data_3JCI # _entry.id 3JCI # _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 RCSB RCSB160528 ? ? PDB 3JCI pdb_00003jci 10.2210/pdb3jci/pdb WWPDB D_1000160528 ? ? # 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 2016-02-03 2 'Structure model' 1 1 2016-02-17 3 'Structure model' 1 2 2018-07-18 4 'Structure model' 1 3 2019-12-18 5 'Structure model' 1 4 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' 'Database references' 2 3 'Structure model' 'Data collection' 3 4 'Structure model' Other 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' em_software 2 4 'Structure model' atom_sites 3 5 'Structure model' chem_comp_atom 4 5 'Structure model' chem_comp_bond 5 5 'Structure model' database_2 6 5 'Structure model' pdbx_struct_oper_list # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 3 'Structure model' '_em_software.image_processing_id' 2 3 'Structure model' '_em_software.name' 3 4 'Structure model' '_atom_sites.fract_transf_matrix[1][1]' 4 4 'Structure model' '_atom_sites.fract_transf_matrix[2][2]' 5 4 'Structure model' '_atom_sites.fract_transf_matrix[3][3]' 6 5 'Structure model' '_database_2.pdbx_DOI' 7 5 'Structure model' '_database_2.pdbx_database_accession' 8 5 'Structure model' '_pdbx_struct_oper_list.name' 9 5 'Structure model' '_pdbx_struct_oper_list.symmetry_operation' 10 5 'Structure model' '_pdbx_struct_oper_list.type' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3JCI _pdbx_database_status.recvd_initial_deposition_date 2015-12-13 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # _pdbx_database_related.db_name EMDB _pdbx_database_related.db_id EMD-6555 _pdbx_database_related.content_type 'associated EM volume' _pdbx_database_related.details . # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Liu, Z.' 1 'Guo, F.' 2 'Wang, F.' 3 'Li, T.C.' 4 'Jiang, W.' 5 # _citation.id primary _citation.title '2.9 angstrom Resolution Cryo-EM 3D Reconstruction of Close-Packed Virus Particles.' _citation.journal_abbrev Structure _citation.journal_volume 24 _citation.page_first 319 _citation.page_last 328 _citation.year 2016 _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 26777413 _citation.pdbx_database_id_DOI 10.1016/j.str.2015.12.006 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Liu, Z.' 1 ? primary 'Guo, F.' 2 ? primary 'Wang, F.' 3 ? primary 'Li, T.C.' 4 ? primary 'Jiang, W.' 5 ? # _entity.id 1 _entity.type polymer _entity.src_method nat _entity.pdbx_description 'Capsid protein' _entity.formula_weight 21999.758 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment 'UNP residues 42-231' _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;NGIFNTRLSRTFGYTVKATTVRTPSWAVDMMRFNINDFVPPGGGTNKISIPFEYYRIRKVKVEFWPCSPITQGDRGVGST AVILDDNFVTKATALTYDPYVNYSSRHTIPQPFSYHSRYFTPKPVLDSTIDYFQPNNKRNQLWLRLQTSANVDHVGLGTA FENSKYDQDYNIRVTMYVQFREFNLKDPPL ; _entity_poly.pdbx_seq_one_letter_code_can ;NGIFNTRLSRTFGYTVKATTVRTPSWAVDMMRFNINDFVPPGGGTNKISIPFEYYRIRKVKVEFWPCSPITQGDRGVGST AVILDDNFVTKATALTYDPYVNYSSRHTIPQPFSYHSRYFTPKPVLDSTIDYFQPNNKRNQLWLRLQTSANVDHVGLGTA FENSKYDQDYNIRVTMYVQFREFNLKDPPL ; _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 ASN n 1 2 GLY n 1 3 ILE n 1 4 PHE n 1 5 ASN n 1 6 THR n 1 7 ARG n 1 8 LEU n 1 9 SER n 1 10 ARG n 1 11 THR n 1 12 PHE n 1 13 GLY n 1 14 TYR n 1 15 THR n 1 16 VAL n 1 17 LYS n 1 18 ALA n 1 19 THR n 1 20 THR n 1 21 VAL n 1 22 ARG n 1 23 THR n 1 24 PRO n 1 25 SER n 1 26 TRP n 1 27 ALA n 1 28 VAL n 1 29 ASP n 1 30 MET n 1 31 MET n 1 32 ARG n 1 33 PHE n 1 34 ASN n 1 35 ILE n 1 36 ASN n 1 37 ASP n 1 38 PHE n 1 39 VAL n 1 40 PRO n 1 41 PRO n 1 42 GLY n 1 43 GLY n 1 44 GLY n 1 45 THR n 1 46 ASN n 1 47 LYS n 1 48 ILE n 1 49 SER n 1 50 ILE n 1 51 PRO n 1 52 PHE n 1 53 GLU n 1 54 TYR n 1 55 TYR n 1 56 ARG n 1 57 ILE n 1 58 ARG n 1 59 LYS n 1 60 VAL n 1 61 LYS n 1 62 VAL n 1 63 GLU n 1 64 PHE n 1 65 TRP n 1 66 PRO n 1 67 CYS n 1 68 SER n 1 69 PRO n 1 70 ILE n 1 71 THR n 1 72 GLN n 1 73 GLY n 1 74 ASP n 1 75 ARG n 1 76 GLY n 1 77 VAL n 1 78 GLY n 1 79 SER n 1 80 THR n 1 81 ALA n 1 82 VAL n 1 83 ILE n 1 84 LEU n 1 85 ASP n 1 86 ASP n 1 87 ASN n 1 88 PHE n 1 89 VAL n 1 90 THR n 1 91 LYS n 1 92 ALA n 1 93 THR n 1 94 ALA n 1 95 LEU n 1 96 THR n 1 97 TYR n 1 98 ASP n 1 99 PRO n 1 100 TYR n 1 101 VAL n 1 102 ASN n 1 103 TYR n 1 104 SER n 1 105 SER n 1 106 ARG n 1 107 HIS n 1 108 THR n 1 109 ILE n 1 110 PRO n 1 111 GLN n 1 112 PRO n 1 113 PHE n 1 114 SER n 1 115 TYR n 1 116 HIS n 1 117 SER n 1 118 ARG n 1 119 TYR n 