data_3J06 # _entry.id 3J06 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 3J06 pdb_00003j06 10.2210/pdb3j06/pdb RCSB RCSB160084 ? ? WWPDB D_1000160084 ? ? # 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 2011-06-01 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2012-11-21 4 'Structure model' 1 3 2018-07-18 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' 'Version format compliance' 2 3 'Structure model' 'Refinement description' 3 4 'Structure model' 'Author supporting evidence' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Database references' 6 5 'Structure model' 'Data collection' 7 5 'Structure model' 'Database references' 8 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 4 'Structure model' em_single_particle_entity 2 4 'Structure model' em_software 3 4 'Structure model' struct_ref_seq 4 5 'Structure model' chem_comp_atom 5 5 'Structure model' chem_comp_bond 6 5 'Structure model' database_2 7 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 4 'Structure model' '_em_software.image_processing_id' 2 4 'Structure model' '_struct_ref_seq.db_align_beg' 3 4 'Structure model' '_struct_ref_seq.db_align_end' 4 5 'Structure model' '_database_2.pdbx_DOI' 5 5 'Structure model' '_database_2.pdbx_database_accession' 6 5 'Structure model' '_pdbx_struct_oper_list.name' 7 5 'Structure model' '_pdbx_struct_oper_list.symmetry_operation' 8 5 'Structure model' '_pdbx_struct_oper_list.type' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3J06 _pdbx_database_status.recvd_initial_deposition_date 2011-04-26 _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-5185 _pdbx_database_related.content_type 'associated EM volume' _pdbx_database_related.details . # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Ge, P.' 1 'Zhou, Z.H.' 2 # _citation.id primary _citation.title 'Hydrogen-bonding networks and RNA bases revealed by cryo electron microscopy suggest a triggering mechanism for calcium switches.' _citation.journal_abbrev Proc.Natl.Acad.Sci.USA _citation.journal_volume 108 _citation.page_first 9637 _citation.page_last 9642 _citation.year 2011 _citation.journal_id_ASTM PNASA6 _citation.country US _citation.journal_id_ISSN 0027-8424 _citation.journal_id_CSD 0040 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 21586634 _citation.pdbx_database_id_DOI 10.1073/pnas.1018104108 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ge, P.' 1 ? primary 'Zhou, Z.H.' 2 ? # 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 nat 'Coat protein' 17636.621 1 ? ? ? ? 2 polymer nat "5'-R(P*AP*UP*G)-3'" 935.620 1 ? ? ? 'viral RNA' # 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 ;MSYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPL VTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT ; ;MSYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPL VTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT ; A ? 2 polyribonucleotide no no AUG AUG R ? # 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 SER n 1 3 TYR n 1 4 SER n 1 5 ILE n 1 6 THR n 1 7 THR n 1 8 PRO n 1 9 SER n 1 10 GLN n 1 11 PHE n 1 12 VAL n 1 13 PHE n 1 14 LEU n 1 15 SER n 1 16 SER n 1 17 ALA n 1 18 TRP n 1 19 ALA n 1 20 ASP n 1 21 PRO n 1 22 ILE n 1 23 GLU n 1 24 LEU n 1 25 ILE n 1 26 ASN n 1 27 LEU n 1 28 CYS n 1 29 THR n 1 30 ASN n 1 31 ALA n 1 32 LEU n 1 33 GLY n 1 34 ASN n 1 35 GLN n 1 36 PHE n 1 37 GLN n 1 38 THR n 1 39 GLN n 1 40 GLN n 1 41 ALA n 1 42 ARG n 1 43 THR n 1 44 VAL n 1 45 VAL n 1 46 GLN n 1 47 ARG n 1 48 GLN n 1 49 PHE n 1 50 SER n 1 51 GLU n 1 52 VAL n 1 53 TRP n 1 54 LYS n 1 55 PRO n 1 56 SER n 1 57 PRO n 1 58 GLN n 1 59 VAL n 1 60 THR n 1 61 VAL n 1 62 ARG n 1 63 PHE n 1 64 PRO n 1 65 ASP n 1 66 SER n 1 67 ASP n 1 68 PHE n 1 69 LYS n 1 70 VAL n 1 71 TYR n 1 72 ARG n 1 73 TYR n 1 74 ASN n 1 75 ALA n 1 76 VAL n 1 77 LEU n 1 78 ASP n 1 79 PRO n 1 80 LEU n 1 81 VAL n 1 82 THR n 1 83 ALA n 1 84 LEU n 1 85 LEU n 1 86 GLY n 1 87 ALA n 1 88 PHE n 1 89 ASP n 1 90 THR n 1 91 ARG n 1 92 ASN n 1 93 ARG n 1 94 ILE n 1 95 ILE n 1 96 GLU n 1 97 VAL n 1 98 GLU n 1 99 ASN n 1 100 GLN n 1 101 ALA n 1 102 ASN n 1 103 PRO n 1 104 THR n 1 105 THR n 1 106 ALA n 1 107 GLU n 1 108 THR n 1 109 LEU n 1 110 ASP n 1 111 ALA n 1 112 THR n 1 113 ARG n 1 114 ARG n 1 115 VAL n 1 116 ASP n 1 117 ASP n 1 118 ALA n 1 119 THR n 1 120 VAL n 1 121 ALA n 1 122 ILE n 1 123 ARG n 1 124 SER n 1 125 ALA n 1 126 ILE n 1 127 ASN n 1 128 ASN n 1 129 LEU n 1 130 ILE n 1 131 VAL n 1 132 GLU n 1 133 LEU n 1 134 ILE n 1 135 ARG n 1 136 GLY n 1 137 THR n 1 138 GLY n 1 139 SER n 1 140 TYR n 1 141 ASN n 1 142 ARG n 1 143 SER n 1 144 SER n 1 145 PHE n 1 146 GLU n 1 147 SER n 1 148 SER n 1 149 SER n 1 150 GLY n 1 151 LEU n 1 152 VAL n 1 153 TRP n 1 154 THR n 1 155 SER n 1 156 GLY n 1 157 PRO n 1 158 ALA n 1 159 THR n 2 1 A n 2 2 U n 2 3 G n # loop_ _entity_src_nat.entity_id _entity_src_nat.pdbx_src_id _entity_src_nat.pdbx_alt_source_flag _entity_src_nat.pdbx_beg_seq_num _entity_src_nat.pdbx_end_seq_num _entity_src_nat.common_name _entity_src_nat.pdbx_organism_scientific _entity_src_nat.pdbx_ncbi_taxonomy_id _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 1 1 sample ? ? ? 'Tobacco mosaic virus' 12243 ? ? vulgare ? ? ? ? ? ? ? ? ? ? ? ? ? ? 2 1 sample ? ? ? 