data_3B8K # _entry.id 3B8K # _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 3B8K pdb_00003b8k 10.2210/pdb3b8k/pdb RCSB RCSB045213 ? ? WWPDB D_1000045213 ? ? # 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 2008-01-22 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2018-07-18 4 'Structure model' 1 3 2024-02-21 # _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' 'Version format compliance' 2 3 'Structure model' 'Data collection' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Refinement description' # 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 3 'Structure model' em_image_scans 2 3 'Structure model' em_software 3 4 'Structure model' chem_comp_atom 4 4 'Structure model' chem_comp_bond 5 4 'Structure model' database_2 6 4 'Structure model' em_3d_fitting_list 7 4 'Structure model' pdbx_initial_refinement_model # 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 3 'Structure model' '_em_software.image_processing_id' 2 4 'Structure model' '_database_2.pdbx_DOI' 3 4 'Structure model' '_database_2.pdbx_database_accession' 4 4 'Structure model' '_em_3d_fitting_list.accession_code' 5 4 'Structure model' '_em_3d_fitting_list.initial_refinement_model_id' 6 4 'Structure model' '_em_3d_fitting_list.source_name' 7 4 'Structure model' '_em_3d_fitting_list.type' # _pdbx_database_status.entry_id 3B8K _pdbx_database_status.status_code REL _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2007-11-01 _pdbx_database_status.SG_entry N _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1EAA 'ATOMIC STRUCTURE OF THE CUBIC CORE OF THE PYRUVATE DEHYDROGENASE MULTIENZYME COMPLEX' unspecified EMDB EMD-1448 . 'associated EM volume' # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Yu, X.' 1 'Hiromasa, Y.' 2 'Tsen, H.' 3 'Stoops, J.K.' 4 'Roche, T.E.' 5 'Zhou, Z.H.' 6 # _citation.id primary _citation.title 'Structures of the human pyruvate dehydrogenase complex cores: a highly conserved catalytic center with flexible N-terminal domains' _citation.journal_abbrev Structure _citation.journal_volume 16 _citation.page_first 104 _citation.page_last 114 _citation.year 2008 _citation.journal_id_ASTM STRUE6 _citation.country UK _citation.journal_id_ISSN 0969-2126 _citation.journal_id_CSD 2005 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 18184588 _citation.pdbx_database_id_DOI 10.1016/j.str.2007.10.024 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Yu, X.' 1 ? primary 'Hiromasa, Y.' 2 ? primary 'Tsen, H.' 3 ? primary 'Stoops, J.K.' 4 ? primary 'Roche, T.E.' 5 ? primary 'Zhou, Z.H.' 6 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'Dihydrolipoyllysine-residue acetyltransferase' _entity.formula_weight 25938.164 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec 2.3.1.12 _entity.pdbx_mutation ? _entity.pdbx_fragment 'C-TERMINAL CATALYTIC DOMAIN' _entity.details 'component of pyruvate dehydrogenase complex, mitochondrial' # _entity_name_com.entity_id 1 _entity_name_com.name ;Pyruvate dehydrogenase complex E2 subunit; PDCE2; E2; Dihydrolipoamide S- acetyltransferase component of pyruvate dehydrogenase complex; PDC-E2; 70 kDa mitochondrial autoantigen of primary biliary cirrhosis; PBC; M2 antigen complex 70 kDa subunit ; # _entity_name_sys.entity_id 1 _entity_name_sys.name E.C.2.3.1.12 # _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 ;GPGMAPVPTGVFTDIPISNIRRVIAQRLMQSKQTIPHYYLSIDVNMGEVLLVRKELNKILEGRSKISVNDFIIKASALAC LKVPEANSSWMDTVIRQNHVVDVSVAVSTPAGLITPIVFNAHIKGVETIANDVVSLATKAREGKLQPHEFQGGTFTISNL GMFGIKNFSAIINPPQACILAIGASEDKLVPADNEKGFDVASMMSVTLSCDHRVVDGAVGAQWLAEFRKYLEKPITMLL ; _entity_poly.pdbx_seq_one_letter_code_can ;GPGMAPVPTGVFTDIPISNIRRVIAQRLMQSKQTIPHYYLSIDVNMGEVLLVRKELNKILEGRSKISVNDFIIKASALAC LKVPEANSSWMDTVIRQNHVVDVSVAVSTPAGLITPIVFNAHIKGVETIANDVVSLATKAREGKLQPHEFQGGTFTISNL GMFGIKNFSAIINPPQACILAIGASEDKLVPADNEKGFDVASMMSVTLSCDHRVVDGAVGAQWLAEFRKYLEKPITMLL ; _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 GLY n 1 2 PRO n 1 3 GLY n 1 4 MET n 1 5 ALA n 1 6 PRO n 1 7 VAL n 1 8 PRO n 1 9 THR n 1 10 GLY n 1 11 VAL n 1 12 PHE n 1 13 THR n 1 14 ASP n 1 15 ILE n 1 16 PRO n 1 17 ILE n 1 18 SER n 1 19 ASN n 1 20 ILE n 1 21 ARG n 1 22 ARG n 1 23 VAL n 1 24 ILE n 1 25 ALA n 1 26 GLN n 1 27 ARG n 1 28 LEU n 1 29 MET n 1 30 GLN n 1 31 SER