1 120 PHE n 1 121 THR n 1 122 PRO n 1 123 LYS n 1 124 PRO n 1 125 VAL n 1 126 LEU n 1 127 ASP n 1 128 SER n 1 129 THR n 1 130 ILE n 1 131 ASP n 1 132 TYR n 1 133 PHE n 1 134 GLN n 1 135 PRO n 1 136 ASN n 1 137 ASN n 1 138 LYS n 1 139 ARG n 1 140 ASN n 1 141 GLN n 1 142 LEU n 1 143 TRP n 1 144 LEU n 1 145 ARG n 1 146 LEU n 1 147 GLN n 1 148 THR n 1 149 SER n 1 150 ALA n 1 151 ASN n 1 152 VAL n 1 153 ASP n 1 154 HIS n 1 155 VAL n 1 156 GLY n 1 157 LEU n 1 158 GLY n 1 159 THR n 1 160 ALA n 1 161 PHE n 1 162 GLU n 1 163 ASN n 1 164 SER n 1 165 LYS n 1 166 TYR n 1 167 ASP n 1 168 GLN n 1 169 ASP n 1 170 TYR n 1 171 ASN n 1 172 ILE n 1 173 ARG n 1 174 VAL n 1 175 THR n 1 176 MET n 1 177 TYR n 1 178 VAL n 1 179 GLN n 1 180 PHE n 1 181 ARG n 1 182 GLU n 1 183 PHE n 1 184 ASN n 1 185 LEU n 1 186 LYS n 1 187 ASP n 1 188 PRO n 1 189 PRO n 1 190 LEU n # _entity_src_nat.entity_id 1 _entity_src_nat.pdbx_src_id 1 _entity_src_nat.pdbx_alt_source_flag sample _entity_src_nat.pdbx_beg_seq_num ? _entity_src_nat.pdbx_end_seq_num ? _entity_src_nat.common_name PCV2 _entity_src_nat.pdbx_organism_scientific 'Porcine circovirus-2' _entity_src_nat.pdbx_ncbi_taxonomy_id 85708 _entity_src_nat.genus ? _entity_src_nat.species ? _entity_src_nat.strain ? _entity_src_nat.tissue ? _entity_src_nat.tissue_fraction ? _entity_src_nat.pdbx_secretion ? _entity_src_nat.pdbx_fragment ? _entity_src_nat.pdbx_variant ? _entity_src_nat.pdbx_cell_line ? _entity_src_nat.pdbx_atcc ? _entity_src_nat.pdbx_cellular_location ? _entity_src_nat.pdbx_organ ? _entity_src_nat.pdbx_organelle ? _entity_src_nat.pdbx_cell ? _entity_src_nat.pdbx_plasmid_name ? _entity_src_nat.pdbx_plasmid_details ? _entity_src_nat.details ? # 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 ASN 1 42 42 ASN ASN A . n A 1 2 GLY 2 43 43 GLY GLY A . n A 1 3 ILE 3 44 44 ILE ILE A . n A 1 4 PHE 4 45 45 PHE PHE A . n A 1 5 ASN 5 46 46 ASN ASN A . n A 1 6 THR 6 47 47 THR THR A . n A 1 7 ARG 7 48 48 ARG ARG A . n A 1 8 LEU 8 49 49 LEU LEU A . n A 1 9 SER 9 50 50 SER SER A . n A 1 10 ARG 10 51 51 ARG ARG A . n A 1 11 THR 11 52 52 THR THR A . n A 1 12 PHE 12 53 53 PHE PHE A . n A 1 13 GLY 13 54 54 GLY GLY A . n A 1 14 TYR 14 55 55 TYR TYR A . n A 1 15 THR 15 56 56 THR THR A . n A 1 16 VAL 16 57 57 VAL VAL A . n A 1 17 LYS 17 58 58 LYS LYS A . n A 1 18 ALA 18 59 59 ALA ALA A . n A 1 19 THR 19 60 60 THR THR A . n A 1 20 THR 20 61 61 THR THR A . n A 1 21 VAL 21 62 62 VAL VAL A . n A 1 22 ARG 22 63 63 ARG ARG A . n A 1 23 THR 23 64 64 THR THR A . n A 1 24 PRO 24 65 65 PRO PRO A . n A 1 25 SER 25 66 66 SER SER A . n A 1 26 TRP 26 67 67 TRP TRP A . n A 1 27 ALA 27 68 68 ALA ALA A . n A 1 28 VAL 28 69 69 VAL VAL A . n A 1 29 ASP 29 70 70 ASP ASP A . n A 1 30 MET 30 71 71 MET MET A . n A 1 31 MET 31 72 72 MET MET A . n A 1 32 ARG 32 73 73 ARG ARG A . n A 1 33 PHE 33 74 74 PHE PHE A . n A 1 34 ASN 34 75 75 ASN ASN A . n A 1 35 ILE 35 76 76 ILE ILE A . n A 1 36 ASN 36 77 77 ASN ASN A . n A 1 37 ASP 37 78 78 ASP ASP A . n A 1 38 PHE 38 79 79 PHE PHE A . n A 1 39 VAL 39 80 80 VAL VAL A . n A 1 40 PRO 40 81 81 PRO PRO A . n A 1 41 PRO 41 82 82 PRO PRO A . n A 1 42 GLY 42 83 83 GLY GLY A . n A 1 43 GLY 43 84 84 GLY GLY A . n A 1 44 GLY 44 85 85 GLY GLY A . n A 1 45 THR 45 86 86 THR THR A . n A 1 46 ASN 46 87 87 ASN ASN A . n A 1 47 LYS 47 88 88 LYS LYS A . n A 1 48 ILE 48 89 89 ILE ILE A . n A 1 49 SER 49 90 90 SER SER A . n A 1 50 ILE 50 91 91 ILE ILE A . n A 1 51 PRO 51 92 92 PRO PRO A . n A 1 52 PHE 52 93 93 PHE PHE A . n A 1 53 GLU 53 94 94 GLU GLU A . n A 1 54 TYR 54 95 95 TYR TYR A . n A 1 55 TYR 55 96 96 TYR TYR A . n A 1 56 ARG 56 97 97 ARG ARG A . n A 1 57 ILE 57 98 98 ILE ILE A . n A 1 58 ARG 58 99 99 ARG ARG A . n A 1 59 LYS 59 100 100 LYS LYS A . n A 1 60 VAL 60 101 101 VAL VAL A . n A 1 61 LYS 61 102 102 LYS LYS A . n A 1 62 VAL 62 103 103 VAL VAL A . n A 1 63 GLU 63 104 104 GLU GLU A . n A 1 64 PHE 64 105 105 PHE PHE A . n A 1 65 TRP 65 106 106 TRP TRP A . n A 1 66 PRO 66 107 107 PRO PRO A . n A 1 67 CYS 67 108 108 CYS CYS A . n A 1 68 SER 68 109 109 SER SER A . n A 1 69 PRO 69 110 110 PRO PRO A . n A 1 70 ILE 70 111 111 ILE ILE A . n A 1 71 THR 71 112 112 THR THR A . n A 1 72 GLN 72 113 113 GLN GLN A . n A 1 73 GLY 73 114 114 GLY GLY A . n A 1 74 ASP 74 115 115 ASP ASP A . n A 1 75 ARG 75 116 116 ARG ARG A . n A 1 76 GLY 76 117 117 GLY GLY A . n A 1 77 VAL 77 118 118 VAL VAL A . n A 1 78 GLY 78 119 119 GLY GLY A . n A 1 79 SER 79 120 120 SER