'Tobacco mosaic virus' 12243 ? ? vulgare ? ? ? ? ? ? ? ? ? ? ? ? ? ? # 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 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 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 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 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 0 ? ? ? A . n A 1 2 SER 2 1 ? ? ? A . n A 1 3 TYR 3 2 ? ? ? A . n A 1 4 SER 4 3 3 SER SER A . n A 1 5 ILE 5 4 4 ILE ILE A . n A 1 6 THR 6 5 5 THR THR A . n A 1 7 THR 7 6 6 THR THR A . n A 1 8 PRO 8 7 7 PRO PRO A . n A 1 9 SER 9 8 8 SER SER A . n A 1 10 GLN 10 9 9 GLN GLN A . n A 1 11 PHE 11 10 10 PHE PHE A . n A 1 12 VAL 12 11 11 VAL VAL A . n A 1 13 PHE 13 12 12 PHE PHE A . n A 1 14 LEU 14 13 13 LEU LEU A . n A 1 15 SER 15 14 14 SER SER A . n A 1 16 SER 16 15 15 SER SER A . n A 1 17 ALA 17 16 16 ALA ALA A . n A 1 18 TRP 18 17 17 TRP TRP A . n A 1 19 ALA 19 18 18 ALA ALA A . n A 1 20 ASP 20 19 19 ASP ASP A . n A 1 21 PRO 21 20 20 PRO PRO A . n A 1 22 ILE 22 21 21 ILE ILE A . n A 1 23 GLU 23 22 22 GLU GLU A . n A 1 24 LEU 24 23 23 LEU LEU A . n A 1 25 ILE 25 24 24 ILE ILE A . n A 1 26 ASN 26 25 25 ASN ASN A . n A 1 27 LEU 27 26 26 LEU LEU A . n A 1 28 CYS 28 27 27 CYS CYS A . n A 1 29 THR 29 28 28 THR THR A . n A 1 30 ASN 30 29 29 ASN ASN A . n A 1 31 ALA 31 30 30 ALA ALA A . n A 1 32 LEU 32 31 31 LEU LEU A . n A 1 33 GLY 33 32 32 GLY GLY A . n A 1 34 ASN 34 33 33 ASN ASN A . n A 1 35 GLN 35 34 34 GLN GLN A . n A 1 36 PHE 36 35 35 PHE PHE A . n A 1 37 GLN 37 36 36 GLN GLN A . n A 1 38 THR 38 37 37 THR THR A . n A 1 39 GLN 39 38 38 GLN GLN A . n A 1 40 GLN 40 39 39 GLN GLN A . n A 1 41 ALA 41 40 40 ALA ALA A . n A 1 42 ARG 42 41 41 ARG ARG A . n A 1 43 THR 43 42 42 THR THR A . n A 1 44 VAL 44 43 43 VAL VAL A . n A 1 45 VAL 45 44 44 VAL VAL A . n A 1 46 GLN 46 45 45 GLN GLN A . n A 1 47 ARG 47 46 46 ARG ARG A . n A 1 48 GLN 48 47 47 GLN GLN A . n A 1 49 PHE 49 48 48 PHE PHE A . n A 1 50 SER 50 49 49 SER SER A . n A 1 51 GLU 51 50 50 GLU GLU A . n A 1 52 VAL 52 51 51 VAL VAL A . n A 1 53 TRP 53 52 52 TRP TRP A . n A 1 54 LYS 54 53 53 LYS LYS A . n A 1 55 PRO 55 54 54 PRO PRO A . n A 1 56 SER 56 55 55 SER SER A . n A 1 57 PRO 57 56 56 PRO PRO A . n A 1 58 GLN 58 57 57 GLN GLN A . n A 1 59 VAL 59 58 58 VAL VAL A . n A 1 60 THR 60 59 59 THR THR A . n A 1 61 VAL 61 60 60 VAL VAL A . n A 1 62 ARG 62 61 61 ARG ARG A . n A 1 63 PHE 63 62 62 PHE PHE A . n A 1 64 PRO 64 63 63 PRO PRO A . n A 1 65 ASP 65 64 64 ASP ASP A . n A 1 66 SER 66 65 65 SER SER A . n A 1 67 ASP 67 66 66 ASP ASP A . n A 1 68 PHE 68 67 67 PHE PHE A . n A 1 69 LYS 69 68 68 LYS LYS A . n A 1 70 VAL 70 69 69 VAL VAL A . n A 1 71 TYR 71 70 70 TYR TYR A . n A 1 72 ARG 72 71 71 ARG ARG A . n A 1 73 TYR 73 72 72 TYR TYR A . n A 1 74 ASN 74 73 73 ASN ASN A . n A 1 75 ALA 75 74 74 ALA ALA A . n A 1 76 VAL 76 75 75 VAL VAL A . n A 1 77 LEU 77 76 76 LEU LEU A . n A 1 78 ASP 78 77 77 ASP ASP A . n A 1 79 PRO 79 78 78 PRO PRO A . n A 1 80 LEU 80 79 79 LEU LEU A . n A 1 81 VAL 81 80 80 VAL VAL A . n A 1 82 THR 82 81 81 THR THR A . n A 1 83 ALA 83 82 82 ALA ALA A . n A 1 84 LEU 84 83 83 LEU LEU A . n A 1 85 LEU 85 84 84 LEU LEU A . n A 1 86 GLY 86 85 85 GLY GLY A . n A 1 87 ALA 87 86 86 ALA ALA A . n A 1 88 PHE 88 87 87 PHE PHE A . n A 1 89 ASP 89 88 88 ASP ASP A . n A 1 90 THR 90 89 89 THR THR A . n A 1 91 ARG 91 90 90 ARG ARG A . n A 1 92 ASN 92 91 91 ASN ASN A . n A 1 93 ARG 93 92 92 ARG ARG A . n A 1 94 ILE 94 93 93 ILE ILE A . n A 1 95 ILE 95 94 94 ILE ILE A . n A 1 96 GLU 96 95 95 GLU GLU A . n A 1 97 VAL 97 96 96 VAL VAL A . n A 1 98 GLU 98 97 97 GLU GLU A . n A 1 99 ASN 99 98 98 ASN ASN A . n A 1 100 GLN 100 99 99 GLN GLN A . n A 1 101 ALA 101 100 100 ALA ALA A . n A 1 102 ASN 102 101 101 ASN ASN A . n A 1 103 PRO 103 102 102 PRO PRO A . n A 1 104 THR 104 103 103 THR THR A . n A 1 105 THR 105 104 104 THR THR A . n A 1 106 ALA 106 105 105 ALA ALA A . n A 1 107 GLU 107 106 106 GLU GLU A . n A 1 108 THR 108 107 107 THR THR A . n A 1 109 LEU 109 108 108 LEU LEU A . n A 1 110 ASP 110 109 109 ASP ASP A . n A 1 111 ALA 111 110 110 ALA ALA A . n A 1 112 THR 112 111 111 THR THR A . n A 1 113 ARG 113 112 112 ARG ARG A . n A 1 114 ARG 114 113 113 ARG ARG A . n A 1 115 VAL 115 114 114 VAL VAL A . n A 1 116 ASP 116 115 115 ASP ASP A . n A 1 117 ASP 117 116 116 ASP ASP A . n A 1 118 ALA 118 117 117 ALA ALA A . n A 1 119 THR 119 118 118 THR THR A . n A 1 120 VAL 120 119 119 VAL VAL A . n A 1 121 ALA 121 120 120 ALA ALA A . n A 1 122 ILE 122 121 121 ILE ILE A . n A 1 123 ARG 123 122 122 ARG ARG A . n A 1 124 SER 124 123 123 SER SER A . n A 1 125 ALA 125 124 124 ALA ALA A . n A 1 126 ILE 126 125 125 ILE ILE A . n A 1 127 ASN 127 126 126 ASN ASN A . n A 1 128 ASN 128 127 127 ASN ASN A . n A 1 129 LEU 129 128 128 LEU LEU A . n A 1 130 ILE 130 129 129 ILE ILE A . n A 1 131 VAL 131 130 130 VAL VAL A . n A 1 132 GLU 132 131 131 GLU GLU A . n A 1 133 LEU 133 132 132 LEU LEU A . n A 1 134 ILE 134 133 133 ILE ILE A . n A 1 135 ARG 135 134 134 ARG ARG A . n A 1 136 GLY 136 135 135 GLY GLY A . n A 1 137 THR 137 136 136 THR THR A . n A 1 138 GLY 138 137 137 GLY GLY A . n A 1 139 SER 139 138 138 SER SER A . n A 1 140 TYR 140 139 139 TYR TYR A . n A 1 141 ASN 141 140 140 ASN ASN A . n A 1 142 ARG 142 141 141 ARG ARG A . n A 1 143 SER 143 142 142 SER SER A . n A 1 144 SER 144 143 143 SER SER A . n A 1 145 PHE 145 144 144 PHE PHE A . n A 1 146 GLU 146 145 145 GLU GLU A . n A 1 147 SER 147 146 146 SER SER A . n A 1 148 SER 148 147 147 SER SER A . n A 1 149 SER 149 148 148 SER SER A . n A 1 150 GLY 150 149 149 GLY GLY A . n A 1 151 LEU 151 150 150 LEU LEU A . n A 1 152 VAL 152 151 151 VAL VAL A . n A 1 153 TRP 153 152 152 TRP TRP A . n A 1 154 THR 154 153 153 THR THR A . n A 1 155 SER 155 154 154 SER SER A . n A 1 156 GLY 156 155 155 GLY GLY A . n A 1 157 PRO 157 156 156 PRO PRO A . n A 1 158 ALA 158 157 157 ALA ALA A . n A 1 159 THR 159 158 ? ? ? A . n B 2 1 A 1 4 4 A A R . n B 2 2 U 2 5 5 U U R . n B 2 3 G 3 6 6 G G R . n # _software.name EMAN _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 3J06 _cell.length_a 1.000 _cell.length_b 1.000 _cell.length_c 1.000 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _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 3J06 _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # _exptl.entry_id 3J06 _exptl.method 'ELECTRON MICROSCOPY' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _refine_hist.