data_4ARD # _entry.id 4ARD # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.307 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 4ARD PDBE EBI-52175 WWPDB D_1290052175 # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.content_type _pdbx_database_related.details PDB 1BAX unspecified 'MASON-PFIZER MONKEY VIRUS MATRIX PROTEIN, NMR, AVERAGE STRUCTURE' PDB 1CL4 unspecified 'NUCLEOCAPSID PROTEIN FROM MASON-PFIZER MONKEY VIRUS (MPMV)' PDB 4ARG unspecified 'STRUCTURE OF THE IMMATURE RETROVIRAL CAPSID AT 8A RESOLUTION BY CRYO-ELECTRON MICROSCOPY' EMDB EMD-2090 'associated EM volume' 'STRUCTURE OF THE IMMATURE RETROVIRAL CAPSID AT 8A RESOLUTION BY CRYO-ELECTRON MICROSCOPY' EMDB EMD-2089 'other EM volume' . # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4ARD _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.SG_entry . _pdbx_database_status.recvd_initial_deposition_date 2012-04-23 _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Bharat, T.A.M.' 1 'Davey, N.E.' 2 'Ulbrich, P.' 3 'Riches, J.D.' 4 'Marco, A.D.' 5 'Rumlova, M.' 6 'Sachse, C.' 7 'Ruml, T.' 8 'Briggs, J.A.G.' 9 # _citation.id primary _citation.title 'Structure of the Immature Retroviral Capsid at 8A Resolution by Cryo-Electron Microscopy.' _citation.journal_abbrev Nature _citation.journal_volume 487 _citation.page_first 385 _citation.page_last ? _citation.year 2012 _citation.journal_id_ASTM NATUAS _citation.country UK _citation.journal_id_ISSN 0028-0836 _citation.journal_id_CSD 0006 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 22722831 _citation.pdbx_database_id_DOI 10.1038/NATURE11169 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Bharat, T.A.M.' 1 ? primary 'Davey, N.E.' 2 ? primary 'Ulbrich, P.' 3 ? primary 'Riches, J.D.' 4 ? primary 'Marco, A.D.' 5 ? primary 'Rumlova, M.' 6 ? primary 'Sachse, C.' 7 ? primary 'Ruml, T.' 8 ? primary 'Briggs, J.A.G.' 9 ? # _cell.entry_id 4ARD _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 ? # _symmetry.entry_id 4ARD _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'CAPSID PROTEIN P27' _entity.formula_weight 12885.230 _entity.pdbx_number_of_molecules 2 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment 'M-PMV CA-NTD, RESIDUES 318-433' _entity.details ? # _entity_name_com.entity_id 1 _entity_name_com.name 'M-PMV DPRO CANC PROTEIN' # _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 ;FDFAVIKELKTAASQYGATAPYTLAIVESVADNWLTPTDWNTLVRAVLSGGDHLLWKSEFFENCRDTAKRNQQAGNGWDF DMLTGSGNYSSTDAQMQYDPGLFAQIQAAATKAWRK ; _entity_poly.pdbx_seq_one_letter_code_can ;FDFAVIKELKTAASQYGATAPYTLAIVESVADNWLTPTDWNTLVRAVLSGGDHLLWKSEFFENCRDTAKRNQQAGNGWDF DMLTGSGNYSSTDAQMQYDPGLFAQIQAAATKAWRK ; _entity_poly.pdbx_strand_id A,B _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 PHE n 1 2 ASP n 1 3 PHE n 