data_8UKM # _entry.id 8UKM # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _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 8UKM pdb_00008ukm 10.2210/pdb8ukm/pdb WWPDB D_1000278172 ? ? EMDB EMD-42355 ? ? # 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 2024-03-06 2 'Structure model' 1 1 2024-04-03 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Database references' # _pdbx_audit_revision_category.ordinal 1 _pdbx_audit_revision_category.revision_ordinal 2 _pdbx_audit_revision_category.data_content_type 'Structure model' _pdbx_audit_revision_category.category citation # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_ASTM' 4 2 'Structure model' '_citation.journal_id_CSD' 5 2 'Structure model' '_citation.journal_id_ISSN' 6 2 'Structure model' '_citation.pdbx_database_id_DOI' 7 2 'Structure model' '_citation.pdbx_database_id_PubMed' 8 2 'Structure model' '_citation.title' 9 2 'Structure model' '_citation.year' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8UKM _pdbx_database_status.recvd_initial_deposition_date 2023-10-14 _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 'T33-ml30 - Designed Tetrahedral Protein Cage Using Machine Learning Algorithms' _pdbx_database_related.db_id EMD-42355 _pdbx_database_related.content_type 'associated EM volume' # _pdbx_contact_author.id 4 _pdbx_contact_author.email yeates@mbi.ucla.edu _pdbx_contact_author.name_first Todd _pdbx_contact_author.name_last Yeates _pdbx_contact_author.name_mi O. _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0001-5709-9839 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Castells-Graells, R.' 1 0000-0002-3985-6194 'Meador, K.' 2 0000-0001-5049-027X 'Sawaya, M.R.' 3 0000-0003-0874-9043 'Yeates, T.O.' 4 0000-0001-5709-9839 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Structure _citation.journal_id_ASTM STRUE6 _citation.journal_id_CSD 2005 _citation.journal_id_ISSN 0969-2126 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'A suite of designed protein cages using machine learning and protein fragment-based protocols.' _citation.year 2024 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1016/j.str.2024.02.017 _citation.pdbx_database_id_PubMed 38513658 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Meador, K.' 1 ? primary 'Castells-Graells, R.' 2 ? primary 'Aguirre, R.' 3 ? primary 'Sawaya, M.R.' 4 ? primary 'Arbing, M.A.' 5 ? primary 'Sherman, T.' 6 ? primary 'Senarathne, C.' 7 ? primary 'Yeates, T.O.' 8 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man T33-ml30-redesigned-tandem-BMC-T-fold 20604.244 1 ? ? ? ? 2 polymer man T33-ml30-redesigned-4-OT-fold 14245.450 1 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no no ;MGPDEPERPALLILELKSYARGVRVADAALKAAPVRLLKCKIVEPGKALIMLTGRPEDVEKAYKAALTVANKGSGNLIDS VFIPAIHPALLPFLLEETPAPPLEDPDRALLFVEVKTVAAAIRAADAALRAAPVELVRMRLSEHIGGKAVFALVGDPADV LRAAAVVAEVAGDQLLDIAIIPRPHPALLGREFF ; ;MGPDEPERPALLILELKSYARGVRVADAALKAAPVRLLKCKIVEPGKALIMLTGRPEDVEKAYKAALTVANKGSGNLIDS VFIPAIHPALLPFLLEETPAPPLEDPDRALLFVEVKTVAAAIRAADAALRAAPVELVRMRLSEHIGGKAVFALVGDPADV LRAAAVVAEVAGDQLLDIAIIPRPHPALLGREFF ; A ? 2 'polypeptide(L)' no no ;MPMLVVYVPEGYSEAQKRALLFRLAAAVVEATGTPLENVRIILTTYAPADVLLGGAIGVPLVVILVYLLEGLSPEQKAAL VKALTAAAAEALGVDPENIRVILVPVPPENFGVGNGKTAAEAGGSHHWGGHHHHHH ; ;MPMLVVYVPEGYSEAQKRALLFRLAAAVVEATGTPLENVRIILTTYAPADVLLGGAIGVPLVVILVYLLEGLSPEQKAAL VKALTAAAAEALGVDPENIRVILVPVPPENFGVGNGKTAAEAGGSHHWGGHHHHHH ; B ? # 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 GLY n 1 3 PRO n 1 4 ASP n 1 5 GLU n 1 6 PRO n 1 7 GLU n 1 8 ARG n 1 9 PRO n 1 10 ALA n 1 11 LEU n 1 12 LEU n 1 13 ILE n 1 14 LEU n 1 15 GLU n 1 16 LEU n 1 17 LYS n 1 18 SER n 1 19 TYR n 1 20 ALA n 1 21 ARG n 1 22 GLY n 1 23 VAL n 1 24 ARG n 1 25 VAL n 1 26 ALA n 1 27 ASP n 1 28 ALA n 1 29 ALA n 1 30 LEU n 1 31 LYS n 1 32 ALA n 1 33 ALA n 1 34 PRO n 1 35 VAL n 1 36 ARG n 1 37 LEU n 1 38 LEU n 1 39 LYS n 1 40 CYS n 1 41 LYS n 1 42 ILE n 1 43 VAL n 1 44 GLU n 1 45 PRO n 1 46 GLY n 1 47 LYS n 1 48 ALA n 1 49 LEU n 1 50 ILE