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1210 _refine_hist.pdbx_number_atoms_nucleic_acid 65 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 1275 _refine_hist.d_res_high . _refine_hist.d_res_low . # _database_PDB_matrix.entry_id 3J06 _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 3J06 _struct.title 'CryoEM Helical Reconstruction of TMV' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3J06 _struct_keywords.pdbx_keywords VIRUS _struct_keywords.text 'RNA, VIRUS' # 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.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_isoform 1 UNP COAT_TMV P69687 1 ;MSYSITTPSQFVFLSSAWADPIELINLCTNALGNQFQTQQARTVVQRQFSEVWKPSPQVTVRFPDSDFKVYRYNAVLDPL VTALLGAFDTRNRIIEVENQANPTTAETLDATRRVDDATVAIRSAINNLIVELIRGTGSYNRSSFESSSGLVWTSGPAT ; 1 ? 2 PDB 3J06 3J06 2 AUG 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 3J06 A 1 ? 159 ? P69687 1 ? 159 ? 0 158 2 2 3J06 R 1 ? 3 ? 3J06 4 ? 6 ? 4 6 # 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 'representative helical assembly' ? 98-meric 98 2 'helical asymmetric unit' ? dimeric 2 3 'helical asymmetric unit, std helical frame' ? dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 '(1-49)' A,B 2 25 A,B 3 H A,B # 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] H '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 1 'helical symmetry operation' ? ? -0.98109052 0.19354947 0.00000000 0.00000 -0.19354947 -0.98109052 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -33.79200 2 'helical symmetry operation' ? ? -0.83681209 0.54749020 0.00000000 0.00000 -0.54749020 -0.83681209 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -32.38400 3 'helical symmetry operation' ? ? -0.57028354 0.82144792 0.00000000 0.00000 -0.82144792 -0.57028354 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -30.97600 4 'helical symmetry operation' ? ? -0.22044208 0.97540007 0.00000000 0.00000 -0.97540007 -0.22044208 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -29.56800 5 'helical symmetry operation' ? ? 0.16160382 0.98685572 0.00000000 0.00000 -0.98685572 0.16160382 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -28.16000 6 'helical symmetry operation' ? ? 0.52004097 0.85414131 0.00000000 0.00000 -0.85414131 0.52004097 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -26.75200 7 'helical symmetry operation' ? ? 0.80250518 0.59664515 0.00000000 0.00000 -0.59664515 0.80250518 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -25.34400 8 'helical symmetry operation' ? ? 0.96773116 0.25198491 0.00000000 0.00000 -0.25198491 0.96773116 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -23.93600 9 'helical symmetry operation' ? ? 0.99158100 -0.12948788 0.00000000 0.00000 0.12948788 0.99158100 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -22.52800 10 'helical symmetry operation' ? ? 0.87057047 -0.49204375 0.00000000 0.00000 0.49204375 0.87057047 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -21.12000 11 'helical symmetry operation' ? ? 0.62237804 -0.78271679 0.00000000 0.00000 0.78271679 0.62237804 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -19.71200 12 'helical symmetry operation' ? ? 0.28326220 -0.95904250 0.00000000 0.00000 0.95904250 0.28326220 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -18.30400 13 'helical symmetry operation' ? ? -0.09723549 -0.99526140 0.00000000 0.00000 0.99526140 -0.09723549 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -16.89600 14 'helical symmetry operation' ? ? -0.46352803 -0.88608226 0.00000000 0.00000 0.88608226 -0.46352803 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -15.48800 15 'helical symmetry operation' ? ? -0.76210361 -0.64745509 0.00000000 0.00000 0.64745509 -0.76210361 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -14.08000 16 'helical symmetry operation' ? ? -0.94934324 -0.31424100 0.00000000 0.00000 0.31424100 -0.94934324 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -12.67200 17 'helical symmetry operation' ? ? -0.99789303 0.06488064 0.00000000 0.00000 -0.06488064 -0.99789303 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -11.26400 18 'helical symmetry operation' ? ? -0.90066032 0.43452386 0.00000000 0.00000 -0.43452386 -0.90066032 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -9.85600 19 'helical symmetry operation' ? ? -0.67184987 0.74068735 0.00000000 0.00000 -0.74068735 -0.67184987 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -8.44800 20 'helical symmetry operation' ? ? -0.34488867 0.93864360 0.00000000 0.00000 -0.93864360 -0.34488867 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -7.04000 21 'helical symmetry operation' ? ? 0.03245742 0.99947312 0.00000000 0.00000 -0.99947312 0.03245742 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -5.63200 22 'helical symmetry operation' ? ? 0.40506180 0.91428931 0.00000000 0.00000 -0.91428931 0.40506180 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -4.22400 23 'helical symmetry operation' ? ? 0.71849058 0.69553669 0.00000000 0.00000 -0.69553669 0.71849058 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -2.81600 24 'helical symmetry operation' ? ? 0.92695485 0.37517291 0.00000000 0.00000 -0.37517291 0.92695485 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 -1.40800 25 '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 26 'helical symmetry operation' ? ? 0.92695485 -0.37517291 0.00000000 0.00000 0.37517291 0.92695485 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 1.40800 27 'helical symmetry operation' ? ? 0.71849058 -0.69553669 0.00000000 0.00000 0.69553669 0.71849058 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 2.81600 28 'helical symmetry operation' ? ? 