 0.309017 242.95243 0.500000 0.309017 0.809017 -150.15286 57 'point symmetry operation' ? ? 0.309017 -0.809017 -0.500000 484.77452 0.809017 0.500000 -0.309017 -0.31242 0.500000 -0.309017 0.809017 -0.19309 58 'point symmetry operation' ? ? -1.0 0.0 0.0 485.28003 0.0 -1.0 0.0 485.28001 0.0 0.0 1.0 0.0 59 'point symmetry operation' ? ? -0.309017 -0.809017 0.500000 393.10528 0.809017 -0.500000 -0.309017 242.32758 0.500000 0.309017 0.809017 -150.15286 60 'point symmetry operation' ? ? -0.309017 0.809017 0.500000 0.50551 -0.809017 -0.500000 0.309017 485.59243 0.500000 -0.309017 0.809017 -0.19309 # 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 TYR A 41 ? PHE A 45 ? TYR A 41 PHE A 45 5 ? 5 HELX_P HELX_P2 AA2 THR A 47 ? TYR A 56 ? THR A 47 TYR A 56 1 ? 10 HELX_P HELX_P3 AA3 HIS A 149 ? GLY A 154 ? HIS A 150 GLY A 155 5 ? 6 HELX_P HELX_P4 AA4 ASP A 156 ? ILE A 164 ? ASP A 157 ILE A 165 5 ? 9 HELX_P HELX_P5 AA5 SER A 225 ? ASP A 235 ? SER A 226 ASP A 236 1 ? 11 HELX_P HELX_P6 AA6 ALA A 241 ? SER A 245 ? ALA A 242 SER A 246 5 ? 5 HELX_P HELX_P7 AA7 LYS A 246 ? ARG A 251 ? LYS A 247 ARG A 252 1 ? 6 HELX_P HELX_P8 AA8 ILE A 254 ? GLN A 258 ? ILE A 255 GLN A 259 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 ILE _struct_mon_prot_cis.label_seq_id 350 _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 ILE _struct_mon_prot_cis.auth_seq_id 351 _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_2 351 _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_2 352 _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 -5.06 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 4 ? AA2 ? 3 ? AA3 ? 5 ? AA4 ? 3 ? AA5 ? 2 ? AA6 ? 2 ? # 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 AA3 1 2 ? anti-parallel AA3 2 3 ? anti-parallel AA3 3 4 ? anti-parallel AA3 4 5 ? anti-parallel AA4 1 2 ? anti-parallel AA4 2 3 ? anti-parallel AA5 1 2 ? anti-parallel AA6 1 2 ? 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 LYS A 2 ? ILE A 11 ? LYS A 2 ILE A 11 AA1 2 THR A 283 ? PRO A 299 ? THR A 284 PRO A 300 AA1 3 ASN A 58 ? GLU A 78 ? ASN A 58 GLU A 78 AA1 4 GLY A 170 ? HIS A 179 ? GLY A 171 HIS A 180 AA2 1 ILE A 88 ? THR A 89 ? ILE A 89 THR A 90 AA2 2 ASN A 58 ? GLU A 78 ? ASN A 58 GLU A 78 AA2 3 LEU A 186 ? ASN A 187 ? LEU A 187 ASN A 188 AA3 1 THR A 135 ? TYR A 141 ? THR A 136 TYR A 142 AA3 2 PRO A 27 ? ARG A 36 ? PRO A 27 ARG A 36 AA3 3 ASN A 265 ? MET A 270 ? ASN A 266 MET A 271 AA3 4 ALA A 97 ? ASP A 102 ? ALA A 98 ASP A 103 AA3 5 LEU A 165 ? LEU A 167 ? LEU A 166 LEU A 168 AA4 1 MET A 191 ? GLN A 193 ? MET A 192 GLN A 194 AA4 2 VAL A 208 ? SER A 210 ? VAL A 209 SER A 211 AA4 3 VAL A 348 ? ILE A 350 ? VAL A 349 ILE A 351 AA5 1 LEU A 273 ? PHE A 274 ? LEU A 274 PHE A 275 AA5 2 LEU A 280 ? ILE A 281 ? LEU A 281 ILE A 282 AA6 1 ILE A 313 ? ASN A 316 ? ILE A 314 ASN A 317 AA6 2 TYR A 324 ? PHE A 327 ? TYR A 325 PHE A 328 # 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 