SER A . n A 1 80 THR 80 121 121 THR THR A . n A 1 81 ALA 81 122 122 ALA ALA A . n A 1 82 VAL 82 123 123 VAL VAL A . n A 1 83 ILE 83 124 124 ILE ILE A . n A 1 84 LEU 84 125 125 LEU LEU A . n A 1 85 ASP 85 126 126 ASP ASP A . n A 1 86 ASP 86 127 127 ASP ASP A . n A 1 87 ASN 87 128 128 ASN ASN A . n A 1 88 PHE 88 129 129 PHE PHE A . n A 1 89 VAL 89 130 130 VAL VAL A . n A 1 90 THR 90 131 131 THR THR A . n A 1 91 LYS 91 132 132 LYS LYS A . n A 1 92 ALA 92 133 133 ALA ALA A . n A 1 93 THR 93 134 134 THR THR A . n A 1 94 ALA 94 135 135 ALA ALA A . n A 1 95 LEU 95 136 136 LEU LEU A . n A 1 96 THR 96 137 137 THR THR A . n A 1 97 TYR 97 138 138 TYR TYR A . n A 1 98 ASP 98 139 139 ASP ASP A . n A 1 99 PRO 99 140 140 PRO PRO A . n A 1 100 TYR 100 141 141 TYR TYR A . n A 1 101 VAL 101 142 142 VAL VAL A . n A 1 102 ASN 102 143 143 ASN ASN A . n A 1 103 TYR 103 144 144 TYR TYR A . n A 1 104 SER 104 145 145 SER SER A . n A 1 105 SER 105 146 146 SER SER A . n A 1 106 ARG 106 147 147 ARG ARG A . n A 1 107 HIS 107 148 148 HIS HIS A . n A 1 108 THR 108 149 149 THR THR A . n A 1 109 ILE 109 150 150 ILE ILE A . n A 1 110 PRO 110 151 151 PRO PRO A . n A 1 111 GLN 111 152 152 GLN GLN A . n A 1 112 PRO 112 153 153 PRO PRO A . n A 1 113 PHE 113 154 154 PHE PHE A . n A 1 114 SER 114 155 155 SER SER A . n A 1 115 TYR 115 156 156 TYR TYR A . n A 1 116 HIS 116 157 157 HIS HIS A . n A 1 117 SER 117 158 158 SER SER A . n A 1 118 ARG 118 159 159 ARG ARG A . n A 1 119 TYR 119 160 160 TYR TYR A . n A 1 120 PHE 120 161 161 PHE PHE A . n A 1 121 THR 121 162 162 THR THR A . n A 1 122 PRO 122 163 163 PRO PRO A . n A 1 123 LYS 123 164 164 LYS LYS A . n A 1 124 PRO 124 165 165 PRO PRO A . n A 1 125 VAL 125 166 166 VAL VAL A . n A 1 126 LEU 126 167 167 LEU LEU A . n A 1 127 ASP 127 168 168 ASP ASP A . n A 1 128 SER 128 169 169 SER SER A . n A 1 129 THR 129 170 170 THR THR A . n A 1 130 ILE 130 171 171 ILE ILE A . n A 1 131 ASP 131 172 172 ASP ASP A . n A 1 132 TYR 132 173 173 TYR TYR A . n A 1 133 PHE 133 174 174 PHE PHE A . n A 1 134 GLN 134 175 175 GLN GLN A . n A 1 135 PRO 135 176 176 PRO PRO A . n A 1 136 ASN 136 177 177 ASN ASN A . n A 1 137 ASN 137 178 178 ASN ASN A . n A 1 138 LYS 138 179 179 LYS LYS A . n A 1 139 ARG 139 180 180 ARG ARG A . n A 1 140 ASN 140 181 181 ASN ASN A . n A 1 141 GLN 141 182 182 GLN GLN A . n A 1 142 LEU 142 183 183 LEU LEU A . n A 1 143 TRP 143 184 184 TRP TRP A . n A 1 144 LEU 144 185 185 LEU LEU A . n A 1 145 ARG 145 186 186 ARG ARG A . n A 1 146 LEU 146 187 187 LEU LEU A . n A 1 147 GLN 147 188 188 GLN GLN A . n A 1 148 THR 148 189 189 THR THR A . n A 1 149 SER 149 190 190 SER SER A . n A 1 150 ALA 150 191 191 ALA ALA A . n A 1 151 ASN 151 192 192 ASN ASN A . n A 1 152 VAL 152 193 193 VAL VAL A . n A 1 153 ASP 153 194 194 ASP ASP A . n A 1 154 HIS 154 195 195 HIS HIS A . n A 1 155 VAL 155 196 196 VAL VAL A . n A 1 156 GLY 156 197 197 GLY GLY A . n A 1 157 LEU 157 198 198 LEU LEU A . n A 1 158 GLY 158 199 199 GLY GLY A . n A 1 159 THR 159 200 200 THR THR A . n A 1 160 ALA 160 201 201 ALA ALA A . n A 1 161 PHE 161 202 202 PHE PHE A . n A 1 162 GLU 162 203 203 GLU GLU A . n A 1 163 ASN 163 204 204 ASN ASN A . n A 1 164 SER 164 205 205 SER SER A . n A 1 165 LYS 165 206 206 LYS LYS A . n A 1 166 TYR 166 207 207 TYR TYR A . n A 1 167 ASP 167 208 208 ASP ASP A . n A 1 168 GLN 168 209 209 GLN GLN A . n A 1 169 ASP 169 210 210 ASP ASP A . n A 1 170 TYR 170 211 211 TYR TYR A . n A 1 171 ASN 171 212 212 ASN ASN A . n A 1 172 ILE 172 213 213 ILE ILE A . n A 1 173 ARG 173 214 214 ARG ARG A . n A 1 174 VAL 174 215 215 VAL VAL A . n A 1 175 THR 175 216 216 THR THR A . n A 1 176 MET 176 217 217 MET MET A . n A 1 177 TYR 177 218 218 TYR TYR A . n A 1 178 VAL 178 219 219 VAL VAL A . n A 1 179 GLN 179 220 220 GLN GLN A . n A 1 180 PHE 180 221 221 PHE PHE A . n A 1 181 ARG 181 222 222 ARG ARG A . n A 1 182 GLU 182 223 223 GLU GLU A . n A 1 183 PHE 183 224 224 PHE PHE A . n A 1 184 ASN 184 225 225 ASN ASN A . n A 1 185 LEU 185 226 226 LEU LEU A . n A 1 186 LYS 186 227 227 LYS LYS A . n A 1 187 ASP 187 228 228 ASP ASP A . n A 1 188 PRO 188 229 229 PRO PRO A . n A 1 189 PRO 189 230 230 PRO PRO A . n A 1 190 LEU 190 231 231 LEU LEU A . n # _cell.entry_id 3JCI _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3JCI _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? # _exptl.entry_id 3JCI _exptl.method 'ELECTRON MICROSCOPY' _exptl.crystals_number ? # _refine.entry_id 3JCI _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _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 23.6720 _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_Free ? _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.pdbx_overall_ESU_R ? _refine.B_iso_max 77.940 _refine.B_iso_min 10.280 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1557 _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 1557 _refine_hist.d_res_high . _refine_hist.d_res_low . # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'ELECTRON MICROSCOPY' f_bond_d 1604 0.010 ? ? ? 