0.40506180 -0.91428931 0.00000000 0.00000 0.91428931 0.40506180 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 4.22400 29 'helical symmetry operation' ? ? 0.03245742 -0.99947312 0.00000000 0.00000 0.99947312 0.03245742 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 5.63200 30 'helical symmetry operation' ? ? -0.34488867 -0.93864360 0.00000000 0.00000 0.93864360 -0.34488867 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 7.04000 31 'helical symmetry operation' ? ? -0.67184987 -0.74068735 0.00000000 0.00000 0.74068735 -0.67184987 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 8.44800 32 'helical symmetry operation' ? ? -0.90066032 -0.43452386 0.00000000 0.00000 0.43452386 -0.90066032 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 9.85600 33 'helical symmetry operation' ? ? -0.99789303 -0.06488064 0.00000000 0.00000 0.06488064 -0.99789303 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 11.26400 34 'helical symmetry operation' ? ? -0.94934324 0.31424100 0.00000000 0.00000 -0.31424100 -0.94934324 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 12.67200 35 'helical symmetry operation' ? ? -0.76210361 0.64745509 0.00000000 0.00000 -0.64745509 -0.76210361 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 14.08000 36 'helical symmetry operation' ? ? -0.46352803 0.88608226 0.00000000 0.00000 -0.88608226 -0.46352803 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 15.48800 37 'helical symmetry operation' ? ? -0.09723549 0.99526140 0.00000000 0.00000 -0.99526140 -0.09723549 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 16.89600 38 'helical symmetry operation' ? ? 0.28326220 0.95904250 0.00000000 0.00000 -0.95904250 0.28326220 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 18.30400 39 'helical symmetry operation' ? ? 0.62237804 0.78271679 0.00000000 0.00000 -0.78271679 0.62237804 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 19.71200 40 'helical symmetry operation' ? ? 0.87057047 0.49204375 0.00000000 0.00000 -0.49204375 0.87057047 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 21.12000 41 'helical symmetry operation' ? ? 0.99158100 0.12948788 0.00000000 0.00000 -0.12948788 0.99158100 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 22.52800 42 'helical symmetry operation' ? ? 0.96773116 -0.25198491 0.00000000 0.00000 0.25198491 0.96773116 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 23.93600 43 'helical symmetry operation' ? ? 0.80250518 -0.59664515 0.00000000 0.00000 0.59664515 0.80250518 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 25.34400 44 'helical symmetry operation' ? ? 0.52004097 -0.85414131 0.00000000 0.00000 0.85414131 0.52004097 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 26.75200 45 'helical symmetry operation' ? ? 0.16160382 -0.98685572 0.00000000 0.00000 0.98685572 0.16160382 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 28.16000 46 'helical symmetry operation' ? ? -0.22044208 -0.97540007 0.00000000 0.00000 0.97540007 -0.22044208 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 29.56800 47 'helical symmetry operation' ? ? -0.57028354 -0.82144792 0.00000000 0.00000 0.82144792 -0.57028354 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 30.97600 48 'helical symmetry operation' ? ? -0.83681209 -0.54749020 0.00000000 0.00000 0.54749020 -0.83681209 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 32.38400 49 'helical symmetry operation' ? ? -0.98109052 -0.19354947 0.00000000 0.00000 0.19354947 -0.98109052 0.00000000 0.00000 0.00000000 0.00000000 1.00000000 33.79200 # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 THR A 7 ? SER A 9 ? THR A 6 SER A 8 5 ? 3 HELX_P HELX_P2 2 GLN A 10 ? SER A 15 ? GLN A 9 SER A 14 1 ? 6 HELX_P HELX_P3 3 ASP A 20 ? LEU A 32 ? ASP A 19 LEU A 31 1 ? 13 HELX_P HELX_P4 4 THR A 38 ? ARG A 47 ? THR A 37 ARG A 46 1 ? 10 HELX_P HELX_P5 5 LEU A 77 ? GLY A 86 ? LEU A 76 GLY A 85 1 ? 10 HELX_P HELX_P6 6 VAL A 97 ? ALA A 101 ? VAL A 96 ALA A 100 5 ? 5 HELX_P HELX_P7 7 THR A 104 ? LEU A 129 ? THR A 103 LEU A 128 1 ? 26 HELX_P HELX_P8 8 LEU A 129 ? ARG A 135 ? LEU A 128 ARG A 134 1 ? 7 HELX_P HELX_P9 9 ASN A 141 ? GLU A 146 ? ASN A 140 GLU A 145 1 ? 6 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 O _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 ILE _pdbx_validate_close_contact.auth_seq_id_1 121 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 N _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 SER _pdbx_validate_close_contact.auth_seq_id_2 123 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.10 # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 CB A GLN 9 ? ? CA A GLN 9 ? ? C A GLN 9 ? ? 96.07 110.40 -14.33 2.00 N 2 1 CB A GLU 22 ? ? CA A GLU 22 ? ? C A GLU 22 ? ? 122.81 110.40 12.41 2.00 N 3 1 CB A LEU 26 ? ? CA A LEU 26 ? ? C A LEU 26 ? ? 128.31 110.20 18.11 1.90 N 4 1 CB A GLN 38 ? ? CA A GLN 38 ? ? C A GLN 38 ? ? 124.67 110.40 14.27 2.00 N 5 1 CB A ARG 41 ? ? CA A ARG 41 ? ? C A ARG 41 ? ? 128.80 110.40 18.40 2.00 N 6 1 CB A VAL 44 ? ? CA A VAL 44 ? ? C A VAL 44 ? ? 98.26 111.40 -13.14 1.90 N 7 1 CB A VAL 80 ? ? CA A VAL 80 ? ? C A VAL 80 ? ? 99.96 111.40 -11.44 1.90 N # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 THR A 5 ? ? -123.74 -80.68 2 1 PRO A 7 ? ? -56.57 -9.33 3 1 VAL A 11 ? ? -54.66 -5.30 4 1 ALA A 16 ? ? -149.46 -49.53 5 1 ALA A 18 ? ? -127.33 -144.96 6 1 ASN A 33 ? ? -158.07 11.24 7 1 GLN A 34 ? ? 55.75 89.79 8 1 GLN A 38 ? ? -29.15 -35.44 9 1 GLN A 38 ? ? -29.15 -35.31 10 1 SER A 55 ? ? -134.47 -78.31 11 1 GLN A 57 ? ? -69.52 -176.90 12 1 VAL A 60 ? ? -57.74 106.92 13 1 ARG A 61 ? ? -50.52 -179.24 14 1 PRO A 63 ? ? -31.32 148.72 15 1 SER A 65 ? ? -116.47 -75.48 16 1 ASP A 66 ? ? -45.41 -173.61 17 1 PHE A 67 ? ? -115.44 -91.78 18 1 LYS A 68 ? ? 110.56 135.69 19 1 TYR A 70 ? ? -27.96 121.11 20 1 ASN A 73 ? ? -64.66 86.84 21 1 ALA A 74 ? ? 