PHE A 3 ? N PHE A 3 O LEU A 293 ? O LEU A 294 AA1 2 3 O THR A 284 ? O THR A 285 N LEU A 76 ? N LEU A 76 AA1 3 4 N CYS A 68 ? N CYS A 68 O PHE A 176 ? O PHE A 177 AA2 1 2 O THR A 89 ? O THR A 90 N THR A 77 ? N THR A 77 AA2 2 3 N PHE A 61 ? N PHE A 61 O LEU A 186 ? O LEU A 187 AA3 1 2 O HIS A 138 ? O HIS A 139 N TYR A 30 ? N TYR A 30 AA3 2 3 N HIS A 35 ? N HIS A 35 O ILE A 268 ? O ILE A 269 AA3 3 4 O LYS A 269 ? O LYS A 270 N LEU A 98 ? N LEU A 99 AA3 4 5 N CYS A 99 ? N CYS A 100 O LEU A 165 ? O LEU A 166 AA4 1 2 N GLN A 192 ? N GLN A 193 O TYR A 209 ? O TYR A 210 AA4 2 3 N VAL A 208 ? N VAL A 209 O ILE A 350 ? O ILE A 351 AA5 1 2 N LEU A 273 ? N LEU A 274 O ILE A 281 ? O ILE A 282 AA6 1 2 N ASN A 316 ? N ASN A 317 O TYR A 324 ? O TYR A 325 # _pdbx_entry_details.entry_id 9NEK _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest ? _pdbx_entry_details.has_protein_modification N # 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 ASN A 39 ? ? -140.24 24.01 2 1 THR A 91 ? ? -97.06 33.20 3 1 HIS A 215 ? ? 54.96 -135.80 4 1 SER A 226 ? ? -92.71 59.88 5 1 THR A 237 ? ? -97.15 32.14 # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 9NEK _em_3d_fitting.method ? _em_3d_fitting.target_criteria ? _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_space REAL _em_3d_fitting.ref_protocol 'AB INITIO MODEL' # _em_3d_reconstruction.entry_id 9NEK _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 2.93 _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 2202 _em_3d_reconstruction.euler_angles_details ? _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.symmetry_type POINT # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name ? _em_buffer.details ? _em_buffer.pH 7.2 # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.source RECOMBINANT _em_entity_assembly.type VIRUS _em_entity_assembly.name 'Syngnathus scovelli chapparvovirus' _em_entity_assembly.details ? _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list 1 # _em_imaging.entry_id 9NEK _em_imaging.id 1 _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.residual_tilt ? _em_imaging.microscope_model 'TFS TALOS' _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model ? _em_imaging.details ? _em_imaging.date ? _em_imaging.accelerating_voltage 200 _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs 2.7 _em_imaging.nominal_defocus_min 600 _em_imaging.nominal_defocus_max 2000 _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_imaging.objective_aperture ? _em_imaging.microscope_serial_number ? _em_imaging.microscope_version ? # _em_sample_support.id 1 _em_sample_support.film_material ? _em_sample_support.method ? _em_sample_support.grid_material GOLD _em_sample_support.grid_mesh_size 300 _em_sample_support.grid_type 'UltrAuFoil R1.2/1.3' _em_sample_support.details ? _em_sample_support.specimen_id 1 _em_sample_support.citation_id ? # _em_virus_entity.id 1 _em_virus_entity.virus_host_category ? _em_virus_entity.virus_type 'VIRUS-LIKE PARTICLE' _em_virus_entity.virus_isolate SPECIES _em_virus_entity.entity_assembly_id 1 _em_virus_entity.enveloped NO _em_virus_entity.empty YES _em_virus_entity.details ? # _em_vitrification.entry_id 9NEK _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity 95 _em_vitrification.temp ? _em_vitrification.chamber_temperature 297 _em_vitrification.instrument 'LEICA EM GP' _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.details 'Front blotted only' # _em_experiment.entry_id 9NEK _em_experiment.id 1 _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.aggregation_state PARTICLE _em_experiment.entity_assembly_id 1 # _em_single_particle_entity.entry_id 9NEK _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 ALA 82 ? A ALA 81 2 1 Y 1 A ILE 83 ? A ILE 82 3 1 Y 1 A GLN 84 ? A GLN 83 4 1 Y 1 A GLY 85 ? A GLY 84 5 1 Y 1 A ASN 86 ? A ASN 85 6 1 Y 1 A THR 87 ? A THR 86 7 1 Y 1 A ARG 357 ? A ARG 356 8 1 Y 1 A SER 358 ? A SER 357 9 1 Y 1 A ASP 359 ? A ASP 358 10 1 Y 1 A PRO 360 ? A PRO 359 11 1 Y 1 A THR 361 ? A THR 360 12 1 Y 1 A SER 362 ? A SER 361 13 1 Y 1 A ASP 363 ? A ASP 362 14 1 Y 1 A VAL 364 ? A VAL 363 15 1 Y 1 A GLU 365 ? A GLU 364 # 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 HIS N N N N 137 HIS CA C N S 138 HIS C C N N 139 HIS O O N N 140 HIS CB C N N 141 HIS CG C Y N 142 HIS ND1 N Y N 143 HIS CD2 C Y N 144 HIS CE1 C Y N 145 HIS NE2 N Y N 146 HIS OXT O N N 147 HIS H H N N 148 HIS H2 H N N 149 HIS HA H N N 150 HIS HB2 H N N 151 HIS HB3 H N N 152 HIS HD1 H N N 153 HIS HD2 H N N 154 HIS HE1 H N N 155 HIS HE2 H N N 156 HIS HXT H N N 157 ILE N N N N 158 ILE CA C N S 159 ILE C C N N 160 ILE O O N N 161 ILE CB C N S 162 ILE CG1 C N N 163 ILE CG2 C N N 164 ILE CD1 C N N 165 ILE OXT O N N 166 ILE H H N N 167 ILE H2 H N N 168 ILE HA H N N 169 ILE HB H N N 170 ILE HG12 H N N 171 ILE HG13 H N N 172 ILE HG21 H N N 173 ILE HG22 H N N 174 ILE HG23 H N N 175 ILE HD11 H N N 176 ILE HD12 H N N 177 ILE HD13 H N N 178 ILE HXT H N N 179 LEU N N N N 180 LEU CA C N S 181 LEU C C N N 182 LEU O O N N 183 LEU CB C N N 184 LEU CG C N N 185 LEU CD1 C N N 186 LEU CD2 C N N 187 LEU OXT O N N 188 LEU H H N N 189 LEU H2 H N N 190 LEU HA H N N 191 LEU HB2 H N N 192 LEU HB3 H N N 193 LEU HG H N N 194 LEU HD11 H N N 195 LEU HD12 H N N 196 LEU HD13 H N N 197 LEU HD21 H N N 198 LEU HD22 H N N 199 LEU HD23 H N N 200 LEU HXT H N N 201 LYS N N N N 202 LYS CA C N S 203 LYS C C N N 204 LYS O O N N 205 LYS CB C N N 206 LYS CG C N N 207 LYS CD C N N 208 LYS CE C N N 209 LYS NZ N N N 210 LYS OXT O N N 211 LYS H H N N 212 LYS H2 H N N 213 LYS HA H N N 214 LYS HB2 H N N 215 LYS HB3 H N N 216 LYS HG2 H N N 217 LYS HG3 H N N 218 LYS HD2 H N N 219 LYS HD3 H N N 220 LYS HE2 H N N 221 LYS HE3 H N N 222 LYS HZ1 H N N 223 LYS HZ2 H N N 224 LYS HZ3 H N N 225 LYS HXT H N N 226 MET N N N N 227 MET CA C N S 228 MET C C N N 229 MET O O N N 230 MET CB