'ELECTRON MICROSCOPY' f_angle_d 2187 0.817 ? ? ? 'ELECTRON MICROSCOPY' f_chiral_restr 233 0.054 ? ? ? 'ELECTRON MICROSCOPY' f_plane_restr 285 0.006 ? ? ? 'ELECTRON MICROSCOPY' f_dihedral_angle_d 1291 17.151 ? ? ? # _database_PDB_matrix.entry_id 3JCI _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 3JCI _struct.title '2.9 Angstrom Resolution Cryo-EM 3-D Reconstruction of Close-packed PCV2 Virus-like Particles' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3JCI _struct_keywords.pdbx_keywords 'VIRUS LIKE PARTICLE' _struct_keywords.text 'de novo initial model, consensus criterion, gold-standard FSC, true FSC, cross-validation, VIRUS LIKE PARTICLE' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code B8Y5Y9_PCV2 _struct_ref.pdbx_db_accession B8Y5Y9 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;NGIFNTRLSRTFGYTVKATTVRTPSWAVDMMRFNINDFVPPGGGTNKISIPFEYYRIRKVKVEFWPCSPITQGDRGVGST AVILDDNFVTKATALTYDPYVNYSSRHTIPQPFSYHSRYFTPKPVLDSTIDYFQPNNKRNQLWLRLQTSANVDHVGLGTA FENSKYDQDYNIRVTMYVQFREFNLKDPPL ; _struct_ref.pdbx_align_begin 42 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3JCI _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 190 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession B8Y5Y9 _struct_ref_seq.db_align_beg 42 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 231 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 42 _struct_ref_seq.pdbx_auth_seq_align_end 231 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 'complete icosahedral assembly' ? 60-MERIC 60 2 'icosahedral asymmetric unit' ? monomeric 1 3 'icosahedral pentamer' ? pentameric 5 4 'icosahedral 23 hexamer' ? hexameric 6 5 'icosahedral asymmetric unit, std point frame' ? monomeric 1 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 '(1-60)' A 2 1 A 3 '(1-5)' A 4 '(1,2,6,10,23,24)' A 5 P A # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] P 'transform to point frame' ? ? 0.16245989 -0.50000000 0.85065080 0.00000 0.95105652 0.30901699 -0.00000005 0.00000 -0.26286553 0.80901699 0.52573112 0.00000 1 'identity operation' 1_555 x,y,z 1.00000000 0.00000000 0.00000000 0.00000 0.00000000 1.00000000 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 0.00000 2 'point symmetry operation' ? ? 0.36180341 -0.26286553 0.89442719 0.00000 0.58778525 0.80901700 -0.00000003 0.00000 -0.72360680 0.52573113 0.44721359 0.00000 3 'point symmetry operation' ? ? -0.67082037 0.16245989 0.72360681 0.00000 0.68819099 0.50000000 0.52573107 0.00000 -0.27639319 0.85065080 -0.44721362 0.00000 4 'point symmetry operation' ? ? -0.67082037 0.68819099 -0.27639319 0.00000 0.16245990 0.50000000 0.85065080 0.00000 0.72360681 0.52573108 -0.44721362 0.00000 5 'point symmetry operation' ? ? 0.36180341 0.58778525 -0.72360679 0.00000 -0.26286553 0.80901699 0.52573113 0.00000 0.89442720 -0.00000003 0.44721359 0.00000 6 'point symmetry operation' ? ? -0.86180343 -0.42532535 -0.27639317 0.00000 -0.42532537 0.30901700 0.85065083 0.00000 -0.27639318 0.85065083 -0.44721357 0.00000 7 'point symmetry operation' ? ? -0.36180341 -0.26286552 -0.89442719 0.00000 -0.58778525 0.80901700 0.00000002 0.00000 0.72360680 0.52573112 -0.44721359 0.00000 8 'point symmetry operation' ? ? 0.36180341 -0.58778524 -0.72360679 0.00000 0.26286554 0.80901700 -0.52573113 0.00000 0.89442720 0.00000003 0.44721358 0.00000 9 'point symmetry operation' ? ? 0.30901700 -0.95105651 0.00000004 0.00000 0.95105652 0.30901699 -0.00000005 0.00000 0.00000004 0.00000005 1.00000000 0.00000 10 'point symmetry operation' ? ? -0.44721362 -0.85065077 0.27639325 0.00000 0.52573116 0.00000000 0.85065079 0.00000 -0.72360676 0.52573115 0.44721362 0.00000 11 'point symmetry operation' ? ? 0.80901700 0.58778524 -0.00000010 0.00000 0.58778526 -0.80901700 -0.00000003 0.00000 -0.00000009 -0.00000003 -1.00000000 0.00000 12 'point symmetry operation' ? ? 