26.13 -82.52 22 1 ASP A 77 ? ? -58.02 -73.15 23 1 LEU A 83 ? ? -47.83 -86.81 24 1 LEU A 84 ? ? -24.02 -68.90 25 1 ASN A 91 ? ? -96.51 38.28 26 1 ARG A 92 ? ? -26.07 -34.45 27 1 VAL A 96 ? ? -144.10 -77.17 28 1 ALA A 100 ? ? -132.07 -51.66 29 1 ASN A 101 ? ? 159.29 134.44 30 1 PRO A 102 ? ? -80.64 -141.97 31 1 THR A 103 ? ? 166.00 152.31 32 1 LEU A 108 ? ? -41.65 -14.41 33 1 ILE A 121 ? ? -75.16 -85.71 34 1 ARG A 122 ? ? -9.96 -45.40 35 1 ARG A 134 ? ? -54.24 -4.07 36 1 TYR A 139 ? ? -176.37 95.33 37 1 GLU A 145 ? ? -102.38 55.90 38 1 SER A 146 ? ? -161.82 -45.52 39 1 VAL A 151 ? ? -131.83 -77.26 40 1 TRP A 152 ? ? -48.83 155.20 # _pdbx_helical_symmetry.entry_id 3J06 _pdbx_helical_symmetry.number_of_operations 49 _pdbx_helical_symmetry.rotation_per_n_subunits 22.035000 _pdbx_helical_symmetry.rise_per_n_subunits 1.408000 _pdbx_helical_symmetry.n_subunits_divisor 1 _pdbx_helical_symmetry.dyad_axis no _pdbx_helical_symmetry.circular_symmetry 1 # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 3J06 _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 3J06 _em_3d_reconstruction.id 1 _em_3d_reconstruction.resolution_method OTHER _em_3d_reconstruction.symmetry_type HELICAL _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.method IHRSR _em_3d_reconstruction.nominal_pixel_size 0.847 _em_3d_reconstruction.actual_pixel_size 0.869 _em_3d_reconstruction.resolution 3.3 _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.details ? _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.num_particles ? _em_3d_reconstruction.algorithm ? # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name 'Tris-buffered saline' _em_buffer.pH 7.4 _em_buffer.details '10 mM Tris, 130 mM sodium chloride' # _em_entity_assembly.id 1 _em_entity_assembly.name 'Tobacco Mosaic Virus (Vulgare)' _em_entity_assembly.type VIRUS _em_entity_assembly.parent_id 0 _em_entity_assembly.synonym ? _em_entity_assembly.details '49 coat proteins in 3 turn right hand helix' _em_entity_assembly.oligomeric_details ? # _em_image_scans.entry_id 3J06 _em_image_scans.id 1 _em_image_scans.image_recording_id 1 _em_image_scans.number_digital_images 386 _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 3J06 _em_imaging.id 1 _em_imaging.date 2009-06-19 _em_imaging.specimen_id 1 _em_imaging.temperature 90 _em_imaging.microscope_model 'FEI TITAN KRIOS' _em_imaging.nominal_defocus_min 1200 _em_imaging.nominal_defocus_max 2500 _em_imaging.tilt_angle_min 0 _em_imaging.tilt_angle_max 0 _em_imaging.nominal_cs 2.7 _em_imaging.mode 'BRIGHT FIELD' _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.nominal_magnification 75000 _em_imaging.calibrated_magnification 73000 _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.accelerating_voltage 300 _em_imaging.details ? _em_imaging.specimen_holder_type Eucentric _em_imaging.specimen_holder_model 'SIDE ENTRY, EUCENTRIC' _em_imaging.recording_temperature_minimum ? _em_imaging.recording_temperature_maximum ? _em_imaging.detector_distance 0.0 _em_imaging.electron_beam_tilt_params 0 _em_imaging.astigmatism 'objective lens astigmatism was corrected at 250000x magnification' _em_imaging.citation_id ? # _em_sample_support.id 1 _em_sample_support.specimen_id 1 _em_sample_support.details '400 mesh Quantifoil 1.3/1.2 micro-meter' _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 'PLANTAE (HIGHER PLANTS)' _em_virus_entity.entity_assembly_id 1 _em_virus_entity.virus_type VIRION _em_virus_entity.virus_isolate STRAIN _em_virus_entity.empty ? _em_virus_entity.enveloped ? _em_virus_entity.details ? # _em_vitrification.entry_id 3J06 _em_vitrification.id 1 _em_vitrification.instrument 'FEI VITROBOT MARK IV' _em_vitrification.details '2 uL sample' _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity 100 _em_vitrification.temp 93 _em_vitrification.method '10 second wait time, 1-2 second blot time, 1-2 second drain time, blot force 1' _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.specimen_id 1 # _em_experiment.entry_id 3J06 _em_experiment.id 1 _em_experiment.aggregation_state FILAMENT _em_experiment.entity_assembly_id 1 _em_experiment.reconstruction_method HELICAL # 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 0 ? A MET 1 2 1 Y 1 A SER 1 ? A SER 2 3 1 Y 1 A TYR 2 ? A TYR 3 4 1 Y 1 A THR 158 ? A THR 159 # 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 A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 ALA N N N N 38 ALA CA C N S 39 ALA C C N N 40 ALA O O N N 41 ALA CB C N N 42 ALA OXT O N N 43 ALA H H N N 44 ALA H2 H N N 45 ALA HA H N N 46 ALA HB1 H N N 47 ALA HB2 H N N 48 ALA HB3 H N N 49 ALA HXT H N N 50 ARG N N N N 51 ARG CA C N S 52 ARG C C N N 53 ARG O O N N 54 ARG CB C N N 55 ARG CG C N N 56 ARG CD C N N 57 ARG NE N N N 58 ARG CZ C N N 59 ARG NH1 N N N 60 ARG NH2 N N N 61 ARG OXT O N N 62 ARG H H N N 63 ARG H2 H N N 64 ARG HA H N N 65 ARG HB2 H N N 66 ARG HB3 H N N 67 ARG HG2 H N N 68 ARG HG3 H N N 69 ARG HD2 H N N 70 ARG HD3 H N N 71 ARG HE H N N 72 ARG HH11 H N N 73 ARG HH12 H N N 74 ARG HH21 H N N 75 ARG HH22 H N N 76 ARG HXT H N N 77 ASN N N N N 78 ASN CA C N S 79 ASN C C N N 80 ASN O O N N 81 ASN CB C N N 82 ASN CG C N N 83 ASN OD1 O N N 84 ASN ND2 N N N 85 ASN OXT O N N 86 ASN H H N N 87 ASN H2 H N N 88 ASN HA H N N 89 ASN HB2 H N N 90 ASN HB3 H N N 91 ASN HD21 H N N 92 ASN HD22 H N N 93 ASN HXT H N N 94 ASP N N N N 95 ASP CA C N S 96 ASP C C N N 97 ASP O O N N 98 ASP CB C N N 99 ASP CG C N N 100 ASP OD1 O N N 101 ASP OD2 O N N 102 ASP OXT O N N 103 ASP H H N N 104 ASP H2 H N N 105 ASP HA H N N 106 ASP HB2 H N N 107 ASP HB3 H N N 108 ASP HD2 H N N 109 ASP HXT H N N 110 CYS N N N N 111 CYS CA C N R 112 CYS C C N N 113 CYS O O N N 114 CYS CB C N N 115 CYS SG S N N 116 CYS OXT O N N 117 CYS H H N N 118 CYS H2 H N N 119 CYS HA H N N 120 CYS HB2 H N N 121 CYS HB3 H N N 122 CYS HG H