1 4 ALA n 1 5 VAL n 1 6 ILE n 1 7 LYS n 1 8 GLU n 1 9 LEU n 1 10 LYS n 1 11 THR n 1 12 ALA n 1 13 ALA n 1 14 SER n 1 15 GLN n 1 16 TYR n 1 17 GLY n 1 18 ALA n 1 19 THR n 1 20 ALA n 1 21 PRO n 1 22 TYR n 1 23 THR n 1 24 LEU n 1 25 ALA n 1 26 ILE n 1 27 VAL n 1 28 GLU n 1 29 SER n 1 30 VAL n 1 31 ALA n 1 32 ASP n 1 33 ASN n 1 34 TRP n 1 35 LEU n 1 36 THR n 1 37 PRO n 1 38 THR n 1 39 ASP n 1 40 TRP n 1 41 ASN n 1 42 THR n 1 43 LEU n 1 44 VAL n 1 45 ARG n 1 46 ALA n 1 47 VAL n 1 48 LEU n 1 49 SER n 1 50 GLY n 1 51 GLY n 1 52 ASP n 1 53 HIS n 1 54 LEU n 1 55 LEU n 1 56 TRP n 1 57 LYS n 1 58 SER n 1 59 GLU n 1 60 PHE n 1 61 PHE n 1 62 GLU n 1 63 ASN n 1 64 CYS n 1 65 ARG n 1 66 ASP n 1 67 THR n 1 68 ALA n 1 69 LYS n 1 70 ARG n 1 71 ASN n 1 72 GLN n 1 73 GLN n 1 74 ALA n 1 75 GLY n 1 76 ASN n 1 77 GLY n 1 78 TRP n 1 79 ASP n 1 80 PHE n 1 81 ASP n 1 82 MET n 1 83 LEU n 1 84 THR n 1 85 GLY n 1 86 SER n 1 87 GLY n 1 88 ASN n 1 89 TYR n 1 90 SER n 1 91 SER n 1 92 THR n 1 93 ASP n 1 94 ALA n 1 95 GLN n 1 96 MET n 1 97 GLN n 1 98 TYR n 1 99 ASP n 1 100 PRO n 1 101 GLY n 1 102 LEU n 1 103 PHE n 1 104 ALA n 1 105 GLN n 1 106 ILE n 1 107 GLN n 1 108 ALA n 1 109 ALA n 1 110 ALA n 1 111 THR n 1 112 LYS n 1 113 ALA n 1 114 TRP n 1 115 ARG n 1 116 LYS n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene ? _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'MASON-PFIZER MONKEY VIRUS' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 11855 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'ESCHERICHIA COLI' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code GAG_MPMV _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_db_accession P07567 _struct_ref.pdbx_db_isoform ? # 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 4ARD A 1 ? 83 ? P07567 318 ? 433 ? 19 101 2 1 4ARD B 1 ? 83 ? P07567 318 ? 433 ? 19 101 # 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 # _exptl.entry_id 4ARD _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 ? _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol ? _diffrn_radiation.pdbx_scattering_type ? # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.entry_id 4ARD _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low ? _refine.ls_d_res_high 7.00 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 232 _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 232 _refine_hist.d_res_high 7.00 _refine_hist.d_res_low . # _struct.entry_id 4ARD _struct.title 'Structure of the immature retroviral capsid at 8A resolution by cryo- electron microscopy' _struct.pdbx_descriptor 'CAPSID PROTEIN P27' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details 'CA ATOMS ONLY, CHAIN A, B' # _struct_keywords.entry_id 4ARD _struct_keywords.pdbx_keywords 'VIRAL PROTEIN' _struct_keywords.text 'VIRAL PROTEIN, RETROVIRUS, GAG' # 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 1 ? # _struct_biol.id 1 # _database_PDB_matrix.entry_id 4ARD _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] 1.