0.63819667 0.26286552 0.72360674 0.00000 -0.26286553 -0.80901700 0.52573113 0.00000 0.72360675 -0.52573113 -0.44721366 0.00000 13 'point symmetry operation' ? ? -0.13819655 0.42532535 0.89442721 0.00000 -0.95105652 -0.30901700 0.00000005 0.00000 0.27639323 -0.85065083 0.44721354 0.00000 14 'point symmetry operation' ? ? -0.44721362 0.85065078 0.27639324 0.00000 -0.52573116 0.00000000 -0.85065078 0.00000 -0.72360676 -0.52573115 0.44721362 0.00000 15 'point symmetry operation' ? ? 0.13819654 0.95105651 -0.27639324 0.00000 0.42532536 -0.30901699 -0.85065083 0.00000 -0.89442722 -0.00000004 -0.44721354 0.00000 16 'point symmetry operation' ? ? -0.94721357 -0.16245989 0.27639327 0.00000 -0.16245989 -0.50000000 -0.85065080 0.00000 0.27639327 -0.85065080 0.44721357 0.00000 17 'point symmetry operation' ? ? -0.63819667 0.26286553 -0.72360674 0.00000 0.26286553 -0.80901700 -0.52573112 0.00000 -0.72360675 -0.52573112 0.44721367 0.00000 18 'point symmetry operation' ? ? 0.44721351 0.00000000 -0.89442723 0.00000 0.00000000 -1.00000000 0.00000000 0.00000 -0.89442724 0.00000000 -0.44721351 0.00000 19 'point symmetry operation' ? ? 0.80901699 -0.58778525 -0.00000009 0.00000 -0.58778526 -0.80901699 0.00000003 0.00000 -0.00000009 0.00000003 -1.00000000 0.00000 20 'point symmetry operation' ? ? -0.05278633 -0.68819098 0.72360677 0.00000 -0.68819099 -0.50000000 -0.52573108 0.00000 0.72360678 -0.52573108 -0.44721367 0.00000 21 'point symmetry operation' ? ? -0.13819654 -0.42532536 0.89442722 0.00000 0.95105653 -0.30901699 -0.00000005 0.00000 0.27639324 0.85065083 0.44721353 0.00000 22 'point symmetry operation' ? ? -0.94721357 0.16245989 0.27639327 0.00000 0.16245989 -0.50000000 0.85065081 0.00000 0.27639327 0.85065080 0.44721357 0.00000 23 'point symmetry operation' ? ? -0.44721362 0.52573115 -0.72360675 0.00000 -0.85065079 0.00000000 0.52573116 0.00000 0.27639325 0.85065078 0.44721361 0.00000 24 'point symmetry operation' ? ? 0.67082037 0.16245989 -0.72360681 0.00000 -0.68819099 0.50000001 -0.52573108 0.00000 0.27639319 0.85065080 0.44721361 0.00000 25 'point symmetry operation' ? ? 0.86180343 -0.42532536 0.27639318 0.00000 0.42532537 0.30901700 -0.85065083 0.00000 0.27639319 0.85065083 0.44721356 0.00000 26 'point symmetry operation' ? ? 0.05278633 0.68819098 -0.72360678 0.00000 -0.68819100 -0.50000000 -0.52573107 0.00000 -0.72360678 0.52573108 0.44721366 0.00000 27 'point symmetry operation' ? ? 0.94721357 0.16245989 -0.27639327 0.00000 -0.16245989 -0.49999999 -0.85065080 0.00000 -0.27639327 0.85065080 -0.44721357 0.00000 28 'point symmetry operation' ? ? 0.63819667 -0.26286553 0.72360674 0.00000 0.26286553 -0.80901699 -0.52573113 0.00000 0.72360675 0.52573112 -0.44721367 0.00000 29 'point symmetry operation' ? ? -0.44721351 0.00000000 0.89442723 0.00000 0.00000000 -1.00000000 0.00000000 0.00000 0.89442724 0.00000000 0.44721351 0.00000 30 'point symmetry operation' ? ? -0.80901700 0.58778525 0.00000009 0.00000 -0.58778526 -0.80901699 0.00000004 0.00000 0.00000009 -0.00000003 1.00000000 0.00000 31 'point symmetry operation' ? ? -0.36180340 0.26286553 -0.89442719 0.00000 0.58778526 0.80901699 -0.00000003 0.00000 0.72360680 -0.52573112 -0.44721359 0.00000 32 'point symmetry operation' ? ? 0.67082037 -0.16245989 -0.72360680 0.00000 0.68819099 0.49999999 0.52573108 0.00000 0.27639319 -0.85065080 0.44721362 0.00000 33 'point symmetry operation' ? ? 0.67082037 -0.68819098 0.27639320 0.00000 0.16245989 0.50000000 0.85065080 0.00000 -0.72360681 -0.52573107 0.44721362 0.00000 34 'point symmetry operation' ? ? -0.36180341 -0.58778525 0.72360679 0.00000 -0.26286554 0.80901699 0.52573112 0.00000 -0.89442720 0.00000003 -0.44721358 0.00000 35 'point symmetry operation' ? ? -1.00000000 0.00000000 0.00000000 0.00000 0.00000000 1.00000000 0.00000000 0.00000 0.00000000 0.00000000 -1.00000000 0.00000 36 'point symmetry operation' ? ? 0.44721361 -0.52573115 0.72360675 0.00000 -0.85065079 0.00000000 0.52573115 0.00000 -0.27639325 -0.85065078 -0.44721361 0.00000 37 'point symmetry operation' ? ? -0.67082037 -0.16245989 0.72360680 0.00000 -0.68819099 0.50000000 -0.52573108 0.00000 -0.27639320 -0.85065080 -0.44721361 0.00000 38 'point symmetry operation' ? ? -0.86180342 0.42532536 -0.27639318 0.00000 0.42532537 0.30901699 -0.85065084 0.00000 -0.27639318 -0.85065083 -0.44721357 0.00000 39 'point symmetry operation' ? ? 0.13819655 0.42532536 -0.89442722 0.00000 0.95105652 -0.30901700 -0.00000005 0.00000 -0.27639323 -0.85065083 -0.44721353 0.00000 40 'point symmetry operation' ? ? 