n 1 32 LYS n 1 33 GLN n 1 34 THR n 1 35 ILE n 1 36 PRO n 1 37 HIS n 1 38 TYR n 1 39 TYR n 1 40 LEU n 1 41 SER n 1 42 ILE n 1 43 ASP n 1 44 VAL n 1 45 ASN n 1 46 MET n 1 47 GLY n 1 48 GLU n 1 49 VAL n 1 50 LEU n 1 51 LEU n 1 52 VAL n 1 53 ARG n 1 54 LYS n 1 55 GLU n 1 56 LEU n 1 57 ASN n 1 58 LYS n 1 59 ILE n 1 60 LEU n 1 61 GLU n 1 62 GLY n 1 63 ARG n 1 64 SER n 1 65 LYS n 1 66 ILE n 1 67 SER n 1 68 VAL n 1 69 ASN n 1 70 ASP n 1 71 PHE n 1 72 ILE n 1 73 ILE n 1 74 LYS n 1 75 ALA n 1 76 SER n 1 77 ALA n 1 78 LEU n 1 79 ALA n 1 80 CYS n 1 81 LEU n 1 82 LYS n 1 83 VAL n 1 84 PRO n 1 85 GLU n 1 86 ALA n 1 87 ASN n 1 88 SER n 1 89 SER n 1 90 TRP n 1 91 MET n 1 92 ASP n 1 93 THR n 1 94 VAL n 1 95 ILE n 1 96 ARG n 1 97 GLN n 1 98 ASN n 1 99 HIS n 1 100 VAL n 1 101 VAL n 1 102 ASP n 1 103 VAL n 1 104 SER n 1 105 VAL n 1 106 ALA n 1 107 VAL n 1 108 SER n 1 109 THR n 1 110 PRO n 1 111 ALA n 1 112 GLY n 1 113 LEU n 1 114 ILE n 1 115 THR n 1 116 PRO n 1 117 ILE n 1 118 VAL n 1 119 PHE n 1 120 ASN n 1 121 ALA n 1 122 HIS n 1 123 ILE n 1 124 LYS n 1 125 GLY n 1 126 VAL n 1 127 GLU n 1 128 THR n 1 129 ILE n 1 130 ALA n 1 131 ASN n 1 132 ASP n 1 133 VAL n 1 134 VAL n 1 135 SER n 1 136 LEU n 1 137 ALA n 1 138 THR n 1 139 LYS n 1 140 ALA n 1 141 ARG n 1 142 GLU n 1 143 GLY n 1 144 LYS n 1 145 LEU n 1 146 GLN n 1 147 PRO n 1 148 HIS n 1 149 GLU n 1 150 PHE n 1 151 GLN n 1 152 GLY n 1 153 GLY n 1 154 THR n 1 155 PHE n 1 156 THR n 1 157 ILE n 1 158 SER n 1 159 ASN n 1 160 LEU n 1 161 GLY n 1 162 MET n 1 163 PHE n 1 164 GLY n 1 165 ILE n 1 166 LYS n 1 167 ASN n 1 168 PHE n 1 169 SER n 1 170 ALA n 1 171 ILE n 1 172 ILE n 1 173 ASN n 1 174 PRO n 1 175 PRO n 1 176 GLN n 1 177 ALA n 1 178 CYS n 1 179 ILE n 1 180 LEU n 1 181 ALA n 1 182 ILE n 1 183 GLY n 1 184 ALA n 1 185 SER n 1 186 GLU n 1 187 ASP n 1 188 LYS n 1 189 LEU n 1 190 VAL n 1 191 PRO n 1 192 ALA n 1 193 ASP n 1 194 ASN n 1 195 GLU n 1 196 LYS n 1 197 GLY n 1 198 PHE n 1 199 ASP n 1 200 VAL n 1 201 ALA n 1 202 SER n 1 203 MET n 1 204 MET n 1 205 SER n 1 206 VAL n 1 207 THR n 1 208 LEU n 1 209 SER n 1 210 CYS n 1 211 ASP n 1 212 HIS n 1 213 ARG n 1 214 VAL n 1 215 VAL n 1 216 ASP n 1 217 GLY n 1 218 ALA n 1 219 VAL n 1 220 GLY n 1 221 ALA n 1 222 GLN n 1 223 TRP n 1 224 LEU n 1 225 ALA n 1 226 GLU n 1 227 PHE n 1 228 ARG n 1 229 LYS n 1 230 TYR n 1 231 LEU n 1 232 GLU n 1 233 LYS n 1 234 PRO n 1 235 ILE n 1 236 THR n 1 237 MET n 1 238 LEU n 1 239 LEU 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 ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name human _entity_src_gen.gene_src_genus Homo _entity_src_gen.pdbx_gene_src_gene 'DLAT, DLTA' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli BL21(DE3)' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008 _entity_src_gen.host_org_genus Escherichia _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species 'Escherichia coli' _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain 'BL21(DE3)' _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 PLASMID _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 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 GLY 1 323 323 GLY GLY A . n A 1 2 PRO 2 324 324 PRO PRO A . n A 1 3 GLY 3 325 325 GLY GLY A . n A 1 4 MET 4 326 326 MET MET A . n A 1 5 ALA 5 327 327 ALA ALA A . n A 1 6 PRO 6 328 328 PRO PRO A . n A 1 7 VAL 7 329 329 VAL VAL A . n A 1 8 PRO 8 330 330 PRO PRO A . n A 1 9 THR 9 331 331 THR THR A . n A 1 10 GLY 10 332 332 GLY GLY A . n A 1 11 VAL 11 333 333 VAL VAL A . n A 1 12 PHE 12 334 334 PHE PHE A . n A 1 13 THR 13 335 335 THR THR A . n A 1 14 ASP 14 336 336 ASP ASP A . n A 1 15 ILE 15 337 337 ILE ILE A . n A 1 16 PRO 16 338 338 PRO PRO A . n A 1 17 ILE 17 339 339 ILE ILE A . n A 1 18 SER 18 340 340 SER SER A . n A 1 19 ASN 19 341 341 ASN ASN A . n A 1 20 ILE 20 342 342 ILE ILE A . n A 1 21 ARG 21 343 343 ARG ARG A . n A 1 22 ARG 22 344 344 ARG ARG A . n A 1 23 VAL 23 345 345 VAL VAL A . n A 1 24 ILE 24 346 346 ILE ILE A . n A 1 25 ALA 25 347 347 ALA ALA A . n A 1 26 GLN 26 348 348 GLN GLN A . n A 1 27 ARG 27 349 349 ARG ARG A . n A 1 28 LEU 28 350 350 LEU LEU A . n A 1 29 MET 29 351 351 MET MET A . n A 1 30 GLN 30 352 352 GLN GLN A . n A 1 31 SER 31 353 353 SER SER A . n A 1 32 LYS 32 354 354 LYS LYS A . n A 1 