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 0.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 4ARD _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # _atom_type.symbol C # 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 PHE 1 19 19 PHE PHE A . n A 1 2 ASP 2 20 20 ASP ASP A . n A 1 3 PHE 3 21 21 PHE PHE A . n A 1 4 ALA 4 22 22 ALA ALA A . n A 1 5 VAL 5 23 23 VAL VAL A . n A 1 6 ILE 6 24 24 ILE ILE A . n A 1 7 LYS 7 25 25 LYS LYS A . n A 1 8 GLU 8 26 26 GLU GLU A . n A 1 9 LEU 9 27 27 LEU LEU A . n A 1 10 LYS 10 28 28 LYS LYS A . n A 1 11 THR 11 29 29 THR THR A . n A 1 12 ALA 12 30 30 ALA ALA A . n A 1 13 ALA 13 31 31 ALA ALA A . n A 1 14 SER 14 32 32 SER SER A . n A 1 15 GLN 15 33 33 GLN GLN A . n A 1 16 TYR 16 34 34 TYR TYR A . n A 1 17 GLY 17 35 35 GLY GLY A . n A 1 18 ALA 18 36 36 ALA ALA A . n A 1 19 THR 19 37 37 THR THR A . n A 1 20 ALA 20 38 38 ALA ALA A . n A 1 21 PRO 21 39 39 PRO PRO A . n A 1 22 TYR 22 40 40 TYR TYR A . n A 1 23 THR 23 41 41 THR THR A . n A 1 24 LEU 24 42 42 LEU LEU A . n A 1 25 ALA 25 43 43 ALA ALA A . n A 1 26 ILE 26 44 44 ILE ILE A . n A 1 27 VAL 27 45 45 VAL VAL A . n A 1 28 GLU 28 46 46 GLU GLU A . n A 1 29 SER 29 47 47 SER SER A . n A 1 30 VAL 30 48 48 VAL VAL A . n A 1 31 ALA 31 49 49 ALA ALA A . n A 1 32 ASP 32 50 50 ASP ASP A . n A 1 33 ASN 33 51 51 ASN ASN A . n A 1 34 TRP 34 52 52 TRP TRP A . n A 1 35 LEU 35 53 53 LEU LEU A . n A 1 36 THR 36 54 54 THR THR A . n A 1 37 PRO 37 55 55 PRO PRO A . n A 1 38 THR 38 56 56 THR THR A . n A 1 39 ASP 39 57 57 ASP ASP A . n A 1 40 TRP 40 58 58 TRP TRP A . n A 1 41 ASN 41 59 59 ASN ASN A . n A 1 42 THR 42 60 60 THR THR A . n A 1 43 LEU 43 61 61 LEU LEU A . n A 1 44 VAL 44 62 62 VAL VAL A . n A 1 45 ARG 45 63 63 ARG ARG A . n A 1 46 ALA 46 64 64 ALA ALA A . n A 1 47 VAL 47 65 65 VAL VAL A . n A 1 48 LEU 48 66 66 LEU LEU A . n A 1 49 SER 49 67 67 SER SER A . n A 1 50 GLY 50 68 68 GLY GLY A . n A 1 51 GLY 51 69 69 GLY GLY A . n A 1 52 ASP 52 70 70 ASP ASP A . n A 1 53 HIS 53 71 71 HIS HIS A . n A 1 54 LEU 54 72 72 LEU LEU A . n A 1 55 LEU 55 73 73 LEU LEU A . n A 1 56 TRP 56 74 74 TRP TRP A . n A 1 57 LYS 57 75 75 LYS LYS A . n A 1 58 SER 58 76 76 SER SER A . n A 1 59 GLU 59 77 77 GLU GLU A . n A 1 60 PHE 60 78 78 PHE PHE A . n A 1 61 PHE 61 79 79 PHE PHE A . n A 1 62 GLU 62 80 80 GLU GLU A . n A 1 63 ASN 63 81 81 ASN ASN A . n A 1 64 CYS 64 82 82 CYS CYS A . n A 1 65 ARG 65 83 83 ARG ARG A . n A 1 66 ASP 66 84 84 ASP ASP A . n A 1 67 THR 67 85 85 THR THR A . n A 1 68 ALA 68 86 86 ALA ALA A . n A 1 69 LYS 69 87 87 LYS LYS A . n A 1 