n 1 51 MET n 1 52 LEU n 1 53 THR n 1 54 GLY n 1 55 ARG n 1 56 PRO n 1 57 GLU n 1 58 ASP n 1 59 VAL n 1 60 GLU n 1 61 LYS n 1 62 ALA n 1 63 TYR n 1 64 LYS n 1 65 ALA n 1 66 ALA n 1 67 LEU n 1 68 THR n 1 69 VAL n 1 70 ALA n 1 71 ASN n 1 72 LYS n 1 73 GLY n 1 74 SER n 1 75 GLY n 1 76 ASN n 1 77 LEU n 1 78 ILE n 1 79 ASP n 1 80 SER n 1 81 VAL n 1 82 PHE n 1 83 ILE n 1 84 PRO n 1 85 ALA n 1 86 ILE n 1 87 HIS n 1 88 PRO n 1 89 ALA n 1 90 LEU n 1 91 LEU n 1 92 PRO n 1 93 PHE n 1 94 LEU n 1 95 LEU n 1 96 GLU n 1 97 GLU n 1 98 THR n 1 99 PRO n 1 100 ALA n 1 101 PRO n 1 102 PRO n 1 103 LEU n 1 104 GLU n 1 105 ASP n 1 106 PRO n 1 107 ASP n 1 108 ARG n 1 109 ALA n 1 110 LEU n 1 111 LEU n 1 112 PHE n 1 113 VAL n 1 114 GLU n 1 115 VAL n 1 116 LYS n 1 117 THR n 1 118 VAL n 1 119 ALA n 1 120 ALA n 1 121 ALA n 1 122 ILE n 1 123 ARG n 1 124 ALA n 1 125 ALA n 1 126 ASP n 1 127 ALA n 1 128 ALA n 1 129 LEU n 1 130 ARG n 1 131 ALA n 1 132 ALA n 1 133 PRO n 1 134 VAL n 1 135 GLU n 1 136 LEU n 1 137 VAL n 1 138 ARG n 1 139 MET n 1 140 ARG n 1 141 LEU n 1 142 SER n 1 143 GLU n 1 144 HIS n 1 145 ILE n 1 146 GLY n 1 147 GLY n 1 148 LYS n 1 149 ALA n 1 150 VAL n 1 151 PHE n 1 152 ALA n 1 153 LEU n 1 154 VAL n 1 155 GLY n 1 156 ASP n 1 157 PRO n 1 158 ALA n 1 159 ASP n 1 160 VAL n 1 161 LEU n 1 162 ARG n 1 163 ALA n 1 164 ALA n 1 165 ALA n 1 166 VAL n 1 167 VAL n 1 168 ALA n 1 169 GLU n 1 170 VAL n 1 171 ALA n 1 172 GLY n 1 173 ASP n 1 174 GLN n 1 175 LEU n 1 176 LEU n 1 177 ASP n 1 178 ILE n 1 179 ALA n 1 180 ILE n 1 181 ILE n 1 182 PRO n 1 183 ARG n 1 184 PRO n 1 185 HIS n 1 186 PRO n 1 187 ALA n 1 188 LEU n 1 189 LEU n 1 190 GLY n 1 191 ARG n 1 192 GLU n 1 193 PHE n 1 194 PHE n 2 1 MET n 2 2 PRO n 2 3 MET n 2 4 LEU n 2 5 VAL n 2 6 VAL n 2 7 TYR n 2 8 VAL n 2 9 PRO n 2 10 GLU n 2 11 GLY n 2 12 TYR n 2 13 SER n 2 14 GLU n 2 15 ALA n 2 16 GLN n 2 17 LYS n 2 18 ARG n 2 19 ALA n 2 20 LEU n 2 21 LEU n 2 22 PHE n 2 23 ARG n 2 24 LEU n 2 25 ALA n 2 26 ALA n 2 27 ALA n 2 28 VAL n 2 29 VAL n 2 30 GLU n 2 31 ALA n 2 32 THR n 2 33 GLY n 2 34 THR n 2 35 PRO n 2 36 LEU n 2 37 GLU n 2 38 ASN n 2 39 VAL n 2 40 ARG n 2 41 ILE n 2 42 ILE n 2 43 LEU n 2 44 THR n 2 45 THR n 2 46 TYR n 2 47 ALA n 2 48 PRO n 2 49 ALA n 2 50 ASP n 2 51 VAL n 2 52 LEU n 2 53 LEU n 2 54 GLY n 2 55 GLY n 2 56 ALA n 2 57 ILE n 2 58 GLY n 2 59 VAL n 2 60 PRO n 2 61 LEU n 2 62 VAL n 2 63 VAL n 2 64 ILE n 2 65 LEU n 2 66 VAL n 2 67 TYR n 2 68 LEU n 2 69 LEU n 2 70 GLU n 2 71 GLY n 2 72 LEU n 2 73 SER n 2 74 PRO n 2 75 GLU n 2 76 GLN n 2 77 LYS n 2 78 ALA n 2 79 ALA n 2 80 LEU n 2 81 VAL n 2 82 LYS n 2 83 ALA n 2 84 LEU n 2 85 THR n 2 86 ALA n 2 87 ALA n 2 88 ALA n 2 89 ALA n 2 90 GLU n 2 91 ALA n 2 92 LEU n 2 93 GLY n 2 94 VAL n 2 95 ASP n 2 96 PRO n 2 97 GLU n 2 98 ASN n 2 99 ILE n 2 100 ARG n 2 101 VAL n 2 102 ILE n 2 103 LEU n 2 104 VAL n 2 105 PRO n 2 106 VAL n 2 107 PRO n 2 108 PRO n 2 109 GLU n 2 110 ASN n 2 111 PHE n 2 112 GLY n 2 113 VAL n 2 114 GLY n 2 115 ASN n 2 116 GLY n 2 117 LYS n 2 118 THR n 2 119 ALA n 2 120 ALA n 2 121 GLU n 2 122 ALA n 2 123 GLY n 2 124 GLY n 2 125 SER n 2 126 HIS n 2 127 HIS n 2 128 TRP n 2 129 GLY n 2 130 GLY n 2 131 HIS n 2 132 HIS n 2 133 HIS n 2 134 HIS n 2 135 HIS n 2 136 HIS n # loop_ _entity_src_gen.entity_id _entity_src_gen.pdbx_src_id _entity_src_gen.pdbx_alt_source_flag _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 _entity_src_gen.gene_src_genus _entity_src_gen.pdbx_gene_src_gene _entity_src_gen.gene_src_species _entity_src_gen.gene_src_strain _entity_src_gen.gene_src_tissue _entity_src_gen.gene_src_tissue_fraction _entity_src_gen.gene_src_details _entity_src_gen.pdbx_gene_src_fragment _entity_src_gen.pdbx_gene_src_scientific_name _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id _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 _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id _entity_src_gen.host_org_genus _entity_src_gen.pdbx_host_org_gene _entity_src_gen.pdbx_host_org_organ _entity_src_gen.host_org_species _entity_src_gen.pdbx_host_org_tissue _entity_src_gen.pdbx_host_org_tissue_fraction _entity_src_gen.pdbx_host_org_strain _entity_src_gen.pdbx_host_org_variant _entity_src_gen.pdbx_host_org_cell_line _entity_src_gen.pdbx_host_org_atcc _entity_src_gen.pdbx_host_org_culture_collection _entity_src_gen.pdbx_host_org_cell _entity_src_gen.pdbx_host_org_organelle _entity_src_gen.pdbx_host_org_cellular_location _entity_src_gen.pdbx_host_org_vector_type _entity_src_gen.pdbx_host_org_vector _entity_src_gen.host_org_details _entity_src_gen.expression_system_id _entity_src_gen.plasmid_name _entity_src_gen.plasmid_details _entity_src_gen.pdbx_description 1 1 sample 'Biological sequence' 1 194 ? ? ? ? ? ? ? ? ? 'synthetic construct' 32630 ? ? ? ? ? ? ? ? 'Escherichia coli BL21(DE3)' 469008 ? ? ? ? ? ? LOBSTR ? ? ? ? ? ? ? plasmid ? ? ? pSAM ? ? 2 1 sample 'Biological sequence' 1 136 ? ? ? ? ? ? ? ? ? 'synthetic construct' 32630 ? ? ? ? ? ? ? ? 'Escherichia coli BL21(DE3)' 469008 ? ? ? ? ? ? LOBSTR ? ? ? ? ? ? ? plasmid ? ? ? pSAM ? ? # 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 12 ? ? ? A . n A 1 2 GLY 2 13 ? ? ? A . n A 1 3 PRO 3 14 ? ? ? A . n A 1 4 ASP 4 15 ? ? ? A . n A 1 5 GLU 5 16 ? ? ? A . n A 1 6 PRO 6 17 ? ? ? A . n A 1 7 GLU 7 18 ? ? ? A . n A 1 8 ARG 8 19 19 ARG ARG A . n A 1 9 PRO 9 20 20 PRO PRO A . n A 1 10 ALA 10 21 21 ALA ALA A . n A 1 11 LEU 11 22 22 LEU LEU A . n A 1 12 LEU 12 23 23 LEU LEU A . n A 1 13 ILE 13 24 24 ILE ILE A . n A 1 14 LEU 14 25 25 LEU LEU A . n A 1 15 GLU 15 26 26 GLU GLU A . n A 1 16 LEU 16 27 27 LEU LEU A . n A 1 17 LYS 17 28 28 LYS LYS A . n A 1 18 SER 18 29 29 SER SER A . n A 1 19 TYR 19 30 30 TYR TYR A . n A 1 20 ALA 20 31 31 ALA ALA A . n A 1 21 ARG 21 32 32 ARG ARG A . n A 1 22 GLY 22 33 33 GLY GLY A . n A 1 23 VAL 23 34 34 VAL VAL A . n A 1 24 ARG 24 35 35 ARG ARG A . n A 1 25 VAL 25 36 36 VAL VAL A . n A 1 26 ALA 26 37 37 ALA ALA A . n A 1 27 ASP 27 38 38 ASP ASP A . n A 1 28 ALA 28 39 39 ALA ALA A . n A 1 29 ALA 29 40 40 ALA ALA A . n A 1 30 LEU 30 41 41 LEU LEU A . n A 1 31 LYS 31 42 42 LYS LYS A . n A 1 32 ALA 32 43 43 ALA ALA A . n A 1 33 ALA 33 44 44 ALA ALA A . n A 1 34 PRO 34 45 45 PRO PRO A . n A 1 35 VAL 35 46 46 VAL VAL A . n A 1 36 ARG 36 47 47 ARG ARG A . n A 1 37 LEU 37 48 48 LEU LEU A . n A 1 38 LEU 38 49 49 LEU LEU A . n A 1 39 LYS 39 50 50 LYS LYS A . n A 1 40 CYS 40 51 51 CYS CYS A . n A 1 41 LYS 41 52 52 LYS LYS A . n A 1 42 ILE 42 53 53 ILE ILE A . n A 1 43 VAL 43 54 54 VAL VAL A . n A 1 44 GLU 44 55 55 GLU GLU A . n A 1 45 PRO 45 56 56 PRO PRO A . n A 1 46 GLY 46 57 57 GLY GLY A . n A 1 47 LYS 47 58 58 LYS LYS A . n A 1 48 ALA 48 59 59 ALA ALA A . n A 1 49 LEU 49 60 60 LEU LEU A . n A 1 50 ILE 50 61 61 ILE ILE A . n A 1 51 MET 51 62 62 MET MET A . n A 1 52 LEU 52 63 63 LEU LEU A . n A 1 53 THR 53 64 64 THR THR A . n A 1 54 GLY 54 65 65 GLY GLY A . n A 1 55 ARG 55 66 66 ARG ARG A . n A 1 56 PRO 56 67 67 PRO PRO A . n A 1 57 GLU 57 68 68 GLU GLU A . n A 1 58 ASP 58 69 69 ASP ASP A . n A 1 59 VAL 59 70 70 VAL VAL A . n A 1 60 GLU 60 71 71 GLU GLU A . n A 1 61 LYS 61 72 72 LYS LYS A . n A 1 62 ALA 62 73 73 ALA ALA A . n A 1 63 TYR 63 74 74 TYR TYR A . n A 1 64 LYS 64 75 75 LYS LYS A . n A 1 65 ALA 65 76 76 ALA ALA A . n A 1 66 ALA 66 77 77 ALA ALA A . n A 1 67 LEU 67 78 78 LEU LEU A . n A 1 68 THR 68 79 79 THR THR A . n A 1 69 VAL 69 80 80 VAL VAL A . n A 1 70 ALA 70 81 81 ALA ALA A . n A 1 71 ASN 71 82 82 ASN ASN A . n A 1 72 LYS 72 83 83 LYS LYS A . n A 1 73 GLY 73 84 84 GLY GLY A . n A 1 74 SER 74 85 85 SER SER A . n A 1 75 GLY 75 86 86 GLY GLY A . n A 1 76 ASN 76 87 87 ASN ASN A . n A 1 77 LEU 77 88 88 LEU LEU A . n A 1 78 ILE 78 89 89 ILE ILE A . n A 1 79 ASP 79 90 90 ASP ASP A . n A 1 80 SER 80 91 91 SER SER A . n A 1 81 VAL 81 92 92 VAL VAL A . n A 1 82 PHE 82 93 93 PHE PHE A . n A 1 83 ILE 83 94 94 ILE ILE A . n A 1 84 PRO 84 95 95 PRO PRO A . n A 1 85 ALA 85 96 96 ALA ALA A . n A 1 86 ILE 86 97 97 ILE ILE A . n A 1 87 HIS 87 98 98 HIS HIS A . n A 1 88 PRO 88 99 99 PRO PRO A . n