N N 123 CYS HXT H N N 124 G OP3 O N N 125 G P P N N 126 G OP1 O N N 127 G OP2 O N N 128 G "O5'" O N N 129 G "C5'" C N N 130 G "C4'" C N R 131 G "O4'" O N N 132 G "C3'" C N S 133 G "O3'" O N N 134 G "C2'" C N R 135 G "O2'" O N N 136 G "C1'" C N R 137 G N9 N Y N 138 G C8 C Y N 139 G N7 N Y N 140 G C5 C Y N 141 G C6 C N N 142 G O6 O N N 143 G N1 N N N 144 G C2 C N N 145 G N2 N N N 146 G N3 N N N 147 G C4 C Y N 148 G HOP3 H N N 149 G HOP2 H N N 150 G "H5'" H N N 151 G "H5''" H N N 152 G "H4'" H N N 153 G "H3'" H N N 154 G "HO3'" H N N 155 G "H2'" H N N 156 G "HO2'" H N N 157 G "H1'" H N N 158 G H8 H N N 159 G H1 H N N 160 G H21 H N N 161 G H22 H N N 162 GLN N N N N 163 GLN CA C N S 164 GLN C C N N 165 GLN O O N N 166 GLN CB C N N 167 GLN CG C N N 168 GLN CD C N N 169 GLN OE1 O N N 170 GLN NE2 N N N 171 GLN OXT O N N 172 GLN H H N N 173 GLN H2 H N N 174 GLN HA H N N 175 GLN HB2 H N N 176 GLN HB3 H N N 177 GLN HG2 H N N 178 GLN HG3 H N N 179 GLN HE21 H N N 180 GLN HE22 H N N 181 GLN HXT H N N 182 GLU N N N N 183 GLU CA C N S 184 GLU C C N N 185 GLU O O N N 186 GLU CB C N N 187 GLU CG C N N 188 GLU CD C N N 189 GLU OE1 O N N 190 GLU OE2 O N N 191 GLU OXT O N N 192 GLU H H N N 193 GLU H2 H N N 194 GLU HA H N N 195 GLU HB2 H N N 196 GLU HB3 H N N 197 GLU HG2 H N N 198 GLU HG3 H N N 199 GLU HE2 H N N 200 GLU HXT H N N 201 GLY N N N N 202 GLY CA C N N 203 GLY C C N N 204 GLY O O N N 205 GLY OXT O N N 206 GLY H H N N 207 GLY H2 H N N 208 GLY HA2 H N N 209 GLY HA3 H N N 210 GLY HXT H N N 211 ILE N N N N 212 ILE CA C N S 213 ILE C C N N 214 ILE O O N N 215 ILE CB C N S 216 ILE CG1 C N N 217 ILE CG2 C N N 218 ILE CD1 C N N 219 ILE OXT O N N 220 ILE H H N N 221 ILE H2 H N N 222 ILE HA H N N 223 ILE HB H N N 224 ILE HG12 H N N 225 ILE HG13 H N N 226 ILE HG21 H N N 227 ILE HG22 H N N 228 ILE HG23 H N N 229 ILE HD11 H N N 230 ILE HD12 H N N 231 ILE HD13 H N N 232 ILE HXT H N N 233 LEU N N N N 234 LEU CA C N S 235 LEU C C N N 236 LEU O O N N 237 LEU CB C N N 238 LEU CG C N N 239 LEU CD1 C N N 240 LEU CD2 C N N 241 LEU OXT O N N 242 LEU H H N N 243 LEU H2 H N N 244 LEU HA H N N 245 LEU HB2 H N N 246 LEU HB3 H N N 247 LEU HG H N N 248 LEU HD11 H N N 249 LEU HD12 H N N 250 LEU HD13 H N N 251 LEU HD21 H N N 252 LEU HD22 H N N 253 LEU HD23 H N N 254 LEU HXT H N N 255 LYS N N N N 256 LYS CA C N S 257 LYS C C N N 258 LYS O O N N 259 LYS CB C N N 260 LYS CG C N N 261 LYS CD C N N 262 LYS CE C N N 263 LYS NZ N N N 264 LYS OXT O N N 265 LYS H H N N 266 LYS H2 H N N 267 LYS HA H N N 268 LYS HB2 H N N 269 LYS HB3 H N N 270 LYS HG2 H N N 271 LYS HG3 H N N 272 LYS HD2 H N N 273 LYS HD3 H N N 274 LYS HE2 H N N 275 LYS HE3 H N N 276 LYS HZ1 H N N 277 LYS HZ2 H N N 278 LYS HZ3 H N N 279 LYS HXT H N N 280 MET N N N N 281 MET CA C N S 282 MET C C N N 283 MET O O N N 284 MET CB C N N 285 MET CG C N N 286 MET SD S N N 287 MET CE C N N 288 MET OXT O N N 289 MET H H N N 290 MET H2 H N N 291 MET HA H N N 292 MET HB2 H N N 293 MET HB3 H N N 294 MET HG2 H N N 295 MET HG3 H N N 296 MET HE1 H N N 297 MET HE2 H N N 298 MET HE3 H N N 299 MET HXT H N N 300 PHE N N N N 301 PHE CA C N S 302 PHE C C N N 303 PHE O O N N 304 PHE CB C N N 305 PHE CG C Y N 306 PHE CD1 C Y N 307 PHE CD2 C Y N 308 PHE CE1 C Y N 309 PHE CE2 C Y N 310 PHE CZ C Y N 311 PHE OXT O N N 312 PHE H H N N 313 PHE H2 H N N 314 PHE HA H N N 315 PHE HB2 H N N 316 PHE HB3 H N N 317 PHE HD1 H N N 318 PHE HD2 H N N 319 PHE HE1 H N N 320 PHE HE2 H N N 321 PHE HZ H N N 322 PHE HXT H N N 323 PRO N N N N 324 PRO CA C N S 325 PRO C C N N 326 PRO O O N N 327 PRO CB C N N 328 PRO CG C N N 329 PRO CD C N N 330 PRO OXT O N N 331 PRO H H N N 332 PRO HA H N N 333 PRO HB2 H N N 334 PRO HB3 H N N 335 PRO HG2 H N N 336 PRO HG3 H N N 337 PRO HD2 H N N 338 PRO HD3 H N N 339 PRO HXT H N N 340 SER N N N N 341 SER CA C N S 342 SER C C N N 343 SER O O N N 344 SER CB C N N 345 SER OG O N N 346 SER OXT O N N 347 SER H H N N 348 SER H2 H N N 349 SER HA H N N 350 SER HB2 H N N 351 SER HB3 H N N 352 SER HG H N N 353 SER HXT H N N 354 THR N N N N 355 THR CA C N S 356 THR C C N N 357 THR O O N N 358 THR CB C N R 359 THR OG1 O N N 360 THR CG2 C N N 361 THR OXT O N N 362 THR H H N N 363 THR H2 H N N 364 THR HA H N N 365 THR HB H N N 366 THR HG1 H N N 367 THR HG21 H N N 368 THR HG22 H N N 369 THR HG23 H N N 370 THR HXT H N N 371 TRP N N N N 372 TRP CA C N S 373 TRP C C N N 374 TRP O O N N 375 TRP CB C N N 376 TRP CG C Y N 377 TRP CD1 C Y N 378 TRP CD2 C Y N 379 TRP NE1 N Y N 380 TRP CE2 C Y N 381 TRP CE3 C Y N 382 TRP CZ2 C Y N 383 TRP CZ3 C Y N 384 TRP CH2 C Y N 385 TRP OXT O N N 386 TRP H H N N 387 TRP H2 H N N 388 TRP HA H N N 389 TRP HB2 H N N 390 TRP HB3 H N N 391 TRP HD1 H N N 392 TRP HE1 H N N 393 TRP HE3 H N N 394 TRP HZ2 H N N 395 TRP HZ3 H N N 396 TRP HH2 H N N 397 TRP HXT H N N 398 TYR N N N N 399 TYR CA C N S 400 TYR C C N N 401 TYR O O N N 402 TYR CB C N N 403 TYR CG C Y N 404 TYR CD1 C Y N 405 TYR CD2 C Y N 406 TYR CE1 C Y N 407 TYR CE2 C Y N 408 TYR CZ C Y N 409 TYR OH O N N 410 TYR OXT O N N 411 TYR H H N N 412 TYR H2 H N N 413 TYR HA H N N 414 TYR HB2 H N N 415 TYR HB3 H N N 416 TYR HD1 H N N 417 TYR HD2 H N N 418 TYR HE1 H N N 419 TYR HE2 H N N 420 TYR HH H N N 421 TYR HXT H N N 422 U OP3 O N N 423 U P P N N 424 U OP1 O N N 425 U OP2 O N N 426 U "O5'" O N N 427 U "C5'" C N N 428 U "C4'" C N R 429 U "O4'" O N N 430 U "C3'" C N S 431 U "O3'" O N N 432 U "C2'" C N R 433 U "O2'" O N N 434 U "C1'" C N R 435 U N1 N N N 436 U C2 C N N 437 U O2 O N N 438 U N3 N N N 439 U C4 C N N 440 U O4 O N N 441 U C5 C N N 442 U C6 C N N 443 U HOP3 H N N 444 U HOP2 H N N 445 U "H5'" H N N 446 U "H5''" H N N 447 U "H4'" H N N 448 U "H3'" H N N 449 U "HO3'" H N N 450 U "H2'" H N N 451 U "HO2'" H N N 452 U "H1'" H N N 453 U H3 H N N 454 U H5 H N N 455 U H6 H N N 456 VAL N N N N 457 VAL CA C N S 458 VAL C C N N 459 VAL O