70 ARG 70 88 88 ARG ARG A . n A 1 71 ASN 71 89 89 ASN ASN A . n A 1 72 GLN 72 90 90 GLN GLN A . n A 1 73 GLN 73 91 91 GLN GLN A . n A 1 74 ALA 74 92 92 ALA ALA A . n A 1 75 GLY 75 93 93 GLY GLY A . n A 1 76 ASN 76 94 94 ASN ASN A . n A 1 77 GLY 77 95 95 GLY GLY A . n A 1 78 TRP 78 96 96 TRP TRP A . n A 1 79 ASP 79 97 97 ASP ASP A . n A 1 80 PHE 80 98 98 PHE PHE A . n A 1 81 ASP 81 99 99 ASP ASP A . n A 1 82 MET 82 100 100 MET MET A . n A 1 83 LEU 83 101 101 LEU LEU A . n A 1 84 THR 84 102 102 THR THR A . n A 1 85 GLY 85 103 103 GLY GLY A . n A 1 86 SER 86 104 104 SER SER A . n A 1 87 GLY 87 105 105 GLY GLY A . n A 1 88 ASN 88 106 106 ASN ASN A . n A 1 89 TYR 89 107 107 TYR TYR A . n A 1 90 SER 90 108 108 SER SER A . n A 1 91 SER 91 109 109 SER SER A . n A 1 92 THR 92 110 110 THR THR A . n A 1 93 ASP 93 111 111 ASP ASP A . n A 1 94 ALA 94 112 112 ALA ALA A . n A 1 95 GLN 95 113 113 GLN GLN A . n A 1 96 MET 96 114 114 MET MET A . n A 1 97 GLN 97 115 115 GLN GLN A . n A 1 98 TYR 98 116 116 TYR TYR A . n A 1 99 ASP 99 117 117 ASP ASP A . n A 1 100 PRO 100 118 118 PRO PRO A . n A 1 101 GLY 101 119 119 GLY GLY A . n A 1 102 LEU 102 120 120 LEU LEU A . n A 1 103 PHE 103 121 121 PHE PHE A . n A 1 104 ALA 104 122 122 ALA ALA A . n A 1 105 GLN 105 123 123 GLN GLN A . n A 1 106 ILE 106 124 124 ILE ILE A . n A 1 107 GLN 107 125 125 GLN GLN A . n A 1 108 ALA 108 126 126 ALA ALA A . n A 1 109 ALA 109 127 127 ALA ALA A . n A 1 110 ALA 110 128 128 ALA ALA A . n A 1 111 THR 111 129 129 THR THR A . n A 1 112 LYS 112 130 130 LYS LYS A . n A 1 113 ALA 113 131 131 ALA ALA A . n A 1 114 TRP 114 132 132 TRP TRP A . n A 1 115 ARG 115 133 133 ARG ARG A . n A 1 116 LYS 116 134 134 LYS LYS A . n B 1 1 PHE 1 19 19 PHE PHE B . n B 1 2 ASP 2 20 20 ASP ASP B . n B 1 3 PHE 3 21 21 PHE PHE B . n B 1 4 ALA 4 22 22 ALA ALA B . n B 1 5 VAL 5 23 23 VAL VAL B . n B 1 6 ILE 6 24 24 ILE ILE B . n B 1 7 LYS 7 25 25 LYS LYS B . n B 1 8 GLU 8 26 26 GLU GLU B . n B 1 9 LEU 9 27 27 LEU LEU B . n B 1 10 LYS 10 28 28 LYS LYS B . n B 1 11 THR 11 29 29 THR THR B . n B 1 12 ALA 12 30 30 ALA ALA B . n B 1 13 ALA 13 31 31 ALA ALA B . n B 1 14 SER 14 32 32 SER SER B . n B 1 15 GLN 15 33 33 GLN GLN B . n B 1 16 TYR 16 34 34 TYR TYR B . n B 1 17 GLY 17 35 35 GLY GLY B . n B 1 18 ALA 18 36 36 ALA ALA B . n B 1 19 THR 19 37 37 THR THR B . n B 1 20 ALA 20 38 38 ALA ALA B . n B 1 21 PRO 21 39 39 PRO PRO B . n B 1 22 TYR 22 40 40 TYR TYR B . n B 1 23 THR 23 41 41 THR THR B . n B 1 24 LEU 24 42 42 LEU LEU B . n B 1 25 ALA 25 43 43 ALA ALA B . n B 1 26 ILE 26 44 44 ILE ILE B . n B 1 27 VAL 27 45 45 VAL VAL B . n B 1 28 GLU 28 46 46 GLU GLU B . n B 1 29 SER 29 47 47 SER SER B . n B 1 30 VAL 30 48 48 VAL VAL B . n B 1 31 ALA 31 49 49 ALA ALA B . n B 1 32 ASP 32 50 50 ASP ASP B . n B 1 33 