A 1 89 ALA 89 100 100 ALA ALA A . n A 1 90 LEU 90 101 101 LEU LEU A . n A 1 91 LEU 91 102 102 LEU LEU A . n A 1 92 PRO 92 103 103 PRO PRO A . n A 1 93 PHE 93 104 104 PHE PHE A . n A 1 94 LEU 94 105 105 LEU LEU A . n A 1 95 LEU 95 106 106 LEU LEU A . n A 1 96 GLU 96 107 107 GLU GLU A . n A 1 97 GLU 97 108 108 GLU GLU A . n A 1 98 THR 98 109 109 THR THR A . n A 1 99 PRO 99 110 110 PRO PRO A . n A 1 100 ALA 100 111 111 ALA ALA A . n A 1 101 PRO 101 112 112 PRO PRO A . n A 1 102 PRO 102 113 113 PRO PRO A . n A 1 103 LEU 103 114 114 LEU LEU A . n A 1 104 GLU 104 115 115 GLU GLU A . n A 1 105 ASP 105 116 116 ASP ASP A . n A 1 106 PRO 106 117 117 PRO PRO A . n A 1 107 ASP 107 118 118 ASP ASP A . n A 1 108 ARG 108 119 119 ARG ARG A . n A 1 109 ALA 109 120 120 ALA ALA A . n A 1 110 LEU 110 121 121 LEU LEU A . n A 1 111 LEU 111 122 122 LEU LEU A . n A 1 112 PHE 112 123 123 PHE PHE A . n A 1 113 VAL 113 124 124 VAL VAL A . n A 1 114 GLU 114 125 125 GLU GLU A . n A 1 115 VAL 115 126 126 VAL VAL A . n A 1 116 LYS 116 127 127 LYS LYS A . n A 1 117 THR 117 128 128 THR THR A . n A 1 118 VAL 118 129 129 VAL VAL A . n A 1 119 ALA 119 130 130 ALA ALA A . n A 1 120 ALA 120 131 131 ALA ALA A . n A 1 121 ALA 121 132 132 ALA ALA A . n A 1 122 ILE 122 133 133 ILE ILE A . n A 1 123 ARG 123 134 134 ARG ARG A . n A 1 124 ALA 124 135 135 ALA ALA A . n A 1 125 ALA 125 136 136 ALA ALA A . n A 1 126 ASP 126 137 137 ASP ASP A . n A 1 127 ALA 127 138 138 ALA ALA A . n A 1 128 ALA 128 139 139 ALA ALA A . n A 1 129 LEU 129 140 140 LEU LEU A . n A 1 130 ARG 130 141 141 ARG ARG A . n A 1 131 ALA 131 142 142 ALA ALA A . n A 1 132 ALA 132 143 143 ALA ALA A . n A 1 133 PRO 133 144 144 PRO PRO A . n A 1 134 VAL 134 145 145 VAL VAL A . n A 1 135 GLU 135 146 146 GLU GLU A . n A 1 136 LEU 136 147 147 LEU LEU A . n A 1 137 VAL 137 148 148 VAL VAL A . n A 1 138 ARG 138 149 149 ARG ARG A . n A 1 139 MET 139 150 150 MET MET A . n A 1 140 ARG 140 151 151 ARG ARG A . n A 1 141 LEU 141 152 152 LEU LEU A . n A 1 142 SER 142 153 153 SER SER A . n A 1 143 GLU 143 154 154 GLU GLU A . n A 1 144 HIS 144 155 155 HIS HIS A . n A 1 145 ILE 145 156 156 ILE ILE A . n A 1 146 GLY 146 157 157 GLY GLY A . n A 1 147 GLY 147 158 158 GLY GLY A . n A 1 148 LYS 148 159 159 LYS LYS A . n A 1 149 ALA 149 160 160 ALA ALA A . n A 1 150 VAL 150 161 161 VAL VAL A . n A 1 151 PHE 151 162 162 PHE PHE A . n A 1 152 ALA 152 163 163 ALA ALA A . n A 1 153 LEU 153 164 164 LEU LEU A . n A 1 154 VAL 154 165 165 VAL VAL A . n A 1 155 GLY 155 166 166 GLY GLY A . n A 1 156 ASP 156 167 167 ASP ASP A . n A 1 157 PRO 157 168 168 PRO PRO A . n A 1 158 ALA 158 169 169 ALA ALA A . n A 1 159 ASP 159 170 170 ASP ASP A . n A 1 160 VAL 160 171 171 VAL VAL A . n A 1 161 LEU 161 172 172 LEU LEU A . n A 1 162 ARG 162 173 173 ARG ARG A . n A 1 163 ALA 163 174 174 ALA ALA A . n A 1 164 ALA 164 175 175 ALA ALA A . n A 1 165 ALA 165 176 176 ALA ALA A . n A 1 166 VAL 166 177 177 VAL VAL A . n A 1 167 VAL 167 178 178 VAL VAL A . n A 1 168 ALA 168 179 179 ALA ALA A . n A 1 169 GLU 169 180 180 GLU GLU A . n A 1 170 VAL 170 181 181 VAL VAL A . n A 1 171 ALA 171 182 182 ALA ALA A . n A 1 172 GLY 172 183 183 GLY GLY A . n A 1 173 ASP 173 184 184 ASP ASP A . n A 1 174 GLN 174 185 185 GLN GLN A . n A 1 175 LEU 175 186 186 LEU LEU A . n A 1 176 LEU 176 187 187 LEU LEU A . n A 1 177 ASP 177 188 188 ASP ASP A . n A 1 178 ILE 178 189 189 ILE ILE A . n A 1 179 ALA 179 190 190 ALA ALA A . n A 1 180 ILE 180 191 191 ILE ILE A . n A 1 181 ILE 181 192 192 ILE ILE A . n A 1 182 PRO 182 193 193 PRO PRO A . n A 1 183 ARG 183 194 194 ARG ARG A . n A 1 184 PRO 184 195 195 PRO PRO A . n A 1 185 HIS 185 196 196 HIS HIS A . n A 1 186 PRO 186 197 197 PRO PRO A . n A 1 187 ALA 187 198 198 ALA ALA A . n A 1 188 LEU 188 199 199 LEU LEU A . n A 1 189 LEU 189 200 200 LEU LEU A . n A 1 190 GLY 190 201 201 GLY GLY A . n A 1 191 ARG 191 202 202 ARG ARG A . n A 1 192 GLU 192 203 203 GLU GLU A . n A 1 193 PHE 193 204 ? ? ? A . n A 1 194 PHE 194 205 ? ? ? A . n B 2 1 