O N N 460 VAL CB C N N 461 VAL CG1 C N N 462 VAL CG2 C N N 463 VAL OXT O N N 464 VAL H H N N 465 VAL H2 H N N 466 VAL HA H N N 467 VAL HB H N N 468 VAL HG11 H N N 469 VAL HG12 H N N 470 VAL HG13 H N N 471 VAL HG21 H N N 472 VAL HG22 H N N 473 VAL HG23 H N N 474 VAL HXT H N N 475 # 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 A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 ALA N CA sing N N 40 ALA N H sing N N 41 ALA N H2 sing N N 42 ALA CA C sing N N 43 ALA CA CB sing N N 44 ALA CA HA sing N N 45 ALA C O doub N N 46 ALA C OXT sing N N 47 ALA CB HB1 sing N N 48 ALA CB HB2 sing N N 49 ALA CB HB3 sing N N 50 ALA OXT HXT sing N N 51 ARG N CA sing N N 52 ARG N H sing N N 53 ARG N H2 sing N N 54 ARG CA C sing N N 55 ARG CA CB sing N N 56 ARG CA HA sing N N 57 ARG C O doub N N 58 ARG C OXT sing N N 59 ARG CB CG sing N N 60 ARG CB HB2 sing N N 61 ARG CB HB3 sing N N 62 ARG CG CD sing N N 63 ARG CG HG2 sing N N 64 ARG CG HG3 sing N N 65 ARG CD NE sing N N 66 ARG CD HD2 sing N N 67 ARG CD HD3 sing N N 68 ARG NE CZ sing N N 69 ARG NE HE sing N N 70 ARG CZ NH1 sing N N 71 ARG CZ NH2 doub N N 72 ARG NH1 HH11 sing N N 73 ARG NH1 HH12 sing N N 74 ARG NH2 HH21 sing N N 75 ARG NH2 HH22 sing N N 76 ARG OXT HXT sing N N 77 ASN N CA sing N N 78 ASN N H sing N N 79 ASN N H2 sing N N 80 ASN CA C sing N N 81 ASN CA CB sing N N 82 ASN CA HA sing N N 83 ASN C O doub N N 84 ASN C OXT sing N N 85 ASN CB CG sing N N 86 ASN CB HB2 sing N N 87 ASN CB HB3 sing N N 88 ASN CG OD1 doub N N 89 ASN CG ND2 sing N N 90 ASN ND2 HD21 sing N N 91 ASN ND2 HD22 sing N N 92 ASN OXT HXT sing N N 93 ASP N CA sing N N 94 ASP N H sing N N 95 ASP N H2 sing N N 96 ASP CA C sing N N 97 ASP CA CB sing N N 98 ASP CA HA sing N N 99 ASP C O doub N N 100 ASP C OXT sing N N 101 ASP CB CG sing N N 102 ASP CB HB2 sing N N 103 ASP CB HB3 sing N N 104 ASP CG OD1 doub N N 105 ASP CG OD2 sing N N 106 ASP OD2 HD2 sing N N 107 ASP OXT HXT sing N N 108 CYS N CA sing N N 109 CYS N H sing N N 110 CYS N H2 sing N N 111 CYS CA C sing N N 112 CYS CA CB sing N N 113 CYS CA HA sing N N 114 CYS C O doub N N 115 CYS C OXT sing N N 116 CYS CB SG sing N N 117 CYS CB HB2 sing N N 118 CYS CB HB3 sing N N 119 CYS SG HG sing N N 120 CYS OXT HXT sing N N 121 G OP3 P sing N N 122 G OP3 HOP3 sing N N 123 G P OP1 doub N N 124 G P OP2 sing N N 125 G P "O5'" sing N N 126 G OP2 HOP2 sing N N 127 G "O5'" "C5'" sing N N 128 G "C5'" "C4'" sing N N 129 G "C5'" "H5'" sing N N 130 G "C5'" "H5''" sing N N 131 G "C4'" "O4'" sing N N 132 G "C4'" "C3'" sing N N 133 G "C4'" "H4'" sing N N 134 G "O4'" "C1'" sing N N 135 G "C3'" "O3'" sing N N 136 G "C3'" "C2'" sing N N 137 G "C3'" "H3'" sing N N 138 G "O3'" "HO3'" sing N N 139 G "C2'" "O2'" sing N N 140 G "C2'" "C1'" sing N N 141 G "C2'" "H2'" sing N N 142 G "O2'" "HO2'" sing N N 143 G "C1'" N9 sing N N 144 G "C1'" "H1'" sing N N 145 G N9 C8 sing Y N 146 G N9 C4 sing Y N 147 G C8 N7 doub Y N 148 G C8 H8 sing N N 149 G N7 C5 sing Y N 150 G C5 C6 sing N N 151 G C5 C4 doub Y N 152 G C6 O6 doub N N 153 G C6 N1 sing N N 154 G N1 C2 sing N N 155 G N1 H1 sing N N 156 G C2 N2 sing N N 157 G C2 N3 doub N N 158 G N2 H21 sing N N 159 G N2 H22 sing N N 160 G N3 C4 sing N N 161 GLN N CA sing N N 162 GLN N H sing N N 163 GLN N H2 sing N N 164 GLN CA C sing N N 165 GLN CA CB sing N N 166 GLN CA HA sing N N 167 GLN C O doub N N 168 GLN C OXT sing N N 169 GLN CB CG sing N N 170 GLN CB HB2 sing N N 171 GLN CB HB3 sing N N 172 GLN CG CD sing N N 173 GLN CG HG2 sing N N 174 GLN CG HG3 sing N N 175 GLN CD OE1 doub N N 176 GLN CD NE2 sing N N 177 GLN NE2 HE21 sing N N 178 GLN NE2 HE22 sing N N 179 GLN OXT HXT sing N N 180 GLU N CA sing N N 181 GLU N H sing N N 182 GLU N H2 sing N N 183 GLU CA C sing N N 184 GLU CA CB sing N N 185 GLU CA HA sing N N 186 GLU C O doub N N 187 GLU C OXT sing N N 188 GLU CB CG sing N N 189 GLU CB HB2 sing N N 190 GLU CB HB3 sing N N 191 GLU CG CD sing N N 192 GLU CG HG2 sing N N 193 GLU CG HG3 sing N N 194 GLU CD OE1 doub N N 195 GLU CD OE2 sing N N 196 GLU OE2 HE2 sing N N 197 GLU OXT HXT sing N N 198 GLY N CA sing N N 199 GLY N H sing N N 200 GLY N H2 sing N N 201 GLY CA C sing N N 202 GLY CA HA2 sing N N 203 GLY CA HA3 sing N N 204 GLY C O doub N N 205 GLY C OXT sing N N 206 GLY OXT HXT sing N N 207 ILE N CA sing N N 208 ILE N H sing N N 209 ILE N H2 sing N N 210 ILE CA C sing N N 211 ILE CA CB sing N N 212 ILE CA HA sing N N 213 ILE C O doub N N 214 ILE C OXT sing N N 215 ILE CB CG1 sing N N 216 ILE CB CG2 sing N N 217 ILE CB HB sing N N 218 ILE CG1 CD1 sing N N 219 ILE CG1 HG12 sing N N 220 ILE CG1 HG13 sing N N 221 ILE CG2 HG21 sing N N 222 ILE CG2 HG22 sing N N 223 ILE CG2 HG23 sing N N 224 ILE CD1 HD11 sing N N 225 ILE CD1 HD12 sing N N 226 ILE CD1 HD13 sing N N 227 ILE OXT HXT sing N N 228 LEU N CA sing N N 229 LEU N H sing N N 230 LEU N H2 sing N N 231 LEU CA C sing N N 232 LEU CA CB sing N N 233 LEU CA HA sing N N 234 LEU C O doub N N 235 LEU C OXT sing N N 236 LEU CB CG sing N N 237 LEU CB HB2 sing N N 238 LEU CB HB3 sing N N 239 LEU CG CD1 sing N N 240 LEU CG CD2 sing N N 241 LEU CG HG sing N N 242 LEU CD1 HD11 sing N N 243 LEU CD1 HD12 sing N N 244 LEU CD1 HD13 sing N N 245 LEU CD2 HD21 sing N N 246 LEU CD2 HD22 sing N N 247 LEU CD2 HD23 sing N N 248 LEU OXT HXT sing N N 249 LYS N CA sing N N 250 LYS N H sing N N 251 LYS N H2 sing N N 252 LYS CA C sing N N 253 LYS CA CB sing N N 254 LYS CA HA sing N N 255 LYS C O doub N N 256 LYS C OXT sing N N 257 LYS CB CG sing N N 258 LYS CB HB2 sing N N 259 LYS CB HB3 sing N N 260 LYS CG CD sing N N 261 LYS CG HG2 sing N N 262 LYS CG HG3 sing N N 263 LYS CD CE sing N N 264 LYS CD HD2 sing N N 265 LYS CD HD3 sing N N 266 LYS CE NZ sing N N 267 LYS CE HE2 sing N N 268 LYS CE HE3 sing N N 269 LYS NZ HZ1 sing N N 270 LYS NZ HZ2 sing N N 271 LYS NZ HZ3 sing N N 272 LYS OXT