33 GLN 33 355 355 GLN GLN A . n A 1 34 THR 34 356 356 THR THR A . n A 1 35 ILE 35 357 357 ILE ILE A . n A 1 36 PRO 36 358 358 PRO PRO A . n A 1 37 HIS 37 359 359 HIS HIS A . n A 1 38 TYR 38 360 360 TYR TYR A . n A 1 39 TYR 39 361 361 TYR TYR A . n A 1 40 LEU 40 362 362 LEU LEU A . n A 1 41 SER 41 363 363 SER SER A . n A 1 42 ILE 42 364 364 ILE ILE A . n A 1 43 ASP 43 365 365 ASP ASP A . n A 1 44 VAL 44 366 366 VAL VAL A . n A 1 45 ASN 45 367 367 ASN ASN A . n A 1 46 MET 46 368 368 MET MET A . n A 1 47 GLY 47 369 369 GLY GLY A . n A 1 48 GLU 48 370 370 GLU GLU A . n A 1 49 VAL 49 371 371 VAL VAL A . n A 1 50 LEU 50 372 372 LEU LEU A . n A 1 51 LEU 51 373 373 LEU LEU A . n A 1 52 VAL 52 374 374 VAL VAL A . n A 1 53 ARG 53 375 375 ARG ARG A . n A 1 54 LYS 54 376 376 LYS LYS A . n A 1 55 GLU 55 377 377 GLU GLU A . n A 1 56 LEU 56 378 378 LEU LEU A . n A 1 57 ASN 57 379 379 ASN ASN A . n A 1 58 LYS 58 380 380 LYS LYS A . n A 1 59 ILE 59 381 381 ILE ILE A . n A 1 60 LEU 60 382 382 LEU LEU A . n A 1 61 GLU 61 383 383 GLU GLU A . n A 1 62 GLY 62 384 384 GLY GLY A . n A 1 63 ARG 63 385 385 ARG ARG A . n A 1 64 SER 64 386 386 SER SER A . n A 1 65 LYS 65 387 387 LYS LYS A . n A 1 66 ILE 66 388 388 ILE ILE A . n A 1 67 SER 67 389 389 SER SER A . n A 1 68 VAL 68 390 390 VAL VAL A . n A 1 69 ASN 69 391 391 ASN ASN A . n A 1 70 ASP 70 392 392 ASP ASP A . n A 1 71 PHE 71 393 393 PHE PHE A . n A 1 72 ILE 72 394 394 ILE ILE A . n A 1 73 ILE 73 395 395 ILE ILE A . n A 1 74 LYS 74 396 396 LYS LYS A . n A 1 75 ALA 75 397 397 ALA ALA A . n A 1 76 SER 76 398 398 SER SER A . n A 1 77 ALA 77 399 399 ALA ALA A . n A 1 78 LEU 78 400 400 LEU LEU A . n A 1 79 ALA 79 401 401 ALA ALA A . n A 1 80 CYS 80 402 402 CYS CYS A . n A 1 81 LEU 81 403 403 LEU LEU A . n A 1 82 LYS 82 404 404 LYS LYS A . n A 1 83 VAL 83 405 405 VAL VAL A . n A 1 84 PRO 84 406 406 PRO PRO A . n A 1 85 GLU 85 407 407 GLU GLU A . n A 1 86 ALA 86 408 408 ALA ALA A . n A 1 87 ASN 87 409 409 ASN ASN A . n A 1 88 SER 88 410 410 SER SER A . n A 1 89 SER 89 411 411 SER SER A . n A 1 90 TRP 90 412 412 TRP TRP A . n A 1 91 MET 91 413 413 MET MET A . n A 1 92 ASP 92 414 414 ASP ASP A . n A 1 93 THR 93 415 415 THR THR A . n A 1 94 VAL 94 416 416 VAL VAL A . n A 1 95 ILE 95 417 417 ILE ILE A . n A 1 96 ARG 96 418 418 ARG ARG A . n A 1 97 GLN 97 419 419 GLN GLN A . n A 1 98 ASN 98 420 420 ASN ASN A . n A 1 99 HIS 99 421 421 HIS HIS A . n A 1 100 VAL 100 422 422 VAL VAL A . n A 1 101 VAL 101 423 423 VAL VAL A . n A 1 102 ASP 102 424 424 ASP ASP A . n A 1 103 VAL 103 425 425 VAL VAL A . n A 1 104 SER 104 426 426 SER SER A . n A 1 105 VAL 105 427 427 VAL VAL A . n A 1 106 ALA 106 428 428 ALA ALA A . n A 1 107 VAL 107 429 429 VAL VAL A . n A 1 108 SER 108 430 430 SER SER A . n A 1 109 THR 109 431 431 THR THR A . n A 1 110 PRO 110 432 432 PRO PRO A . n A 1 111 ALA 111 433 433 ALA ALA A . n A 1 112 GLY 112 434 434 GLY GLY A . n A 1 113 LEU 113 435 435 LEU LEU A . n A 1 114 ILE 114 436 436 ILE ILE A . n A 1 115 THR 115 437 437 THR THR A . n A 1 116 PRO 116 438 438 PRO PRO A . n A 1 117 ILE 117 439 439 ILE ILE A . n A 1 118 VAL 118 440 440 VAL VAL A . n A 1 119 PHE 119 441 441 PHE PHE A . n A 1 120 ASN 120 442 442 ASN ASN A . n A 1 121 ALA 121 443 443 ALA ALA A . n A 1 122 HIS 122 444 444 HIS HIS A . n A 1 123 ILE 123 445 445 ILE ILE A . n A 1 124 LYS 124 446 446 LYS LYS A . n A 1 125 GLY 125 447 447 GLY GLY A . n A 1 126 VAL 126 448 448 VAL VAL A . n A 1 127 GLU 127 449 449 GLU GLU A . n A 1 128 THR 128 450 450 THR THR A . n A 1 129 ILE 129 451 451 ILE ILE A . n A 1 130 ALA 130 452 452 ALA ALA A . n A 1 131 ASN 131 453 453 ASN ASN A . n A 1 132 ASP 132 454 454 ASP ASP A . n A 1 133 VAL 133 455 455 VAL VAL A . n A 1 134 VAL 134 456 456 VAL VAL A . n A 1 135 SER 135 457 457 SER SER A . n A 1 136 LEU 136 458 458 LEU LEU A . n A 1 137 ALA 137 459 459 ALA ALA A . n A 1 138 THR 138 460 460 THR THR A . n A 1 139 LYS 139 461 461 LYS LYS A . n A 1 140 ALA 140 462 462 ALA ALA A . n A 1 141 ARG 141 463 463 ARG ARG A . n A 1 142 GLU 142 464 464 GLU GLU A . n A 1 143 GLY 143 465 465 GLY GLY A . n A 1 144 LYS 144 466 466 LYS LYS A . n A 1 145 LEU 145 467 467 LEU LEU A . n A 1 146 GLN 146 468 468 GLN GLN A . n A 1 147 PRO 147 469 469 PRO PRO A . n A 1 148 HIS 148 470 