MET 1 1 ? ? ? B . n B 2 2 PRO 2 2 ? ? ? B . n B 2 3 MET 3 3 3 MET MET B . n B 2 4 LEU 4 4 4 LEU LEU B . n B 2 5 VAL 5 5 5 VAL VAL B . n B 2 6 VAL 6 6 6 VAL VAL B . n B 2 7 TYR 7 7 7 TYR TYR B . n B 2 8 VAL 8 8 8 VAL VAL B . n B 2 9 PRO 9 9 9 PRO PRO B . n B 2 10 GLU 10 10 10 GLU GLU B . n B 2 11 GLY 11 11 11 GLY GLY B . n B 2 12 TYR 12 12 12 TYR TYR B . n B 2 13 SER 13 13 13 SER SER B . n B 2 14 GLU 14 14 14 GLU GLU B . n B 2 15 ALA 15 15 15 ALA ALA B . n B 2 16 GLN 16 16 16 GLN GLN B . n B 2 17 LYS 17 17 17 LYS LYS B . n B 2 18 ARG 18 18 18 ARG ARG B . n B 2 19 ALA 19 19 19 ALA ALA B . n B 2 20 LEU 20 20 20 LEU LEU B . n B 2 21 LEU 21 21 21 LEU LEU B . n B 2 22 PHE 22 22 22 PHE PHE B . n B 2 23 ARG 23 23 23 ARG ARG B . n B 2 24 LEU 24 24 24 LEU LEU B . n B 2 25 ALA 25 25 25 ALA ALA B . n B 2 26 ALA 26 26 26 ALA ALA B . n B 2 27 ALA 27 27 27 ALA ALA B . n B 2 28 VAL 28 28 28 VAL VAL B . n B 2 29 VAL 29 29 29 VAL VAL B . n B 2 30 GLU 30 30 30 GLU GLU B . n B 2 31 ALA 31 31 31 ALA ALA B . n B 2 32 THR 32 32 32 THR THR B . n B 2 33 GLY 33 33 33 GLY GLY B . n B 2 34 THR 34 34 34 THR THR B . n B 2 35 PRO 35 35 35 PRO PRO B . n B 2 36 LEU 36 36 36 LEU LEU B . n B 2 37 GLU 37 37 37 GLU GLU B . n B 2 38 ASN 38 38 38 ASN ASN B . n B 2 39 VAL 39 39 39 VAL VAL B . n B 2 40 ARG 40 40 40 ARG ARG B . n B 2 41 ILE 41 41 41 ILE ILE B . n B 2 42 ILE 42 42 42 ILE ILE B . n B 2 43 LEU 43 43 43 LEU LEU B . n B 2 44 THR 44 44 44 THR THR B . n B 2 45 THR 45 45 45 THR THR B . n B 2 46 TYR 46 46 46 TYR TYR B . n B 2 47 ALA 47 47 47 ALA ALA B . n B 2 48 PRO 48 48 48 PRO PRO B . n B 2 49 ALA 49 49 49 ALA ALA B . n B 2 50 ASP 50 50 50 ASP ASP B . n B 2 51 VAL 51 51 51 VAL VAL B . n B 2 52 LEU 52 52 52 LEU LEU B . n B 2 53 LEU 53 53 53 LEU LEU B . n B 2 54 GLY 54 54 54 GLY GLY B . n B 2 55 GLY 55 55 55 GLY GLY B . n B 2 56 ALA 56 56 56 ALA ALA B . n B 2 57 ILE 57 57 57 ILE ILE B . n B 2 58 GLY 58 58 58 GLY GLY B . n B 2 59 VAL 59 59 59 VAL VAL B . n B 2 60 PRO 60 60 60 PRO PRO B . n B 2 61 LEU 61 61 61 LEU LEU B . n B 2 62 VAL 62 62 62 VAL VAL B . n B 2 63 VAL 63 63 63 VAL VAL B . n B 2 64 ILE 64 64 64 ILE ILE B . n B 2 65 LEU 65 65 65 LEU LEU B . n B 2 66 VAL 66 66 66 VAL VAL B . n B 2 67 TYR 67 67 67 TYR TYR B . n B 2 68 LEU 68 68 68 LEU LEU B . n B 2 69 LEU 69 69 69 LEU LEU B . n B 2 70 GLU 70 70 70 GLU GLU B . n B 2 71 GLY 71 71 71 GLY GLY B . n B 2 72 LEU 72 72 72 LEU LEU B . n B 2 73 SER 73 73 73 SER SER B . n B 2 74 PRO 74 74 74 PRO PRO B . n B 2 75 GLU 75 75 75 GLU GLU B . n B 2 76 GLN 76 76 76 GLN GLN B . n B 2 77 LYS 77 77 77 LYS LYS B . n B 2 78 ALA 78 78 78 ALA ALA B . n B 2 79 ALA 79 79 79 ALA ALA B . n B 2 80 LEU 80 80 80 LEU LEU B . n B 2 81 VAL 81 81 81 VAL VAL B . n B 2 82 LYS 82 82 82 LYS LYS B . n B 2 83 ALA 83 83 83 ALA ALA B . n B 2 84 LEU 84 84 84 LEU LEU B . n B 2 85 THR 85 85 85 THR THR B . n B 2 86 ALA 86 86 86 ALA ALA B . n B 2 87 ALA 87 87 87 ALA ALA B . n B 2 88 ALA 88 88 88 ALA ALA B . n B 2 89 ALA 89 89 89 ALA ALA B . n B 2 90 GLU 90 90 90 GLU GLU B . n B 2 91 ALA 91 91 91 ALA ALA B . n B 2 92 LEU 92 92 92 LEU LEU B . n B 2 93 GLY 93 93 93 GLY GLY B . n B 2 94 VAL 94 94 94 VAL VAL B . n B 2 95 ASP 95 95 95 ASP ASP B . n B 2 96 PRO 96 96 96 PRO PRO B . n B 2 97 GLU 97 97 97 GLU GLU B . n B 2 98 ASN 98 98 98 ASN ASN B . n B 2 99 ILE 99 99 99 ILE ILE B . n B 2 100 ARG 100 100 100 ARG ARG B . n B 2 101 VAL 101 101 101 VAL VAL B . n B 2 102 ILE 102 102 102 ILE ILE B . n B 2 103 LEU 103 103 103 LEU LEU B . n B 2 104 VAL 104 104 104 VAL VAL B . n B 2 105 PRO 105 105 105 PRO PRO B . n B 2 106 VAL 106 106 106 VAL VAL B . n B 2 107 PRO 107 107 107 PRO PRO B . n B 2 108 PRO 108 108 108 PRO PRO B . n B 2 109 GLU 109 109 109 GLU GLU B . n B 2 110 ASN 110 110 110 ASN ASN B . n B 2 111 PHE 111 111 111 PHE PHE B . n B 2 112 GLY 112 112 ? ? ? B . n B 2 113 VAL 113 113 ? ? ? B . n B 2 114 GLY 114 114 ? ? ? B . n B 2 115 ASN 115 115 ? ? ? B . n B 2 116 GLY 116 116 ? ? ? B . n B 2 117 LYS 117 117 ? ? ? B . n B 2 118 THR 118 118 ? ? ? B . n B 2 119 ALA 119 119 ? ? ? B . n B 2 120 ALA 120 120 ? ? ? B . n B 2 121 GLU 121 121 ? ? ? B . n B 2 122 ALA 122 122 ? ? ? B . n B 2 123 GLY 123 123 ? ? ? B . n B 2 124 GLY 124 124 ? ? ? B . n B 2 125 SER 125 125 ? ? ? B . n B 2 126 HIS 126 126 ? ? ? B . n B 2 127 HIS 127 127 ? ? ? B . n B 2 128 TRP 128 128 ? ? ? B . n B 2 129 GLY 129 129 ? ? ? B . n B 2 130 GLY 130 130 ? ? ? B . n B 2 131 HIS 131 131 ? ? ? B . n B 2 132 HIS 132 132 ? ? ? B . n B 2 133 HIS 133 133 ? ? ? B . n B 2 134 HIS 134 134 ? ? ? B . n B 2 135 HIS 135 135 ? ? ? B . n B 2 136 HIS 136 136 ? ? ? B . 