HXT sing N N 273 MET N CA sing N N 274 MET N H sing N N 275 MET N H2 sing N N 276 MET CA C sing N N 277 MET CA CB sing N N 278 MET CA HA sing N N 279 MET C O doub N N 280 MET C OXT sing N N 281 MET CB CG sing N N 282 MET CB HB2 sing N N 283 MET CB HB3 sing N N 284 MET CG SD sing N N 285 MET CG HG2 sing N N 286 MET CG HG3 sing N N 287 MET SD CE sing N N 288 MET CE HE1 sing N N 289 MET CE HE2 sing N N 290 MET CE HE3 sing N N 291 MET OXT HXT sing N N 292 PHE N CA sing N N 293 PHE N H sing N N 294 PHE N H2 sing N N 295 PHE CA C sing N N 296 PHE CA CB sing N N 297 PHE CA HA sing N N 298 PHE C O doub N N 299 PHE C OXT sing N N 300 PHE CB CG sing N N 301 PHE CB HB2 sing N N 302 PHE CB HB3 sing N N 303 PHE CG CD1 doub Y N 304 PHE CG CD2 sing Y N 305 PHE CD1 CE1 sing Y N 306 PHE CD1 HD1 sing N N 307 PHE CD2 CE2 doub Y N 308 PHE CD2 HD2 sing N N 309 PHE CE1 CZ doub Y N 310 PHE CE1 HE1 sing N N 311 PHE CE2 CZ sing Y N 312 PHE CE2 HE2 sing N N 313 PHE CZ HZ sing N N 314 PHE OXT HXT sing N N 315 PRO N CA sing N N 316 PRO N CD sing N N 317 PRO N H sing N N 318 PRO CA C sing N N 319 PRO CA CB sing N N 320 PRO CA HA sing N N 321 PRO C O doub N N 322 PRO C OXT sing N N 323 PRO CB CG sing N N 324 PRO CB HB2 sing N N 325 PRO CB HB3 sing N N 326 PRO CG CD sing N N 327 PRO CG HG2 sing N N 328 PRO CG HG3 sing N N 329 PRO CD HD2 sing N N 330 PRO CD HD3 sing N N 331 PRO OXT HXT sing N N 332 SER N CA sing N N 333 SER N H sing N N 334 SER N H2 sing N N 335 SER CA C sing N N 336 SER CA CB sing N N 337 SER CA HA sing N N 338 SER C O doub N N 339 SER C OXT sing N N 340 SER CB OG sing N N 341 SER CB HB2 sing N N 342 SER CB HB3 sing N N 343 SER OG HG sing N N 344 SER OXT HXT sing N N 345 THR N CA sing N N 346 THR N H sing N N 347 THR N H2 sing N N 348 THR CA C sing N N 349 THR CA CB sing N N 350 THR CA HA sing N N 351 THR C O doub N N 352 THR C OXT sing N N 353 THR CB OG1 sing N N 354 THR CB CG2 sing N N 355 THR CB HB sing N N 356 THR OG1 HG1 sing N N 357 THR CG2 HG21 sing N N 358 THR CG2 HG22 sing N N 359 THR CG2 HG23 sing N N 360 THR OXT HXT sing N N 361 TRP N CA sing N N 362 TRP N H sing N N 363 TRP N H2 sing N N 364 TRP CA C sing N N 365 TRP CA CB sing N N 366 TRP CA HA sing N N 367 TRP C O doub N N 368 TRP C OXT sing N N 369 TRP CB CG sing N N 370 TRP CB HB2 sing N N 371 TRP CB HB3 sing N N 372 TRP CG CD1 doub Y N 373 TRP CG CD2 sing Y N 374 TRP CD1 NE1 sing Y N 375 TRP CD1 HD1 sing N N 376 TRP CD2 CE2 doub Y N 377 TRP CD2 CE3 sing Y N 378 TRP NE1 CE2 sing Y N 379 TRP NE1 HE1 sing N N 380 TRP CE2 CZ2 sing Y N 381 TRP CE3 CZ3 doub Y N 382 TRP CE3 HE3 sing N N 383 TRP CZ2 CH2 doub Y N 384 TRP CZ2 HZ2 sing N N 385 TRP CZ3 CH2 sing Y N 386 TRP CZ3 HZ3 sing N N 387 TRP CH2 HH2 sing N N 388 TRP OXT HXT sing N N 389 TYR N CA sing N N 390 TYR N H sing N N 391 TYR N H2 sing N N 392 TYR CA C sing N N 393 TYR CA CB sing N N 394 TYR CA HA sing N N 395 TYR C O doub N N 396 TYR C OXT sing N N 397 TYR CB CG sing N N 398 TYR CB HB2 sing N N 399 TYR CB HB3 sing N N 400 TYR CG CD1 doub Y N 401 TYR CG CD2 sing Y N 402 TYR CD1 CE1 sing Y N 403 TYR CD1 HD1 sing N N 404 TYR CD2 CE2 doub Y N 405 TYR CD2 HD2 sing N N 406 TYR CE1 CZ doub Y N 407 TYR CE1 HE1 sing N N 408 TYR CE2 CZ sing Y N 409 TYR CE2 HE2 sing N N 410 TYR CZ OH sing N N 411 TYR OH HH sing N N 412 TYR OXT HXT sing N N 413 U OP3 P sing N N 414 U OP3 HOP3 sing N N 415 U P OP1 doub N N 416 U P OP2 sing N N 417 U P "O5'" sing N N 418 U OP2 HOP2 sing N N 419 U "O5'" "C5'" sing N N 420 U "C5'" "C4'" sing N N 421 U "C5'" "H5'" sing N N 422 U "C5'" "H5''" sing N N 423 U "C4'" "O4'" sing N N 424 U "C4'" "C3'" sing N N 425 U "C4'" "H4'" sing N N 426 U "O4'" "C1'" sing N N 427 U "C3'" "O3'" sing N N 428 U "C3'" "C2'" sing N N 429 U "C3'" "H3'" sing N N 430 U "O3'" "HO3'" sing N N 431 U "C2'" "O2'" sing N N 432 U "C2'" "C1'" sing N N 433 U "C2'" "H2'" sing N N 434 U "O2'" "HO2'" sing N N 435 U "C1'" N1 sing N N 436 U "C1'" "H1'" sing N N 437 U N1 C2 sing N N 438 U N1 C6 sing N N 439 U C2 O2 doub N N 440 U C2 N3 sing N N 441 U N3 C4 sing N N 442 U N3 H3 sing N N 443 U C4 O4 doub N N 444 U C4 C5 sing N N 445 U C5 C6 doub N N 446 U C5 H5 sing N N 447 U C6 H6 sing N N 448 VAL N CA sing N N 449 VAL N H sing N N 450 VAL N H2 sing N N 451 VAL CA C sing N N 452 VAL CA CB sing N N 453 VAL CA HA sing N N 454 VAL C O doub N N 455 VAL C OXT sing N N 456 VAL CB CG1 sing N N 457 VAL CB CG2 sing N N 458 VAL CB HB sing N N 459 VAL CG1 HG11 sing N N 460 VAL CG1 HG12 sing N N 461 VAL CG1 HG13 sing N N 462 VAL CG2 HG21 sing N N 463 VAL CG2 HG22 sing N N 464 VAL CG2 HG23 sing N N 465 VAL OXT HXT sing N N 466 # _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 37.8 _em_entity_assembly_molwt.units MEGADALTONS # _em_helical_entity.id 1 _em_helical_entity.image_processing_id 1 _em_helical_entity.axial_symmetry C1 _em_helical_entity.angular_rotation_per_subunit 22.035 _em_helical_entity.axial_rise_per_subunit 1.407 _em_helical_entity.details ? # _em_image_processing.id 1 _em_image_processing.image_recording_id 1 _em_image_processing.details ? # _em_image_recording.details ? _em_image_recording.id 1 _em_image_recording.avg_electron_dose_per_image 25 _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 ? RECONSTRUCTION ? 1 2 IHRSR ? RECONSTRUCTION ? 1 # _em_specimen.experiment_id 1 _em_specimen.id 1 _em_specimen.concentration ? _em_specimen.vitrification_applied YES _em_specimen.staining_applied NO _em_specimen.embedding_applied NO _em_specimen.shadowing_applied NO _em_specimen.details '10 mM Tris, 130 mM sodium chloride' # _em_virus_natural_host.entity_assembly_id 1 _em_virus_natural_host.id 1 _em_virus_natural_host.ncbi_tax_id 4097 _em_virus_natural_host.organism 'Nicotiana tabacum' _em_virus_natural_host.strain ? # _atom_sites.entry_id 3J06 _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 P S # loop_