C N N 231 MET CG C N N 232 MET SD S N N 233 MET CE C N N 234 MET OXT O N N 235 MET H H N N 236 MET H2 H N N 237 MET HA H N N 238 MET HB2 H N N 239 MET HB3 H N N 240 MET HG2 H N N 241 MET HG3 H N N 242 MET HE1 H N N 243 MET HE2 H N N 244 MET HE3 H N N 245 MET HXT H N N 246 PHE N N N N 247 PHE CA C N S 248 PHE C C N N 249 PHE O O N N 250 PHE CB C N N 251 PHE CG C Y N 252 PHE CD1 C Y N 253 PHE CD2 C Y N 254 PHE CE1 C Y N 255 PHE CE2 C Y N 256 PHE CZ C Y N 257 PHE OXT O N N 258 PHE H H N N 259 PHE H2 H N N 260 PHE HA H N N 261 PHE HB2 H N N 262 PHE HB3 H N N 263 PHE HD1 H N N 264 PHE HD2 H N N 265 PHE HE1 H N N 266 PHE HE2 H N N 267 PHE HZ H N N 268 PHE HXT H N N 269 PRO N N N N 270 PRO CA C N S 271 PRO C C N N 272 PRO O O N N 273 PRO CB C N N 274 PRO CG C N N 275 PRO CD C N N 276 PRO OXT O N N 277 PRO H H N N 278 PRO HA H N N 279 PRO HB2 H N N 280 PRO HB3 H N N 281 PRO HG2 H N N 282 PRO HG3 H N N 283 PRO HD2 H N N 284 PRO HD3 H N N 285 PRO HXT H N N 286 SER N N N N 287 SER CA C N S 288 SER C C N N 289 SER O O N N 290 SER CB C N N 291 SER OG O N N 292 SER OXT O N N 293 SER H H N N 294 SER H2 H N N 295 SER HA H N N 296 SER HB2 H N N 297 SER HB3 H N N 298 SER HG H N N 299 SER HXT H N N 300 THR N N N N 301 THR CA C N S 302 THR C C N N 303 THR O O N N 304 THR CB C N R 305 THR OG1 O N N 306 THR CG2 C N N 307 THR OXT O N N 308 THR H H N N 309 THR H2 H N N 310 THR HA H N N 311 THR HB H N N 312 THR HG1 H N N 313 THR HG21 H N N 314 THR HG22 H N N 315 THR HG23 H N N 316 THR HXT H N N 317 TRP N N N N 318 TRP CA C N S 319 TRP C C N N 320 TRP O O N N 321 TRP CB C N N 322 TRP CG C Y N 323 TRP CD1 C Y N 324 TRP CD2 C Y N 325 TRP NE1 N Y N 326 TRP CE2 C Y N 327 TRP CE3 C Y N 328 TRP CZ2 C Y N 329 TRP CZ3 C Y N 330 TRP CH2 C Y N 331 TRP OXT O N N 332 TRP H H N N 333 TRP H2 H N N 334 TRP HA H N N 335 TRP HB2 H N N 336 TRP HB3 H N N 337 TRP HD1 H N N 338 TRP HE1 H N N 339 TRP HE3 H N N 340 TRP HZ2 H N N 341 TRP HZ3 H N N 342 TRP HH2 H N N 343 TRP HXT H N N 344 TYR N N N N 345 TYR CA C N S 346 TYR C C N N 347 TYR O O N N 348 TYR CB C N N 349 TYR CG C Y N 350 TYR CD1 C Y N 351 TYR CD2 C Y N 352 TYR CE1 C Y N 353 TYR CE2 C Y N 354 TYR CZ C Y N 355 TYR OH O N N 356 TYR OXT O N N 357 TYR H H N N 358 TYR H2 H N N 359 TYR HA H N N 360 TYR HB2 H N N 361 TYR HB3 H N N 362 TYR HD1 H N N 363 TYR HD2 H N N 364 TYR HE1 H N N 365 TYR HE2 H N N 366 TYR HH H N N 367 TYR HXT H N N 368 VAL N N N N 369 VAL CA C N S 370 VAL C C N N 371 VAL O O N N 372 VAL CB C N N 373 VAL CG1 C N N 374 VAL CG2 C N N 375 VAL OXT O N N 376 VAL H H N N 377 VAL H2 H N N 378 VAL HA H N N 379 VAL HB H N N 380 VAL HG11 H N N 381 VAL HG12 H N N 382 VAL HG13 H N N 383 VAL HG21 H N N 384 VAL HG22 H N N 385 VAL HG23 H N N 386 VAL HXT H N N 387 # 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 HIS N CA sing N N 129 HIS N H sing N N 130 HIS N H2 sing N N 131 HIS CA C sing N N 132 HIS CA CB sing N N 133 HIS CA HA sing N N 134 HIS C