470 HIS HIS A . n A 1 149 GLU 149 471 471 GLU GLU A . n A 1 150 PHE 150 472 472 PHE PHE A . n A 1 151 GLN 151 473 473 GLN GLN A . n A 1 152 GLY 152 474 474 GLY GLY A . n A 1 153 GLY 153 475 475 GLY GLY A . n A 1 154 THR 154 476 476 THR THR A . n A 1 155 PHE 155 477 477 PHE PHE A . n A 1 156 THR 156 478 478 THR THR A . n A 1 157 ILE 157 479 479 ILE ILE A . n A 1 158 SER 158 480 480 SER SER A . n A 1 159 ASN 159 481 481 ASN ASN A . n A 1 160 LEU 160 482 482 LEU LEU A . n A 1 161 GLY 161 483 483 GLY GLY A . n A 1 162 MET 162 484 484 MET MET A . n A 1 163 PHE 163 485 485 PHE PHE A . n A 1 164 GLY 164 486 486 GLY GLY A . n A 1 165 ILE 165 487 487 ILE ILE A . n A 1 166 LYS 166 488 488 LYS LYS A . n A 1 167 ASN 167 489 489 ASN ASN A . n A 1 168 PHE 168 490 490 PHE PHE A . n A 1 169 SER 169 491 491 SER SER A . n A 1 170 ALA 170 492 492 ALA ALA A . n A 1 171 ILE 171 493 493 ILE ILE A . n A 1 172 ILE 172 494 494 ILE ILE A . n A 1 173 ASN 173 495 495 ASN ASN A . n A 1 174 PRO 174 496 496 PRO PRO A . n A 1 175 PRO 175 497 497 PRO PRO A . n A 1 176 GLN 176 498 498 GLN GLN A . n A 1 177 ALA 177 499 499 ALA ALA A . n A 1 178 CYS 178 500 500 CYS CYS A . n A 1 179 ILE 179 501 501 ILE ILE A . n A 1 180 LEU 180 502 502 LEU LEU A . n A 1 181 ALA 181 503 503 ALA ALA A . n A 1 182 ILE 182 504 504 ILE ILE A . n A 1 183 GLY 183 505 505 GLY GLY A . n A 1 184 ALA 184 506 506 ALA ALA A . n A 1 185 SER 185 507 507 SER SER A . n A 1 186 GLU 186 508 508 GLU GLU A . n A 1 187 ASP 187 509 509 ASP ASP A . n A 1 188 LYS 188 510 510 LYS LYS A . n A 1 189 LEU 189 511 511 LEU LEU A . n A 1 190 VAL 190 512 512 VAL VAL A . n A 1 191 PRO 191 513 513 PRO PRO A . n A 1 192 ALA 192 514 514 ALA ALA A . n A 1 193 ASP 193 515 515 ASP ASP A . n A 1 194 ASN 194 516 516 ASN ASN A . n A 1 195 GLU 195 517 517 GLU GLU A . n A 1 196 LYS 196 518 518 LYS LYS A . n A 1 197 GLY 197 519 519 GLY GLY A . n A 1 198 PHE 198 520 520 PHE PHE A . n A 1 199 ASP 199 521 521 ASP ASP A . n A 1 200 VAL 200 522 522 VAL VAL A . n A 1 201 ALA 201 523 523 ALA ALA A . n A 1 202 SER 202 524 524 SER SER A . n A 1 203 MET 203 525 525 MET MET A . n A 1 204 MET 204 526 526 MET MET A . n A 1 205 SER 205 527 527 SER SER A . n A 1 206 VAL 206 528 528 VAL VAL A . n A 1 207 THR 207 529 529 THR THR A . n A 1 208 LEU 208 530 530 LEU LEU A . n A 1 209 SER 209 531 531 SER SER A . n A 1 210 CYS 210 532 532 CYS CYS A . n A 1 211 ASP 211 533 533 ASP ASP A . n A 1 212 HIS 212 534 534 HIS HIS A . n A 1 213 ARG 213 535 535 ARG ARG A . n A 1 214 VAL 214 536 536 VAL VAL A . n A 1 215 VAL 215 537 537 VAL VAL A . n A 1 216 ASP 216 538 538 ASP ASP A . n A 1 217 GLY 217 539 539 GLY GLY A . n A 1 218 ALA 218 540 540 ALA ALA A . n A 1 219 VAL 219 541 541 VAL VAL A . n A 1 220 GLY 220 542 542 GLY GLY A . n A 1 221 ALA 221 543 543 ALA ALA A . n A 1 222 GLN 222 544 544 GLN GLN A . n A 1 223 TRP 223 545 545 TRP TRP A . n A 1 224 LEU 224 546 546 LEU LEU A . n A 1 225 ALA 225 547 547 ALA ALA A . n A 1 226 GLU 226 548 548 GLU GLU A . n A 1 227 PHE 227 549 549 PHE PHE A . n A 1 228 ARG 228 550 550 ARG ARG A . n A 1 229 LYS 229 551 551 LYS LYS A . n A 1 230 TYR 230 552 552 TYR TYR A . n A 1 231 LEU 231 553 553 LEU LEU A . n A 1 232 GLU 232 554 554 GLU GLU A . n A 1 233 LYS 233 555 555 LYS LYS A . n A 1 234 PRO 234 556 556 PRO PRO A . n A 1 235 ILE 235 557 557 ILE ILE A . n A 1 236 THR 236 558 558 THR THR A . n A 1 237 MET 237 559 559 MET MET A . n A 1 238 LEU 238 560 560 LEU LEU A . n A 1 239 LEU 239 561 561 LEU LEU A . n # _exptl.entry_id 3B8K _exptl.method 'ELECTRON MICROSCOPY' _exptl.crystals_number ? # _refine_hist.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1818 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 1818 _refine_hist.d_res_high . _refine_hist.d_res_low . # _struct.entry_id 3B8K _struct.title 'Structure of the Truncated Human Dihydrolipoyl Acetyltransferase (E2)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag N _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3B8K _struct_keywords.pdbx_keywords TRANSFERASE _struct_keywords.text 'central beta-sheet surrounded by five alpha-helices, TRANSFERASE' # _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.entity_id 1 _struct_ref.db_name UNP _struct_ref.db_code ODP2_HUMAN _struct_ref.pdbx_db_accession