ASN 33 51 51 ASN ASN B . n B 1 34 TRP 34 52 52 TRP TRP B . n B 1 35 LEU 35 53 53 LEU LEU B . n B 1 36 THR 36 54 54 THR THR B . n B 1 37 PRO 37 55 55 PRO PRO B . n B 1 38 THR 38 56 56 THR THR B . n B 1 39 ASP 39 57 57 ASP ASP B . n B 1 40 TRP 40 58 58 TRP TRP B . n B 1 41 ASN 41 59 59 ASN ASN B . n B 1 42 THR 42 60 60 THR THR B . n B 1 43 LEU 43 61 61 LEU LEU B . n B 1 44 VAL 44 62 62 VAL VAL B . n B 1 45 ARG 45 63 63 ARG ARG B . n B 1 46 ALA 46 64 64 ALA ALA B . n B 1 47 VAL 47 65 65 VAL VAL B . n B 1 48 LEU 48 66 66 LEU LEU B . n B 1 49 SER 49 67 67 SER SER B . n B 1 50 GLY 50 68 68 GLY GLY B . n B 1 51 GLY 51 69 69 GLY GLY B . n B 1 52 ASP 52 70 70 ASP ASP B . n B 1 53 HIS 53 71 71 HIS HIS B . n B 1 54 LEU 54 72 72 LEU LEU B . n B 1 55 LEU 55 73 73 LEU LEU B . n B 1 56 TRP 56 74 74 TRP TRP B . n B 1 57 LYS 57 75 75 LYS LYS B . n B 1 58 SER 58 76 76 SER SER B . n B 1 59 GLU 59 77 77 GLU GLU B . n B 1 60 PHE 60 78 78 PHE PHE B . n B 1 61 PHE 61 79 79 PHE PHE B . n B 1 62 GLU 62 80 80 GLU GLU B . n B 1 63 ASN 63 81 81 ASN ASN B . n B 1 64 CYS 64 82 82 CYS CYS B . n B 1 65 ARG 65 83 83 ARG ARG B . n B 1 66 ASP 66 84 84 ASP ASP B . n B 1 67 THR 67 85 85 THR THR B . n B 1 68 ALA 68 86 86 ALA ALA B . n B 1 69 LYS 69 87 87 LYS LYS B . n B 1 70 ARG 70 88 88 ARG ARG B . n B 1 71 ASN 71 89 89 ASN ASN B . n B 1 72 GLN 72 90 90 GLN GLN B . n B 1 73 GLN 73 91 91 GLN GLN B . n B 1 74 ALA 74 92 92 ALA ALA B . n B 1 75 GLY 75 93 93 GLY GLY B . n B 1 76 ASN 76 94 94 ASN ASN B . n B 1 77 GLY 77 95 95 GLY GLY B . n B 1 78 TRP 78 96 96 TRP TRP B . n B 1 79 ASP 79 97 97 ASP ASP B . n B 1 80 PHE 80 98 98 PHE PHE B . n B 1 81 ASP 81 99 99 ASP ASP B . n B 1 82 MET 82 100 100 MET MET B . n B 1 83 LEU 83 101 101 LEU LEU B . n B 1 84 THR 84 102 102 THR THR B . n B 1 85 GLY 85 103 103 GLY GLY B . n B 1 86 SER 86 104 104 SER SER B . n B 1 87 GLY 87 105 105 GLY GLY B . n B 1 88 ASN 88 106 106 ASN ASN B . n B 1 89 TYR 89 107 107 TYR TYR B . n B 1 90 SER 90 108 108 SER SER B . n B 1 91 SER 91 109 109 SER SER B . n B 1 92 THR 92 110 110 THR THR B . n B 1 93 ASP 93 111 111 ASP ASP B . n B 1 94 ALA 94 112 112 ALA ALA B . n B 1 95 GLN 95 113 113 GLN GLN B . n B 1 96 MET 96 114 114 MET MET B . n B 1 97 GLN 97 115 115 GLN GLN B . n B 1 98 TYR 98 116 116 TYR TYR B . n B 1 99 ASP 99 117 117 ASP ASP B . n B 1 100 PRO 100 118 118 PRO PRO B . n B 1 101 GLY 101 119 119 GLY GLY B . n B 1 102 LEU 102 120 120 LEU LEU B . n B 1 103 PHE 103 121 121 PHE PHE B . n B 1 104 ALA 104 122 122 ALA ALA B . n B 1 105 GLN 105 123 123 GLN GLN B . n B 1 106 ILE 106 124 124 ILE ILE B . n B 1 107 GLN 107 125 125 GLN GLN B . n B 1 108 ALA 108 126 126 ALA ALA B . n B 1 109 ALA 109 127 127 ALA ALA B . n B 1 110 ALA 110 128 128 ALA ALA B . n B 1 111 THR 111 129 129 THR THR B . n B 1 112 