O doub N N 135 HIS C OXT sing N N 136 HIS CB CG sing N N 137 HIS CB HB2 sing N N 138 HIS CB HB3 sing N N 139 HIS CG ND1 sing Y N 140 HIS CG CD2 doub Y N 141 HIS ND1 CE1 doub Y N 142 HIS ND1 HD1 sing N N 143 HIS CD2 NE2 sing Y N 144 HIS CD2 HD2 sing N N 145 HIS CE1 NE2 sing Y N 146 HIS CE1 HE1 sing N N 147 HIS NE2 HE2 sing N N 148 HIS OXT HXT sing N N 149 ILE N CA sing N N 150 ILE N H sing N N 151 ILE N H2 sing N N 152 ILE CA C sing N N 153 ILE CA CB sing N N 154 ILE CA HA sing N N 155 ILE C O doub N N 156 ILE C OXT sing N N 157 ILE CB CG1 sing N N 158 ILE CB CG2 sing N N 159 ILE CB HB sing N N 160 ILE CG1 CD1 sing N N 161 ILE CG1 HG12 sing N N 162 ILE CG1 HG13 sing N N 163 ILE CG2 HG21 sing N N 164 ILE CG2 HG22 sing N N 165 ILE CG2 HG23 sing N N 166 ILE CD1 HD11 sing N N 167 ILE CD1 HD12 sing N N 168 ILE CD1 HD13 sing N N 169 ILE OXT HXT sing N N 170 LEU N CA sing N N 171 LEU N H sing N N 172 LEU N H2 sing N N 173 LEU CA C sing N N 174 LEU CA CB sing N N 175 LEU CA HA sing N N 176 LEU C O doub N N 177 LEU C OXT sing N N 178 LEU CB CG sing N N 179 LEU CB HB2 sing N N 180 LEU CB HB3 sing N N 181 LEU CG CD1 sing N N 182 LEU CG CD2 sing N N 183 LEU CG HG sing N N 184 LEU CD1 HD11 sing N N 185 LEU CD1 HD12 sing N N 186 LEU CD1 HD13 sing N N 187 LEU CD2 HD21 sing N N 188 LEU CD2 HD22 sing N N 189 LEU CD2 HD23 sing N N 190 LEU OXT HXT sing N N 191 LYS N CA sing N N 192 LYS N H sing N N 193 LYS N H2 sing N N 194 LYS CA C sing N N 195 LYS CA CB sing N N 196 LYS CA HA sing N N 197 LYS C O doub N N 198 LYS C OXT sing N N 199 LYS CB CG sing N N 200 LYS CB HB2 sing N N 201 LYS CB HB3 sing N N 202 LYS CG CD sing N N 203 LYS CG HG2 sing N N 204 LYS CG HG3 sing N N 205 LYS CD CE sing N N 206 LYS CD HD2 sing N N 207 LYS CD HD3 sing N N 208 LYS CE NZ sing N N 209 LYS CE HE2 sing N N 210 LYS CE HE3 sing N N 211 LYS NZ HZ1 sing N N 212 LYS NZ HZ2 sing N N 213 LYS NZ HZ3 sing N N 214 LYS OXT HXT sing N N 215 MET N CA sing N N 216 MET N H sing N N 217 MET N H2 sing N N 218 MET CA C sing N N 219 MET CA CB sing N N 220 MET CA HA sing N N 221 MET C O doub N N 222 MET C OXT sing N N 223 MET CB CG sing N N 224 MET CB HB2 sing N N 225 MET CB HB3 sing N N 226 MET CG SD sing N N 227 MET CG HG2 sing N N 228 MET CG HG3 sing N N 229 MET SD CE sing N N 230 MET CE HE1 sing N N 231 MET CE HE2 sing N N 232 MET CE HE3 sing N N 233 MET OXT HXT sing N N 234 PHE N CA sing N N 235 PHE N H sing N N 236 PHE N H2 sing N N 237 PHE CA C sing N N 238 PHE CA CB sing N N 239 PHE CA HA sing N N 240 PHE C O doub N N 241 PHE C OXT sing N N 242 PHE CB CG sing N N 243 PHE CB HB2 sing N N 244 PHE CB HB3 sing N N 245 PHE CG CD1 doub Y N 246 PHE CG CD2 sing Y N 247 PHE CD1 CE1 sing Y N 248 PHE CD1 HD1 sing N N 249 PHE CD2 CE2 doub Y N 250 PHE CD2 HD2 sing N N 251 PHE CE1 CZ doub Y N 252 PHE CE1 HE1 sing N N 253 PHE CE2 CZ sing Y N 254 PHE CE2 HE2 sing N N 255 PHE CZ HZ sing N N 256 PHE OXT HXT sing N N 257 PRO N CA sing