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 8UKM _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 8UKM _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 8UKM _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.entry_id 8UKM _refine.pdbx_diffrn_id ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low ? _refine.ls_d_res_high . _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'ELECTRON MICROSCOPY' ? 0.004 ? 27564 ? f_bond_d ? ? 'ELECTRON MICROSCOPY' ? 0.747 ? 37668 ? f_angle_d ? ? 'ELECTRON MICROSCOPY' ? 6.482 ? 3948 ? f_dihedral_angle_d ? ? 'ELECTRON MICROSCOPY' ? 0.050 ? 4704 ? f_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.007 ? 4872 ? f_plane_restr ? ? # _struct.entry_id 8UKM _struct.title 'T33-ml30 - Designed Tetrahedral Protein Cage Using Machine Learning Algorithms' _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 8UKM _struct_keywords.text ;Nanohedra, protein cage, tetrahedral, de novo protein interface, machine learning, two components, ProteinMPNN, nanoparticle, DE NOVO PROTEIN ; _struct_keywords.pdbx_keywords 'DE NOVO PROTEIN' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 8UKM 8UKM ? 1 ? 1 2 PDB 8UKM 8UKM ? 2 ? 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 8UKM A 1 ? 194 ? 8UKM 12 ? 205 ? 12 205 2 2 8UKM B 1 ? 136 ? 8UKM 1 ? 136 ? 1 136 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 24-meric _pdbx_struct_assembly.oligomeric_count 24 # _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 _pdbx_struct_assembly_gen.asym_id_list A,B # _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' ? ? -0.500005 -0.866033 -0.0 286.290540 0.866033 -0.500004 0.0 76.710517 -0.0 -0.0 0.999999 0.000113 3 'point symmetry operation' ? ? -0.500005 0.866033 -0.0 76.710561 -0.866033 -0.500004 0.0 286.290496 0.0 -0.0 0.999999 0.000113 4 'point symmetry operation' ? ? -0.0 0.577355 -0.816500 149.936497 0.577355 -0.666672 -0.471406 188.847508 -0.816500 -0.471406 -0.333333 317.169945 5 'point symmetry operation' ? ? 0.500005 -0.288678 -0.816500 194.225936 -0.866033 -0.166668 -0.471406 302.996985 0.0 0.942813 -0.333333 47.252977 6 'point symmetry operation' ? ? -0.500005 -0.288678 -0.816500 315.227037 0.288678 0.833340 -0.471406 42.275985 0.816500 -0.471406 -0.333333 119.576965 7 'point symmetry operation' ? ? 0.0 -0.577355 0.816500 92.063503 -0.577355 -0.666672 -0.471406 328.567495 0.816500 -0.471406 -0.333333 119.576965 8 'point symmetry operation' ? ? -0.500005 0.288678 0.816500 47.774064 -0.288678 0.833340 -0.471406 112.135978 -0.816500 -0.471406 -0.333333 317.169945 9 'point symmetry operation' ? ? 0.500005 0.288678 0.816500 -73.227037 0.866033 -0.166668 -0.471406 93.417005 -0.0 0.942813 -0.333333 47.252977 10 'point symmetry operation' ? ? -1.000009 0.0 0.0 242.001102 0.0 0.333336 0.942813 -33.413990 0.0 0.942813 -0.333333 47.252977 11 'point symmetry operation' ? ? 0.500005 0.866033 0.0 -44.290540 0.288678 -0.166668 0.942813 -7.843480 0.816500 -0.471406 -0.333333 119.576965 12 'point symmetry operation' ? ? 0.500005 -0.866033 0.0 165.289439 -0.288678 -0.166668 0.942813 62.016514 -0.816500 -0.471406 -0.333333 317.169945 # 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 SER A 18 ? ALA A 33 ? SER A 29 ALA A 44 1 ? 16 HELX_P HELX_P2 AA2 ARG A 55 ? ASN A 71 ? ARG A 66 ASN A 82 1 ? 17 HELX_P HELX_P3 AA3 ALA A 89 ? GLU A 96 ? ALA A 100 GLU A 107 1 ? 8 HELX_P HELX_P4 AA4 THR A 117 ? ALA A 132 ? THR A 128 ALA A 143 1 ? 