0.94721357 -0.16245989 -0.27639327 0.00000 0.16245989 -0.50000001 0.85065080 0.00000 -0.27639327 -0.85065080 -0.44721356 0.00000 41 'point symmetry operation' ? ? -0.13819654 0.95105651 0.27639323 0.00000 -0.42532536 -0.30901700 0.85065084 0.00000 0.89442722 -0.00000005 0.44721354 0.00000 42 'point symmetry operation' ? ? 0.30901699 0.95105651 0.00000003 0.00000 -0.95105652 0.30901700 0.00000005 0.00000 0.00000003 -0.00000005 1.00000000 0.00000 43 'point symmetry operation' ? ? 0.67082037 0.68819098 0.27639318 0.00000 -0.16245990 0.50000000 -0.85065080 0.00000 -0.72360681 0.52573108 0.44721361 0.00000 44 'point symmetry operation' ? ? 0.44721362 0.52573115 0.72360674 0.00000 0.85065079 0.00000000 -0.52573116 0.00000 -0.27639325 0.85065078 -0.44721362 0.00000 45 'point symmetry operation' ? ? -0.05278633 0.68819098 0.72360677 0.00000 0.68819099 -0.50000000 0.52573108 0.00000 0.72360679 0.52573107 -0.44721367 0.00000 46 'point symmetry operation' ? ? -0.36180341 0.58778525 0.72360678 0.00000 0.26286553 0.80901699 -0.52573113 0.00000 -0.89442720 -0.00000002 -0.44721359 0.00000 47 'point symmetry operation' ? ? -0.30901699 0.95105651 -0.00000004 0.00000 0.95105653 0.30901699 -0.00000005 0.00000 -0.00000003 -0.00000004 -1.00000000 0.00000 48 'point symmetry operation' ? ? 0.44721362 0.85065077 -0.27639325 0.00000 0.52573116 0.00000000 0.85065078 0.00000 0.72360676 -0.52573115 -0.44721361 0.00000 49 'point symmetry operation' ? ? 0.86180343 0.42532535 0.27639318 0.00000 -0.42532537 0.30901699 0.85065083 0.00000 0.27639318 -0.85065083 0.44721357 0.00000 50 'point symmetry operation' ? ? 0.36180340 0.26286553 0.89442719 0.00000 -0.58778526 0.80901699 0.00000003 0.00000 -0.72360680 -0.52573112 0.44721359 0.00000 51 'point symmetry operation' ? ? 0.44721362 -0.85065078 -0.27639324 0.00000 -0.52573116 0.00000000 -0.85065079 0.00000 0.72360676 0.52573115 -0.44721362 0.00000 52 'point symmetry operation' ? ? -0.13819654 -0.95105651 0.27639323 0.00000 0.42532537 -0.30901699 -0.85065083 0.00000 0.89442723 0.00000004 0.44721353 0.00000 53 'point symmetry operation' ? ? -0.80901699 -0.58778525 0.00000010 0.00000 0.58778526 -0.80901700 -0.00000002 0.00000 0.00000009 0.00000002 1.00000000 0.00000 54 'point symmetry operation' ? ? -0.63819667 -0.26286553 -0.72360673 0.00000 -0.26286554 -0.80901699 0.52573113 0.00000 -0.72360675 0.52573112 0.44721367 0.00000 55 'point symmetry operation' ? ? 0.13819654 -0.42532536 -0.89442721 0.00000 -0.95105653 -0.30901699 0.00000005 0.00000 -0.27639323 0.85065083 -0.44721354 0.00000 56 'point symmetry operation' ? ? 0.05278633 -0.68819098 -0.72360677 0.00000 0.68819099 -0.50000000 0.52573108 0.00000 -0.72360678 -0.52573108 0.44721367 0.00000 57 'point symmetry operation' ? ? 0.13819654 -0.95105651 -0.27639322 0.00000 -0.42532537 -0.30901699 0.85065083 0.00000 -0.89442723 0.00000005 -0.44721353 0.00000 58 'point symmetry operation' ? ? -0.30901700 -0.95105651 -0.00000003 0.00000 -0.95105652 0.30901700 0.00000004 0.00000 -0.00000004 0.00000005 -1.00000000 0.00000 59 'point symmetry operation' ? ? -0.67082037 -0.68819098 -0.27639319 0.00000 -0.16245989 0.50000000 -0.85065081 0.00000 0.72360681 -0.52573108 -0.44721362 0.00000 60 'point symmetry operation' ? ? -0.44721362 -0.52573115 -0.72360675 0.00000 0.85065079 0.00000000 -0.52573115 0.00000 0.27639325 -0.85065078 0.44721362 0.00000 # _struct_biol.id 1 _struct_biol.details ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id GLN _struct_mon_prot_cis.label_seq_id 111 _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 GLN _struct_mon_prot_cis.auth_seq_id 152 _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_2 112 _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_2 153 _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 -15.36 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 4 ? B ? 4 ? C ? 5 ? D ? 4 ? # 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 A 2 3 ? anti-parallel A 3 4 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? anti-parallel B 3 4 ? anti-parallel C 1 2 ? anti-parallel C 2 3 ? anti-parallel C 3 4 ? anti-parallel C 4 5 ? anti-parallel D 1 2 ? anti-parallel D 2 3 ? anti-parallel D 3 4 ? 