LYS 112 130 130 LYS LYS B . n B 1 113 ALA 113 131 131 ALA ALA B . n B 1 114 TRP 114 132 132 TRP TRP B . n B 1 115 ARG 115 133 133 ARG ARG B . n B 1 116 LYS 116 134 134 LYS LYS B . n # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _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 2012-05-30 2 'Structure model' 1 1 2012-08-01 3 'Structure model' 1 2 2017-04-19 4 'Structure model' 1 3 2017-08-30 5 'Structure model' 1 4 2019-04-24 # _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 ? # 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' Other 3 4 'Structure model' 'Data collection' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' Other # 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_software 2 5 'Structure model' atom_sites 3 5 'Structure model' cell 4 5 'Structure model' database_PDB_rev 5 5 'Structure model' database_PDB_rev_record # 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.fitting_id' 2 4 'Structure model' '_em_software.image_processing_id' 3 5 'Structure model' '_atom_sites.fract_transf_matrix[1][1]' 4 5 'Structure model' '_atom_sites.fract_transf_matrix[1][2]' 5 5 'Structure model' '_cell.angle_alpha' 6 5 'Structure model' '_cell.angle_beta' 7 5 'Structure model' '_cell.angle_gamma' # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 4ARD _em_3d_fitting.ref_protocol 'RIGID BODY FIT' _em_3d_fitting.ref_space REAL _em_3d_fitting.overall_b_value ? _em_3d_fitting.target_criteria ? _em_3d_fitting.details 'METHOD--RIGID BODY REFINEMENT PROTOCOL--NMR' _em_3d_fitting.method ? # _em_3d_fitting_list.3d_fitting_id 1 _em_3d_fitting_list.id 1 _em_3d_fitting_list.pdb_entry_id 2KGF _em_3d_fitting_list.pdb_chain_id ? _em_3d_fitting_list.details ? # _em_3d_reconstruction.entry_id 4ARD _em_3d_reconstruction.id 1 _em_3d_reconstruction.symmetry_type HELICAL _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.method 'HELICAL RECONSTRUCTION WITH 3D ASYMMETRIC UNIT AVERAGING' _em_3d_reconstruction.nominal_pixel_size 1.53 _em_3d_reconstruction.actual_pixel_size 1.53 _em_3d_reconstruction.resolution 7 _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.details ;HELICAL RECONSTRUCTION WITH 3D ASYMMETRIC UNIT AVERAGING SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-2090. (DEPOSITION ID: 10768). ; _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.num_particles ? _em_3d_reconstruction.resolution_method ? _em_3d_reconstruction.algorithm ? # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name '100MM NACL, 50MM TRIS-HCL, 1UM ZN' _em_buffer.pH 7.7 _em_buffer.details '100MM NACL, 50MM TRIS-HCL, 1UM ZN' # _em_entity_assembly.id 1 _em_entity_assembly.name 'M-PMV CANC GAG TUBES' _em_entity_assembly.type COMPLEX _em_entity_assembly.parent_id 0 _em_entity_assembly.synonym ? _em_entity_assembly.details ? _em_entity_assembly.oligomeric_details ? # _em_image_scans.entry_id 4ARD _em_image_scans.id 1 _em_image_scans.image_recording_id 1 _em_image_scans.number_digital_images 46 _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 4ARD _em_imaging.id 1 _em_imaging.microscope_model 'FEI TITAN KRIOS' _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.specimen_id 1 _em_imaging.date 2011-07-05 _em_imaging.temperature ? _em_imaging.nominal_defocus_min 1000 _em_imaging.nominal_defocus_max 4000 _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_cs 2.7 _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_magnification 47000 _em_imaging.calibrated_magnification ? _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 . _em_imaging.citation_id ? _em_imaging.astigmatism ? _em_imaging.detector_distance ? _em_imaging.electron_beam_tilt_params ? _em_imaging.recording_temperature_maximum ? _em_imaging.recording_temperature_minimum ? # _em_sample_support.id 1 _em_sample_support.specimen_id 1 _em_sample_support.details 'HOLEY CARBON' _em_sample_support.method ? _em_sample_support.film_material ? _em_sample_support.grid_material ? _em_sample_support.grid_mesh_size ? _em_sample_support.grid_type ? # _em_vitrification.entry_id 4ARD _em_vitrification.id 1 _em_vitrification.cryogen_name ETHANE _em_vitrification.specimen_id 1 _em_vitrification.details 'LIQUID ETHANE' _em_vitrification.citation_id ? _em_vitrification.humidity ? _em_vitrification.instrument ? _em_vitrification.method ? _em_vitrification.temp ? _em_vitrification.time_resolved_state ? # _em_experiment.entry_id 4ARD _em_experiment.id 1 _em_experiment.aggregation_state 'HELICAL ARRAY' _em_experiment.entity_assembly_id 1 _em_experiment.reconstruction_method HELICAL # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 CA _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 GLY _pdbx_validate_close_contact.auth_seq_id_1 119 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 CA _pdbx_validate_close_contact.auth_asym_id_2 B _pdbx_validate_close_contact.auth_comp_id_2 GLY _pdbx_validate_close_contact.auth_seq_id_2 119 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.17 # _em_ctf_correction.id 1 _em_ctf_correction.details 'DIVISION BY 3D CTF SQ' _em_ctf_correction.type ? # _em_image_processing.id 1 _em_image_processing.image_recording_id 1 _em_image_processing.details ? # _em_image_recording.avg_electron_dose_per_image 0.2 _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 _em_software.imaging_id _em_software.fitting_id 1 'UCSF Chimera' ? 'MODEL FITTING' ? ? ? 1 2 AV3 ? RECONSTRUCTION ? 1 ? ? 3 SPIDER ? 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 ? # loop_ _pdbx_coordinate_model.asym_id _pdbx_coordinate_model.type A 'CA ATOMS ONLY' B 'CA ATOMS ONLY' #