N N 258 PRO N CD sing N N 259 PRO N H sing N N 260 PRO CA C sing N N 261 PRO CA CB sing N N 262 PRO CA HA sing N N 263 PRO C O doub N N 264 PRO C OXT sing N N 265 PRO CB CG sing N N 266 PRO CB HB2 sing N N 267 PRO CB HB3 sing N N 268 PRO CG CD sing N N 269 PRO CG HG2 sing N N 270 PRO CG HG3 sing N N 271 PRO CD HD2 sing N N 272 PRO CD HD3 sing N N 273 PRO OXT HXT sing N N 274 SER N CA sing N N 275 SER N H sing N N 276 SER N H2 sing N N 277 SER CA C sing N N 278 SER CA CB sing N N 279 SER CA HA sing N N 280 SER C O doub N N 281 SER C OXT sing N N 282 SER CB OG sing N N 283 SER CB HB2 sing N N 284 SER CB HB3 sing N N 285 SER OG HG sing N N 286 SER OXT HXT sing N N 287 THR N CA sing N N 288 THR N H sing N N 289 THR N H2 sing N N 290 THR CA C sing N N 291 THR CA CB sing N N 292 THR CA HA sing N N 293 THR C O doub N N 294 THR C OXT sing N N 295 THR CB OG1 sing N N 296 THR CB CG2 sing N N 297 THR CB HB sing N N 298 THR OG1 HG1 sing N N 299 THR CG2 HG21 sing N N 300 THR CG2 HG22 sing N N 301 THR CG2 HG23 sing N N 302 THR OXT HXT sing N N 303 TRP N CA sing N N 304 TRP N H sing N N 305 TRP N H2 sing N N 306 TRP CA C sing N N 307 TRP CA CB sing N N 308 TRP CA HA sing N N 309 TRP C O doub N N 310 TRP C OXT sing N N 311 TRP CB CG sing N N 312 TRP CB HB2 sing N N 313 TRP CB HB3 sing N N 314 TRP CG CD1 doub Y N 315 TRP CG CD2 sing Y N 316 TRP CD1 NE1 sing Y N 317 TRP CD1 HD1 sing N N 318 TRP CD2 CE2 doub Y N 319 TRP CD2 CE3 sing Y N 320 TRP NE1 CE2 sing Y N 321 TRP NE1 HE1 sing N N 322 TRP CE2 CZ2 sing Y N 323 TRP CE3 CZ3 doub Y N 324 TRP CE3 HE3 sing N N 325 TRP CZ2 CH2 doub Y N 326 TRP CZ2 HZ2 sing N N 327 TRP CZ3 CH2 sing Y N 328 TRP CZ3 HZ3 sing N N 329 TRP CH2 HH2 sing N N 330 TRP OXT HXT sing N N 331 TYR N CA sing N N 332 TYR N H sing N N 333 TYR N H2 sing N N 334 TYR CA C sing N N 335 TYR CA CB sing N N 336 TYR CA HA sing N N 337 TYR C O doub N N 338 TYR C OXT sing N N 339 TYR CB CG sing N N 340 TYR CB HB2 sing N N 341 TYR CB HB3 sing N N 342 TYR CG CD1 doub Y N 343 TYR CG CD2 sing Y N 344 TYR CD1 CE1 sing Y N 345 TYR CD1 HD1 sing N N 346 TYR CD2 CE2 doub Y N 347 TYR CD2 HD2 sing N N 348 TYR CE1 CZ doub Y N 349 TYR CE1 HE1 sing N N 350 TYR CE2 CZ sing Y N 351 TYR CE2 HE2 sing N N 352 TYR CZ OH sing N N 353 TYR OH HH sing N N 354 TYR OXT HXT sing N N 355 VAL N CA sing N N 356 VAL N H sing N N 357 VAL N H2 sing N N 358 VAL CA C sing N N 359 VAL CA CB sing N N 360 VAL CA HA sing N N 361 VAL C O doub N N 362 VAL C OXT sing N N 363 VAL CB CG1 sing N N 364 VAL CB CG2 sing N N 365 VAL CB HB sing N N 366 VAL CG1 HG11 sing N N 367 VAL CG1 HG12 sing N N 368 VAL CG1 HG13 sing N N 369 VAL CG2 HG21 sing N N 370 VAL CG2 HG22 sing N N 371 VAL CG2 HG23 sing N N 372 VAL OXT HXT sing N N 373 # _em_admin.current_status REL _em_admin.deposition_date 2025-02-19 _em_admin.deposition_site RCSB _em_admin.entry_id 9NEK _em_admin.last_update 2025-07-30 _em_admin.map_release_date 2025-03-05 _em_admin.title 