16 HELX_P HELX_P5 AA5 ASP A 156 ? GLY A 172 ? ASP A 167 GLY A 183 1 ? 17 HELX_P HELX_P6 AA6 SER B 13 ? GLY B 33 ? SER B 13 GLY B 33 1 ? 21 HELX_P HELX_P7 AA7 PRO B 35 ? VAL B 39 ? PRO B 35 VAL B 39 5 ? 5 HELX_P HELX_P8 AA8 ALA B 47 ? ASP B 50 ? ALA B 47 ASP B 50 5 ? 4 HELX_P HELX_P9 AA9 SER B 73 ? GLY B 93 ? SER B 73 GLY B 93 1 ? 21 HELX_P HELX_P10 AB1 ASP B 95 ? GLU B 97 ? ASP B 95 GLU B 97 5 ? 3 # _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 GLU _struct_mon_prot_cis.label_seq_id 44 _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 GLU _struct_mon_prot_cis.auth_seq_id 55 _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 45 _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 56 _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 0.44 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 4 ? AA2 ? 4 ? AA3 ? 4 ? AA4 ? 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 AA2 3 4 ? anti-parallel AA3 1 2 ? parallel AA3 2 3 ? anti-parallel AA3 3 4 ? parallel AA4 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 ARG A 36 ? VAL A 43 ? ARG A 47 VAL A 54 AA1 2 LYS A 47 ? THR A 53 ? LYS A 58 THR A 64 AA1 3 LEU A 11 ? LEU A 16 ? LEU A 22 LEU A 27 AA1 4 LEU A 77 ? ILE A 83 ? LEU A 88 ILE A 94 AA2 1 GLU A 135 ? LEU A 141 ? GLU A 146 LEU A 152 AA2 2 ALA A 149 ? GLY A 155 ? ALA A 160 GLY A 166 AA2 3 ALA A 109 ? VAL A 115 ? ALA A 120 VAL A 126 AA2 4 LEU A 175 ? ILE A 181 ? LEU A 186 ILE A 192 AA3 1 ILE B 42 ? TYR B 46 ? ILE B 42 TYR B 46 AA3 2 LEU B 4 ? PRO B 9 ? LEU B 4 PRO B 9 AA3 3 VAL B 62 ? LEU B 69 ? VAL B 62 LEU B 69 AA3 4 ILE B 99 ? VAL B 106 ? ILE B 99 VAL B 106 AA4 1 LEU B 52 ? LEU B 53 ? LEU B 52 LEU B 53 AA4 2 ALA B 56 ? ILE B 57 ? ALA B 56 ILE B 57 # 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 LYS A 41 ? N LYS A 52 O LEU A 49 ? O LEU A 60 AA1 2 3 O ALA A 48 ? O ALA A 59 N LEU A 16 ? N LEU A 27 AA1 3 4 N LEU A 11 ? N LEU A 22 O ILE A 83 ? O ILE A 94 AA2 1 2 N ARG A 138 ? N ARG A 149 O ALA A 152 ? O ALA A 163 AA2 2 3 O LEU A 153 ? O LEU A 164 N LEU A 111 ? N LEU A 122 AA2 3 4 N GLU A 114 ? N GLU A 125 O LEU A 176 ? O LEU A 187 AA3 1 2 O THR B 44 ? O THR B 44 N VAL B 6 ? N VAL B 6 AA3 2 3 N VAL B 5 ? N VAL B 5 O LEU B 65 ? O LEU B 65 AA3 3 4 N ILE B 64 ? N ILE B 64 O ARG B 100 ? O ARG B 100 AA4 1 2 N LEU B 53 ? N LEU B 53 O ALA B 56 ? O ALA B 56 # 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 45 ? ? -84.97 47.35 2 1 PRO A 56 ? ? -94.35 45.97 3 1 VAL A 148 ? ? -123.68 -62.99 4 1 SER A 153 ? ? 55.61 15.61 5 1 GLU B 70 ? ? -68.52 -178.12 # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 8UKM _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 'FLEXIBLE FIT' # _em_3d_reconstruction.entry_id 8UKM _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 4.2 _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 7114 _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 8 # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.source RECOMBINANT _em_entity_assembly.type COMPLEX _em_entity_assembly.name 'T33-ml30 Designed Tetrahedral Protein Cage Using Machine Learning' _em_entity_assembly.details ? _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list '1, 2' # _em_imaging.entry_id 8UKM _em_imaging.id 1 _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.residual_tilt ? _em_imaging.microscope_model 'FEI TITAN KRIOS' _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model 'FEI TITAN KRIOS AUTOGRID HOLDER' _em_imaging.details ? _em_imaging.date ? _em_imaging.accelerating_voltage 300 _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs 2.7 _em_imaging.nominal_defocus_min 500 _em_imaging.nominal_defocus_max 2500 _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_defocus_max ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_magnification ? _em_imaging.calibrated_magnification ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.citation_id ? _em_imaging.temperature ? _em_imaging.detector_distance ? _em_imaging.recording_temperature_minimum ? _em_imaging.recording_temperature_maximum ? _em_imaging.alignment_procedure ? _em_imaging.c2_aperture_diameter ? _em_imaging.specimen_id 1 _em_imaging.cryogen NITROGEN # _em_sample_support.id 1 _em_sample_support.film_material ? _em_sample_support.method ? _em_sample_support.grid_material COPPER _em_sample_support.grid_mesh_size 300 _em_sample_support.grid_type 'Quantifoil R2/1' _em_sample_support.details ? _em_sample_support.specimen_id 1 _em_sample_support.citation_id ? # _em_vitrification.entry_id 8UKM _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity ? _em_vitrification.temp ? _em_vitrification.chamber_temperature ? _em_vitrification.instrument ? _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.details ? # _em_experiment.entry_id 8UKM _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 8UKM _em_single_particle_entity.id 1 _em_single_particle_entity.image_processing_id 1 _em_single_particle_entity.point_symmetry T # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A MET 12 ? A MET 1 2 1 Y 1 A GLY 13 ? A GLY 2 3 1 Y 1 A PRO 14 ? A PRO 3 4 1 Y 1 A ASP 15 ? A ASP 4 5 1 Y 1 A GLU 16 ? A GLU 5 6 1 Y 1 A PRO 17 ? A PRO 6 7 1 Y 1 A GLU 18 ? A GLU 7 8 1 Y 1 A PHE 204 ? A PHE 193 9 1 Y 1 A PHE 205 ? A PHE 194 10 1 Y 1 B MET 1 ? B MET 1 11 1 Y 1 B PRO 2 ? B PRO 2 12 1 Y 1 B GLY 112 ? B GLY 112 13 1 Y 1 B VAL 113 ? B VAL 113 14 1 Y 1 B GLY 114 ? B GLY 114 15 1 Y 1 B ASN 115 ? B ASN 115 16 1 Y 1 B GLY 116 ? B GLY 116 17 1 Y 1 B LYS 117 ? B LYS 117 18 1 Y 1 B THR 118 ? B THR 118 19 1 Y 1 B ALA 119 ? B ALA 119 20 1 Y 1 B ALA 120 ? B ALA 120 21 1 Y 1 B GLU 121 ? B GLU 121 22 1 Y 1 B ALA 122 ? B ALA 122 23 1 Y 1 B GLY 123 ? B GLY 123 24 1 Y 1 B GLY 124 ? B GLY 124 25 1 Y 1 B SER 125 ? B SER 125 26 1 Y 1 B HIS 126 ? B HIS 126 27 1 Y 1 B HIS 127 ? B HIS 127 28 1 Y 1 B TRP 128 ? B TRP 128 29 1 Y 1 B GLY 129 ? B GLY 129 30 1 Y 1 B GLY 130 ? B GLY 130 31 1 Y 1 B HIS 131 ? B HIS 131 32 1 Y 1 B HIS 132 ? B HIS 132 33 1 Y 1 B HIS 133 ? B HIS 133 34 1 Y 1 B HIS 134 ? B HIS 134 35 1 Y 1 B HIS 135 ? B HIS 135 36 1 Y 1 B HIS 136 ? B HIS 136 # 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.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 0.4 # _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 32630 _em_entity_assembly_naturalsource.organism 'synthetic construct' _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? _em_entity_assembly_naturalsource.details ? # _em_entity_assembly_recombinant.cell ? _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.ncbi_tax_id 469008 _em_entity_assembly_recombinant.organism 'Escherichia coli BL21(DE3)' _em_entity_assembly_recombinant.plasmid ? _em_entity_assembly_recombinant.strain LOBSTR # _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 47.5 _em_image_recording.details ? _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'GATAN K3 BIOQUANTUM (6k x 4k)' _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged ? _em_image_recording.num_real_images ? # loop_ _em_software.category _em_software.details _em_software.id _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id _em_software.name _em_software.version 'PARTICLE SELECTION' ? 1 1 ? ? ? ? 'IMAGE ACQUISITION' ? 2 ? ? 1 ? ? MASKING ? 3 ? ? ? ? ? 'CTF CORRECTION' ? 4 1 ? ? ? ? 'LAYERLINE INDEXING' ? 5 ? ? ? ? ? 'DIFFRACTION INDEXING' ? 6 ? ? ? ? ? 'MODEL FITTING' ? 7 ? 1 ? ? ? OTHER ? 8 ? ? ? ? ? 'INITIAL EULER ASSIGNMENT' ? 9 1 ? ? ? ? 'FINAL EULER ASSIGNMENT' ? 10 1 ? ? ? ? CLASSIFICATION ? 11 1 ? ? ? ? RECONSTRUCTION ? 12 1 ? ? cryoSPARC ? 'MODEL REFINEMENT' ? 13 ? 1 ? PHENIX ? '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 ? _em_specimen.details ? _em_specimen.embedding_applied NO _em_specimen.experiment_id 1 _em_specimen.id 1 _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied YES # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)' 'United States' GM129854 1 'Department of Energy (DOE, United States)' 'United States' DE-FC02-02ER63421 2 # _atom_sites.entry_id 8UKM _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_