P10515 _struct_ref.pdbx_align_begin 376 _struct_ref.pdbx_seq_one_letter_code ;GPGMAPVPTGVFTDIPISNIRRVIAQRLMQSKQTIPHYYLSIDVNMGEVLLVRKELNKILEGRSKISVNDFIIKASALAC LKVPEANSSWMDTVIRQNHVVDVSVAVSTPAGLITPIVFNAHIKGVETIANDVVSLATKAREGKLQPHEFQGGTFTISNL GMFGIKNFSAIINPPQACILAIGASEDKLVPADNEKGFDVASMMSVTLSCDHRVVDGAVGAQWLAEFRKYLEKPITMLL ; _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3B8K _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 239 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession P10515 _struct_ref_seq.db_align_beg 376 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 614 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 323 _struct_ref_seq.pdbx_auth_seq_align_end 561 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _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 1 ILE A 20 ? ILE A 35 ? ILE A 342 ILE A 357 1 ? 16 HELX_P HELX_P2 2 GLU A 48 ? LEU A 56 ? GLU A 370 LEU A 378 1 ? 9 HELX_P HELX_P3 3 LEU A 56 ? GLU A 61 ? LEU A 378 GLU A 383 1 ? 6 HELX_P HELX_P4 4 SER A 67 ? VAL A 83 ? SER A 389 VAL A 405 1 ? 17 HELX_P HELX_P5 5 GLY A 125 ? GLU A 142 ? GLY A 447 GLU A 464 1 ? 18 HELX_P HELX_P6 6 GLN A 146 ? GLN A 151 ? GLN A 468 GLN A 473 5 ? 6 HELX_P HELX_P7 7 ASP A 216 ? LYS A 233 ? ASP A 538 LYS A 555 1 ? 18 HELX_P HELX_P8 8 PRO A 234 ? LEU A 239 ? PRO A 556 LEU A 561 1 ? 6 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_mon_prot_cis.pdbx_id _struct_mon_prot_cis.label_comp_id _struct_mon_prot_cis.label_seq_id _struct_mon_prot_cis.label_asym_id _struct_mon_prot_cis.label_alt_id _struct_mon_prot_cis.pdbx_PDB_ins_code _struct_mon_prot_cis.auth_comp_id _struct_mon_prot_cis.auth_seq_id _struct_mon_prot_cis.auth_asym_id _struct_mon_prot_cis.pdbx_label_comp_id_2 _struct_mon_prot_cis.pdbx_label_seq_id_2 _struct_mon_prot_cis.pdbx_label_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_ins_code_2 _struct_mon_prot_cis.pdbx_auth_comp_id_2 _struct_mon_prot_cis.pdbx_auth_seq_id_2 _struct_mon_prot_cis.pdbx_auth_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_model_num _struct_mon_prot_cis.pdbx_omega_angle 1 THR 13 A . ? THR 335 A ASP 14 A ? ASP 336 A 1 2.34 2 VAL 94 A . ? VAL 416 A ILE 95 A ? ILE 417 A 1 -3.83 3 ILE 95 A . ? ILE 417 A ARG 96 A ? ARG 418 A 1 3.40 4 ASP 199 A . ? ASP 521 A VAL 200 A ? VAL 522 A 1 -10.13 5 VAL 200 A . ? VAL 522 A ALA 201 A ? ALA 523 A 1 -5.48 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 2 ? B ? 4 ? C ? 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 A 1 2 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? parallel B 3 4 ? parallel C 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 A 1 LEU A 40 ? VAL A 44 ? LEU A 362 VAL A 366 A 2 MET A 204 ? LEU A 208 ? MET A 526 LEU A 530 B 1 ILE A 117 ? VAL A 118 ? ILE A 439 VAL A 440 B 2 VAL A 103 ? VAL A 105 ? VAL A 425 VAL A 427 B 3 PHE A 155 ? ASN A 159 ? PHE A 477 ASN A 481 B 4 ALA A 181 ? ILE A 182 ? ALA A 503 ILE A 504 C 1 VAL A 107 ? SER A 108 ? VAL A 429 SER A 430 C 2 LEU A 113 ? ILE A 114 ? LEU A 435 ILE A 436 # 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 A 1 2 N ILE A 42 ? N ILE A 364 O VAL A 206 ? O VAL A 528 B 1 2 O VAL A 118 ? O VAL A 440 N VAL A 103 ? N VAL A 425 B 2 3 N SER A 104 ? N SER A 426 O ILE A 157 ? O ILE A 479 B 3 4 N SER A 158 ? N SER A 480 O ILE A 182 ? O ILE A 504 C 1 2 N VAL A 107 ? N VAL A 429 O ILE A 114 ? O ILE A 436 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 NE2 _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 HIS _pdbx_validate_rmsd_bond.auth_seq_id_1 359 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 CD2 _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 HIS _pdbx_validate_rmsd_bond.auth_seq_id_2 359 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.307 _pdbx_validate_rmsd_bond.bond_target_value 1.373 _pdbx_validate_rmsd_bond.bond_deviation -0.066 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.011 _pdbx_validate_rmsd_bond.linker_flag N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 CB A PHE 334 ? ? CG A PHE 334 ? ? CD2 A PHE 334 ? ? 125.98 120.80 5.18 0.70 N 2 1 CB A ASP 336 ? ? CG A ASP 336 ? ? OD2 A ASP 336 ? ? 109.46 118.30 -8.84 0.90 N 3 1 CB A ILE 337 ? ? CG1 A ILE 337 ? ? CD1 A ILE 337 ? ? 133.26 113.90 19.36 2.80 N 4 1 N A SER 340 ? ? CA A SER 340 ? ? CB A SER 340 ? ? 