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 PHE A 4 ? VAL A 16 ? PHE A 45 VAL A 57 A 2 GLN A 168 ? PHE A 183 ? GLN A 209 PHE A 224 A 3 PHE A 52 ? PRO A 66 ? PHE A 93 PRO A 107 A 4 HIS A 116 ? PHE A 120 ? HIS A 157 PHE A 161 B 1 PHE A 4 ? VAL A 16 ? PHE A 45 VAL A 57 B 2 GLN A 168 ? PHE A 183 ? GLN A 209 PHE A 224 B 3 PHE A 52 ? PRO A 66 ? PHE A 93 PRO A 107 B 4 LEU A 144 ? ARG A 145 ? LEU A 185 ARG A 186 C 1 ALA A 92 ? LEU A 95 ? ALA A 133 LEU A 136 C 2 TRP A 26 ? ASN A 34 ? TRP A 67 ASN A 75 C 3 ASP A 153 ? GLU A 162 ? ASP A 194 GLU A 203 C 4 VAL A 77 ? VAL A 82 ? VAL A 118 VAL A 123 C 5 HIS A 107 ? PRO A 110 ? HIS A 148 PRO A 151 D 1 ALA A 92 ? LEU A 95 ? ALA A 133 LEU A 136 D 2 TRP A 26 ? ASN A 34 ? TRP A 67 ASN A 75 D 3 ASP A 153 ? GLU A 162 ? ASP A 194 GLU A 203 D 4 LYS A 123 ? PRO A 124 ? LYS A 164 PRO A 165 # 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 LEU A 8 ? N LEU A 49 O MET A 176 ? O MET A 217 A 2 3 O TYR A 177 ? O TYR A 218 N LYS A 59 ? N LYS A 100 A 3 4 N VAL A 60 ? N VAL A 101 O PHE A 120 ? O PHE A 161 B 1 2 N LEU A 8 ? N LEU A 49 O MET A 176 ? O MET A 217 B 2 3 O TYR A 177 ? O TYR A 218 N LYS A 59 ? N LYS A 100 B 3 4 N TYR A 55 ? N TYR A 96 O LEU A 144 ? O LEU A 185 C 1 2 O LEU A 95 ? O LEU A 136 N TRP A 26 ? N TRP A 67 C 2 3 N ALA A 27 ? N ALA A 68 O PHE A 161 ? O PHE A 202 C 3 4 O GLY A 158 ? O GLY A 199 N ALA A 81 ? N ALA A 122 C 4 5 N THR A 80 ? N THR A 121 O HIS A 107 ? O HIS A 148 D 1 2 O LEU A 95 ? O LEU A 136 N TRP A 26 ? N TRP A 67 D 2 3 N ALA A 27 ? N ALA A 68 O PHE A 161 ? O PHE A 202 D 3 4 O VAL A 155 ? O VAL A 196 N LYS A 123 ? N LYS A 164 # 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 ASP A 172 ? ? 53.69 72.79 2 1 THR A 189 ? ? -59.10 -76.31 3 1 GLU A 223 ? ? 64.58 79.79 4 1 PRO A 230 ? ? -68.48 -174.49 # _pdbx_validate_peptide_omega.id 1 _pdbx_validate_peptide_omega.PDB_model_num 1 _pdbx_validate_peptide_omega.auth_comp_id_1 GLY _pdbx_validate_peptide_omega.auth_asym_id_1 A _pdbx_validate_peptide_omega.auth_seq_id_1 197 _pdbx_validate_peptide_omega.PDB_ins_code_1 ? _pdbx_validate_peptide_omega.label_alt_id_1 ? _pdbx_validate_peptide_omega.auth_comp_id_2 LEU _pdbx_validate_peptide_omega.auth_asym_id_2 A _pdbx_validate_peptide_omega.auth_seq_id_2 198 _pdbx_validate_peptide_omega.PDB_ins_code_2 ? _pdbx_validate_peptide_omega.label_alt_id_2 ? _pdbx_validate_peptide_omega.omega -143.48 # _pdbx_point_symmetry.entry_id 3JCI _pdbx_point_symmetry.Schoenflies_symbol I _pdbx_point_symmetry.circular_symmetry ? _pdbx_point_symmetry.H-M_notation ? # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 3JCI _em_3d_fitting.ref_protocol ? _em_3d_fitting.ref_space ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.target_criteria ? _em_3d_fitting.details ? _em_3d_fitting.method ? # _em_3d_reconstruction.entry_id 3JCI _em_3d_reconstruction.id 1 _em_3d_reconstruction.resolution_method 'FSC 0.143 CUT-OFF' _em_3d_reconstruction.symmetry_type POINT _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.method 'Projection matching' _em_3d_reconstruction.nominal_pixel_size 1.1 _em_3d_reconstruction.actual_pixel_size 1.08 _em_3d_reconstruction.resolution 2.9 _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.details ;For 3D reconstruction, whole datasets were divided into even and odd halves and the initial de novo models and subsequent iterative refinements were all independently performed for each half dataset. Particles were selected from scanned micrograph images using e2boxer.py in EMAN2. The TEM instrument contrast transfer function parameters were determined automatically using fitctf2.py in JSPR and were then visually validated using the EMAN ctfit program. The datasets were then divided into two subsets (even and odd) and processed completely independently, including both de novo initial models and refinements. The images were first binned 4x to obtain initial models and particle parameters assuming icosahedral symmetry. De novo initial models were built using the random model approach. Random subsets of particles were assigned random initial orientations and iteratively refined until convergence. Multi-model competitive refinements were used to choose the winning model (with most assigned particles) as corrective initial models for subsequent refinement. Particles with inconsistent/unstable view parameters in the initial refinements were excluded in further image processing. The orientation and center parameters were then transferred to the un-binned images for high-resolution refinements which included Simplex method-based orientation/center optimization and grid search-based refinement of defocus, astigmatism, beam tilt, and