'Capsid structure of the Syngnathus scovelli chapparvovirus virus-like particle' # _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 0.41 # _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 2662396 _em_entity_assembly_naturalsource.organism 'Syngnathus scovelli chapparvovirus' _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 Sf9 _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.ncbi_tax_id 46015 _em_entity_assembly_recombinant.organism 'Autographa californica nucleopolyhedrovirus' _em_entity_assembly_recombinant.plasmid pFastBac1 _em_entity_assembly_recombinant.strain AcNPV # _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 31 _em_image_recording.details ? _em_image_recording.detector_mode COUNTING _em_image_recording.film_or_detector_model 'GATAN K2 SUMMIT (4k 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 1 _em_image_recording.num_real_images 11910 # _em_imaging_optics.chr_aberration_corrector ? _em_imaging_optics.energyfilter_lower ? _em_imaging_optics.energyfilter_slit_width 20 _em_imaging_optics.energyfilter_name ? _em_imaging_optics.energyfilter_upper ? _em_imaging_optics.id 1 _em_imaging_optics.imaging_id 1 _em_imaging_optics.phase_plate ? _em_imaging_optics.sph_aberration_corrector ? _em_imaging_optics.details ? # _em_particle_selection.details ? _em_particle_selection.id 1 _em_particle_selection.image_processing_id 1 _em_particle_selection.method ? _em_particle_selection.num_particles_selected 14213 _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 ? ? cryoSPARC ? 'IMAGE ACQUISITION' ? 2 ? ? 1 SerialEM ? MASKING ? 3 ? ? ? ? ? 'CTF CORRECTION' ? 4 1 ? ? cryoSPARC ? 'LAYERLINE INDEXING' ? 5 ? ? ? ? ? 'DIFFRACTION INDEXING' ? 6 ? ? ? ? ? 'MODEL FITTING' ? 7 ? 1 ? Coot 0.9.8.96 OTHER ? 8 ? ? ? ? ? 'INITIAL EULER ASSIGNMENT' ? 9 1 ? ? ? ? 'FINAL EULER ASSIGNMENT' ? 10 1 ? ? ? ? CLASSIFICATION ? 11 1 ? ? ? ? RECONSTRUCTION ? 12 1 ? ? cryoSPARC ? 'MODEL REFINEMENT' ? 13 ? 1 ? PHENIX 1.19.2_4158 'VOLUME SELECTION' ? 14 1 1 1 ? ? 'SERIES ALIGNMENT' ? 15 1 1 1 ? ? 'MOLECULAR REPLACEMENT' ? 16 1 1 1 ? ? 'LATTICE DISTORTION CORRECTION' ? 17 1 1 1 ? ? 'SYMMETRY DETERMINATION' ? 18 1 1 1 ? ? 'CRYSTALLOGRAPHY MERGING' ? 19 1 1 1 ? ? # _em_specimen.concentration 0.05 _em_specimen.details 'Very diluted sample prep' _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 # _em_virus_natural_host.entity_assembly_id 1 _em_virus_natural_host.id 1 _em_virus_natural_host.ncbi_tax_id 161590 _em_virus_natural_host.organism 'Syngnathus scovelli' _em_virus_natural_host.strain ? # _em_virus_shell.diameter 220 _em_virus_shell.entity_assembly_id 1 _em_virus_shell.id 1 _em_virus_shell.name 'virus particle' _em_virus_shell.triangulation 1 # _pdbx_audit_support.funding_organization 'Other government' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # _atom_sites.entry_id 9NEK _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 S # loop_ #