121.11 110.50 10.61 1.50 N 5 1 CB A ILE 342 ? ? CG1 A ILE 342 ? ? CD1 A ILE 342 ? ? 138.02 113.90 24.12 2.80 N 6 1 CG A ARG 349 ? ? CD A ARG 349 ? ? NE A ARG 349 ? ? 127.84 111.80 16.04 2.10 N 7 1 NE A ARG 349 ? ? CZ A ARG 349 ? ? NH2 A ARG 349 ? ? 115.04 120.30 -5.26 0.50 N 8 1 ND1 A HIS 359 ? ? CE1 A HIS 359 ? ? NE2 A HIS 359 ? ? 99.44 108.50 -9.06 1.10 N 9 1 CE1 A HIS 359 ? ? NE2 A HIS 359 ? ? CD2 A HIS 359 ? ? 115.77 109.00 6.77 0.70 N 10 1 CB A TYR 361 ? ? CG A TYR 361 ? ? CD2 A TYR 361 ? ? 124.71 121.00 3.71 0.60 N 11 1 CG1 A VAL 366 ? ? CB A VAL 366 ? ? CG2 A VAL 366 ? ? 139.85 110.90 28.95 1.60 N 12 1 CA A VAL 366 ? ? CB A VAL 366 ? ? CG2 A VAL 366 ? ? 94.21 110.90 -16.69 1.50 N 13 1 CB A LEU 382 ? ? CG A LEU 382 ? ? CD1 A LEU 382 ? ? 99.25 111.00 -11.75 1.70 N 14 1 CB A ASP 392 ? ? CG A ASP 392 ? ? OD1 A ASP 392 ? ? 111.54 118.30 -6.76 0.90 N 15 1 CG1 A VAL 422 ? ? CB A VAL 422 ? ? CG2 A VAL 422 ? ? 100.39 110.90 -10.51 1.60 N 16 1 CA A VAL 422 ? ? CB A VAL 422 ? ? CG2 A VAL 422 ? ? 120.28 110.90 9.38 1.50 N 17 1 CB A PHE 477 ? ? CG A PHE 477 ? ? CD2 A PHE 477 ? ? 113.46 120.80 -7.34 0.70 N 18 1 O A ILE 487 ? ? C A ILE 487 ? ? N A LYS 488 ? ? 112.74 122.70 -9.96 1.60 Y 19 1 CB A ALA 506 ? ? CA A ALA 506 ? ? C A ALA 506 ? ? 100.20 110.10 -9.90 1.50 N 20 1 N A ALA 506 ? ? CA A ALA 506 ? ? CB A ALA 506 ? ? 118.92 110.10 8.82 1.40 N 21 1 CA A ALA 506 ? ? C A ALA 506 ? ? O A ALA 506 ? ? 99.92 120.10 -20.18 2.10 N 22 1 CB A LEU 511 ? ? CG A LEU 511 ? ? CD2 A LEU 511 ? ? 122.01 111.00 11.01 1.70 N 23 1 CG1 A VAL 512 ? ? CB A VAL 512 ? ? CG2 A VAL 512 ? ? 90.92 110.90 -19.98 1.60 N 24 1 CA A VAL 512 ? ? CB A VAL 512 ? ? CG2 A VAL 512 ? ? 79.40 110.90 -31.50 1.50 N 25 1 CA A PRO 513 ? ? N A PRO 513 ? ? CD A PRO 513 ? ? 100.62 111.70 -11.08 1.40 N 26 1 CB A ASP 521 ? ? CG A ASP 521 ? ? OD1 A ASP 521 ? ? 127.68 118.30 9.38 0.90 N 27 1 CB A ASP 521 ? ? CG A ASP 521 ? ? OD2 A ASP 521 ? ? 112.16 118.30 -6.14 0.90 N 28 1 CG1 A VAL 522 ? ? CB A VAL 522 ? ? CG2 A VAL 522 ? ? 92.86 110.90 -18.04 1.60 N 29 1 CA A VAL 522 ? ? CB A VAL 522 ? ? CG2 A VAL 522 ? ? 131.72 110.90 20.82 1.50 N 30 1 CB A ALA 523 ? ? CA A ALA 523 ? ? C A ALA 523 ? ? 101.01 110.10 -9.09 1.50 N 31 1 N A ALA 523 ? ? CA A ALA 523 ? ? CB A ALA 523 ? ? 128.26 110.10 18.16 1.40 N 32 1 O A ALA 523 ? ? C A ALA 523 ? ? N A SER 524 ? ? 133.44 122.70 10.74 1.60 Y 33 1 CG A MET 525 ? ? SD A MET 525 ? ? CE A MET 525 ? ? 119.97 100.20 19.77 1.60 N 34 1 N A SER 527 ? ? CA A SER 527 ? ? CB A SER 527 ? ? 126.41 110.50 15.91 1.50 N 35 1 CA A SER 527 ? ? CB A SER 527 ? ? OG A SER 527 ? ? 138.17 111.20 26.97 2.70 N 36 1 CA A VAL 537 ? ? C A VAL 537 ? ? O A VAL 537 ? ? 103.99 120.10 -16.11 2.10 N 37 1 CB A LEU 546 ? ? CG A LEU 546 ? ? CD1 A LEU 546 ? ? 97.03 111.00 -13.97 1.70 N 38 1 CB A LEU 553 ? ? CA A LEU 553 ? ? C A LEU 553 ? ? 123.25 110.20 13.05 1.90 N 39 1 CB A LEU 553 ? ? CG A LEU 553 ? ? CD2 A LEU 553 ? ? 124.08 111.00 13.08 1.70 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 PRO A 330 ? ? -59.20 -85.58 2 1 ASP A 336 ? ? 169.25 89.00 3 1 ILE A 337 ? ? 61.93 176.37 4 1 PRO A 338 ? ? -57.20 89.52 5 1 ILE A 339 ? ? 101.74 -150.22 6 1 SER A 340 ? ? 63.61 60.33 7 1 ILE A 342 ? ? -161.52 -143.31 8 1 HIS A 359 ? ? -127.02 -164.73 9 1 TYR A 360 ? ? -179.64 95.32 10 1 TYR A 361 ? ? -45.19 152.26 11 1 LYS A 387 ? ? 62.97 90.70 12 1 ILE A 388 ? ? -49.99 104.55 13 1 GLU A 407 ? ? -15.60 151.54 14 1 TRP A 412 ? ? 60.21 -87.20 15 1 MET A 413 ? ? -65.00 -141.94 16 1 ASP A 414 ? ? 135.43 151.86 17 1 ARG A 418 ? ? 60.12 102.16 18 1 ASN A 420 ? ? 25.55 -85.24 19 1 HIS A 421 ? ? 152.57 87.27 20 1 VAL A 422 ? ? 31.87 -148.22 21 1 VAL A 423 ? ? -166.82 76.97 22 1 ALA A 433 ? ? -59.84 -70.72 23 1 PHE A 441 ? ? -8.62 -136.16 24 1 ASN A 442 ? ? 85.63 110.62 25 1 HIS A 444 ? ? 170.55 27.31 26 1 LYS A 446 ? ? -168.93 89.60 27 1 PHE A 472 ? ? 163.27 47.71 28 1 GLN A 473 ? ? -53.49 -119.55 29 1 PHE A 477 ? ? 175.10 139.91 30 1 MET A 484 ? ? -55.23 25.73 31 1 PHE A 485 ? ? -170.22 -102.41 32 1 ASN A 489 ? ? 74.18 93.64 33 1 SER A 491 ? ? -166.62 -155.44 34 1 ALA A 492 ? ? 119.17 56.03 35 1 ILE A 493 ? ? -43.84 162.55 36 1 ILE A 494 ? ? -101.97 -100.41 37 1 ILE A 501 ? ? -79.69 -72.17 38 1 LEU A 502 ? ? 175.52 116.85 39 1 ALA A 506 ? ? 