overall and anisotropic magnification of the images. All image refinement and reconstructions were performed with JSPR software that was built on EMAN2 and EMAN library functions and programs. (Single particle details: The particles were selected using the e2boxer.py program in EMAN2. CTF parameters were determined using fitctf2.py in JSPR.) (Single particle--Applied symmetry: I) ; _em_3d_reconstruction.num_particles 50352 _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 7.4 _em_buffer.details PBS # loop_ _em_entity_assembly.id _em_entity_assembly.name _em_entity_assembly.type _em_entity_assembly.parent_id _em_entity_assembly.synonym _em_entity_assembly.details _em_entity_assembly.oligomeric_details 1 'Porcine circovirus PCV2 virus-like particles' VIRUS 0 ? ? ? 2 'Porcine circovirus 2 (PCV2)' VIRUS 1 ? ? ? # _em_image_scans.entry_id 3JCI _em_image_scans.id 1 _em_image_scans.image_recording_id 1 _em_image_scans.number_digital_images 141 _em_image_scans.citation_id ? _em_image_scans.od_range ? _em_image_scans.quant_bit_size ? _em_image_scans.sampling_size ? _em_image_scans.scanner_model ? _em_image_scans.details ? # _em_imaging.entry_id 3JCI _em_imaging.id 1 _em_imaging.specimen_id 1 _em_imaging.date 2011-02-22 _em_imaging.temperature 90 _em_imaging.microscope_model 'FEI TITAN KRIOS' _em_imaging.nominal_defocus_min 200 _em_imaging.nominal_defocus_max 2500 _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_cs 2.7 _em_imaging.mode 'BRIGHT FIELD' _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.nominal_magnification 59000 _em_imaging.calibrated_magnification 587963 _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.accelerating_voltage 300 _em_imaging.details ? _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model 'FEI TITAN KRIOS AUTOGRID HOLDER' _em_imaging.recording_temperature_minimum 80 _em_imaging.recording_temperature_maximum 100 _em_imaging.detector_distance ? _em_imaging.electron_beam_tilt_params ? _em_imaging.astigmatism 'Objective lens astigmatism was corrected at 250,000 magnification using quadrupole stigmator.' _em_imaging.citation_id ? # _em_sample_support.id 1 _em_sample_support.specimen_id 1 _em_sample_support.details '400-mesh holey carbon grids (1.2/1.3 C-flat, Protochips)' _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_virus_entity.id 1 _em_virus_entity.virus_host_category VERTEBRATES _em_virus_entity.entity_assembly_id 1 _em_virus_entity.virus_type 'VIRUS-LIKE PARTICLE' _em_virus_entity.virus_isolate STRAIN _em_virus_entity.empty YES _em_virus_entity.enveloped NO _em_virus_entity.details ? # _em_vitrification.entry_id 3JCI _em_vitrification.id 1 _em_vitrification.details 'Blot for 5 seconds before plunging into liquid ethane (GATAN CRYOPLUNGE 3).' _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity 90 _em_vitrification.temp 85 _em_vitrification.instrument 'GATAN CRYOPLUNGE 3' _em_vitrification.method 'Blot for 5 seconds before plunging' _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.specimen_id 1 # _em_experiment.entry_id 3JCI _em_experiment.id 1 _em_experiment.aggregation_state PARTICLE _em_experiment.entity_assembly_id 1 _em_experiment.reconstruction_method 'SINGLE PARTICLE' # _em_single_particle_entity.entry_id 3JCI _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 'Each particle' _em_ctf_correction.type . # _em_entity_assembly_molwt.entity_assembly_id 1 _em_entity_assembly_molwt.id 1 _em_entity_assembly_molwt.experimental_flag NO _em_entity_assembly_molwt.value 1.67 _em_entity_assembly_molwt.units MEGADALTONS # _em_image_processing.id 1 _em_image_processing.image_recording_id 1 _em_image_processing.details ? # _em_image_recording.avg_electron_dose_per_image 25 _em_image_recording.details ? _em_image_recording.id 1 _em_image_recording.film_or_detector_model 'KODAK SO-163 FILM' _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 EMAN 2 RECONSTRUCTION ? 1 2 jspr ? RECONSTRUCTION ? 1 # _em_specimen.experiment_id 1 _em_specimen.id 1 _em_specimen.concentration 3 _em_specimen.vitrification_applied YES _em_specimen.staining_applied NO _em_specimen.embedding_applied NO _em_specimen.shadowing_applied NO _em_specimen.details ? # _em_virus_natural_host.entity_assembly_id 1 _em_virus_natural_host.id 1 _em_virus_natural_host.ncbi_tax_id 9823 _em_virus_natural_host.organism 'Sus scrofa' _em_virus_natural_host.strain ? # _atom_sites.entry_id 3JCI _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_