155.27 -177.69 40 1 SER A 507 ? ? 146.85 143.27 41 1 LYS A 510 ? ? -62.60 2.24 42 1 LEU A 511 ? ? -102.79 51.60 43 1 ALA A 514 ? ? 153.92 -81.24 44 1 VAL A 522 ? ? 91.43 173.11 45 1 SER A 524 ? ? -18.70 -176.43 46 1 MET A 525 ? ? 173.51 145.46 47 1 CYS A 532 ? ? -171.33 134.33 48 1 ASP A 538 ? ? 123.53 -154.64 # loop_ _pdbx_validate_peptide_omega.id _pdbx_validate_peptide_omega.PDB_model_num _pdbx_validate_peptide_omega.auth_comp_id_1 _pdbx_validate_peptide_omega.auth_asym_id_1 _pdbx_validate_peptide_omega.auth_seq_id_1 _pdbx_validate_peptide_omega.PDB_ins_code_1 _pdbx_validate_peptide_omega.label_alt_id_1 _pdbx_validate_peptide_omega.auth_comp_id_2 _pdbx_validate_peptide_omega.auth_asym_id_2 _pdbx_validate_peptide_omega.auth_seq_id_2 _pdbx_validate_peptide_omega.PDB_ins_code_2 _pdbx_validate_peptide_omega.label_alt_id_2 _pdbx_validate_peptide_omega.omega 1 1 ILE A 501 ? ? LEU A 502 ? ? -144.47 2 1 LEU A 511 ? ? VAL A 512 ? ? 113.47 # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 ARG A 349 ? ? 0.075 'SIDE CHAIN' 2 1 HIS A 359 ? ? 0.155 'SIDE CHAIN' 3 1 PHE A 477 ? ? 0.139 'SIDE CHAIN' # loop_ _pdbx_validate_main_chain_plane.id _pdbx_validate_main_chain_plane.PDB_model_num _pdbx_validate_main_chain_plane.auth_comp_id _pdbx_validate_main_chain_plane.auth_asym_id _pdbx_validate_main_chain_plane.auth_seq_id _pdbx_validate_main_chain_plane.PDB_ins_code _pdbx_validate_main_chain_plane.label_alt_id _pdbx_validate_main_chain_plane.improper_torsion_angle 1 1 VAL A 333 ? ? 10.32 2 1 SER A 340 ? ? -12.91 3 1 ARG A 418 ? ? -15.29 4 1 ALA A 506 ? ? 26.66 5 1 ARG A 550 ? ? -10.78 # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 3B8K _em_3d_fitting.ref_protocol 'RIGID BODY FIT' _em_3d_fitting.ref_space REAL _em_3d_fitting.overall_b_value 30 _em_3d_fitting.target_criteria 'best fit using the program CHIMERA' _em_3d_fitting.details 'REFINEMENT PROTOCOL--rigid body' _em_3d_fitting.method ? # _em_3d_fitting_list.id 1 _em_3d_fitting_list.3d_fitting_id 1 _em_3d_fitting_list.pdb_entry_id 1EAA _em_3d_fitting_list.pdb_chain_id ? _em_3d_fitting_list.details 'Homology model based on PBD ID 1eaa' _em_3d_fitting_list.pdb_chain_residue_range ? _em_3d_fitting_list.initial_refinement_model_id 1 _em_3d_fitting_list.chain_id ? _em_3d_fitting_list.chain_residue_range ? _em_3d_fitting_list.source_name PDB _em_3d_fitting_list.type 'experimental model' _em_3d_fitting_list.accession_code 1EAA # _em_3d_reconstruction.entry_id 3B8K _em_3d_reconstruction.id 1 _em_3d_reconstruction.symmetry_type POINT _em_3d_reconstruction.num_particles 2432 _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.method 'cross-common lines' _em_3d_reconstruction.nominal_pixel_size 2.17 _em_3d_reconstruction.actual_pixel_size 2.17 _em_3d_reconstruction.resolution 8.8 _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.details ;Orientation determination and 3D reconstruction were performed using the IMIRS software package on multiprocessor MS Windows XP computer workstations. The orientations were first estimated from the particle images in the far-from-focus micrographs and refined to about 30- resolution. These orientation parameters were then further refined using the particles in the close-to-focus micrographs. ; _em_3d_reconstruction.resolution_method ? _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.algorithm ? # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name PBS _em_buffer.pH 7.2 _em_buffer.details PBS # _em_entity_assembly.id 1 _em_entity_assembly.name 'human tE2' _em_entity_assembly.type COMPLEX _em_entity_assembly.parent_id 0 _em_entity_assembly.synonym ? _em_entity_assembly.details ;Dodecahedron. Human tE2 was prepared from scE2, which contains a PreScission site in the third linker region. Treatment of scE2 with the PreScission protease (Amersham Biosciences) removed the N-terminal 319 amino acids. The resulting tE2 was purified by gel filtration with Sephacryl S-300HR. The assembly of the recombinant molecules into fully functional, pentagonal dodecahedral cores was confirmed by analytical ultracentrifugation ; _em_entity_assembly.oligomeric_details ? # _em_imaging.entry_id 3B8K _em_imaging.id 1 _em_imaging.mode 'BRIGHT FIELD' _em_imaging.date 2003-10-01 _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.specimen_id 1 _em_imaging.temperature 100 _em_imaging.microscope_model 'JEOL 2010F' _em_imaging.nominal_defocus_min 600 _em_imaging.nominal_defocus_max 2100 _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_cs 1.0 _em_imaging.nominal_magnification 69250 _em_imaging.calibrated_magnification 69250 _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.accelerating_voltage 200 _em_imaging.details ? _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model ? _em_imaging.citation_id ? _em_imaging.detector_distance ? _em_imaging.recording_temperature_maximum ? _em_imaging.recording_temperature_minimum ? _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? # _em_sample_support.id 1 _em_sample_support.specimen_id 1 _em_sample_support.details 'This grid plus sample was kept at -170 deg C during imaging' _em_sample_support.film_material ? _em_sample_support.grid_material ? _em_sample_support.grid_mesh_size ? _em_sample_support.grid_type ? _em_sample_support.method ? # _em_vitrification.entry_id 3B8K _em_vitrification.id 1 _em_vitrification.instrument 'HOMEMADE PLUNGER' _em_vitrification.cryogen_name ETHANE _em_vitrification.details 'flash freezing in liquid ethane' _em_vitrification.citation_id ? _em_vitrification.humidity ? _em_vitrification.method ? _em_vitrification.specimen_id 1 _em_vitrification.temp ? _em_vitrification.time_resolved_state ? # _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.entry_id 3B8K _em_experiment.id 1 _em_experiment.aggregation_state PARTICLE _em_experiment.entity_assembly_id 1 # _em_single_particle_entity.entry_id 3B8K _em_single_particle_entity.id 1 _em_single_particle_entity.point_symmetry I _em_single_particle_entity.image_processing_id 1 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ARG N N N N 14 ARG CA C N S 15 ARG C C N N 16 ARG O O N N 17 ARG CB C N N 18 ARG CG C N N 19 ARG CD C N N 20 ARG NE N N N 21 ARG CZ C N N 22 ARG NH1 N N N 23 ARG NH2 N N N 24 ARG OXT O N N 25 ARG H H N N 26 ARG H2 H N N 27 ARG HA H N N 28 ARG HB2 H N N 29 ARG HB3 H N N 30 ARG HG2 H N N 31 ARG HG3 H N N 32 ARG HD2 H N N 33 ARG HD3 H N N 34 ARG HE H N N 35 ARG HH11 H N N 36 ARG HH12 H N N 37 ARG HH21 H N N 38 ARG HH22 H N N 39 ARG HXT H N N 40 ASN N N N N 41 ASN CA C N S 42 ASN C C N N 43 ASN O O N N 44 ASN CB C N N 45 ASN CG C N N 46 ASN OD1 O N N 47 ASN ND2 N N N 48 ASN OXT O N N 49 ASN H H N N 50 ASN H2 H N N 51 ASN HA H N N 52 ASN HB2 H N N 53 ASN HB3 H N N 54 ASN HD21 H N N 55 ASN HD22 H N N 56 ASN HXT H N N 57 ASP N N N N 58 ASP CA C N S 59 ASP C C N N 60 ASP O O N N 61 ASP CB C N N 62 ASP CG C N N 63 ASP OD1 O N N 64 ASP OD2 O N N 65 ASP OXT O N N 66 ASP H H N N 67 ASP H2 H N N 68 ASP HA H N N 69 ASP HB2 H N N 70 ASP HB3 H N N 71 ASP HD2 H N N 72 ASP HXT H N N 73 CYS N N N N 74 CYS CA C N R 75 CYS C C N N 76 CYS O O N N 77 CYS CB C N N 78 CYS SG S N N 79 CYS OXT O N N 80 CYS H H N N 81 CYS H2 H N N 82 CYS HA H N N 83 CYS HB2 H N N 84 CYS HB3 H N N 85 CYS HG H N N 86 CYS HXT H N N 87 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_ctf_correction.id 1 _em_ctf_correction.details 'CTF correction of each image' _em_ctf_correction.type . # _em_image_processing.id 1 _em_image_processing.image_recording_id 1 _em_image_processing.details ? # _em_image_recording.details 4kx4k _em_image_recording.id 1 _em_image_recording.avg_electron_dose_per_image 12 _em_image_recording.film_or_detector_model 'GATAN ULTRASCAN 4000 (4k x 4k)' _em_image_recording.imaging_id 1 _em_image_recording.detector_mode ? _em_image_recording.average_exposure_time ? _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged ? _em_image_recording.num_real_images ? # loop_ _em_software.id _em_software.name _em_software.version _em_software.category _em_software.details _em_software.image_processing_id 1 'UCSF Chimera' ? 'MODEL FITTING' ? ? 2 IMIRS ? RECONSTRUCTION ? 1 # _em_specimen.experiment_id 1 _em_specimen.id 1 _em_specimen.concentration 0.2 _em_specimen.vitrification_applied YES _em_specimen.staining_applied NO _em_specimen.embedding_applied NO _em_specimen.shadowing_applied NO _em_specimen.details ? # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 1EAA # _atom_sites.entry_id 3B8K _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_