data_1WTO # _entry.id 1WTO # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.351 _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 1WTO pdb_00001wto 10.2210/pdb1wto/pdb NDB PD0609 ? ? RCSB RCSB023987 ? ? WWPDB D_1000023987 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1AZP 'The wild-type Sac7d complexed with DNA GCGATCGC' unspecified PDB 1WTP 'SAC7D single mutant M29F in complex with DNA GCGA(UBr)CGC' unspecified PDB 1WTQ 'AC7D single mutant M29F in complex with DNA GTAATTAC' unspecified PDB 1WTR 'SAC7D single mutant M29A in complex with DNA GCGATCGC' unspecified PDB 1WTV 'SAC7D single mutant M29A in complex with DNA GTAATTAC' unspecified PDB 1WTW 'SAC7D single mutant V26A in complex with DNA GCGATCGC' unspecified PDB 1WTX 'SAC7D single mutant V26A in complex with DNA GTAATTAC' unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1WTO _pdbx_database_status.recvd_initial_deposition_date 2004-11-29 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Chen, C.-Y.' 1 'Ko, T.-P.' 2 'Lin, T.-W.' 3 'Chou, C.-C.' 4 'Chen, C.-J.' 5 'Wang, A.H.-J.' 6 # _citation.id primary _citation.title 'Probing the DNA kink structure induced by the hyperthermophilic chromosomal protein Sac7d' _citation.journal_abbrev 'NUCLEIC ACIDS RES.' _citation.journal_volume 33 _citation.page_first 430 _citation.page_last 438 _citation.year 2005 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 15653643 _citation.pdbx_database_id_DOI 10.1093/nar/gki191 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chen, C.-Y.' 1 ? primary 'Ko, T.-P.' 2 ? primary 'Lin, T.-W.' 3 ? primary 'Chou, C.-C.' 4 ? primary 'Chen, C.-J.' 5 ? primary 'Wang, A.H.-J.' 6 ? # _cell.entry_id 1WTO _cell.length_a 36.900 _cell.length_b 47.170 _cell.length_c 60.260 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1WTO _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? # 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 syn "5'-D(*GP*CP*GP*AP*TP*CP*GP*C)-3'" 2427.605 2 ? ? ? ? 2 polymer man 'DNA-binding proteins 7a/7b/7d' 7690.935 1 ? V26F/M29F ? ? 3 water nat water 18.015 191 ? ? ? ? # _entity_name_com.entity_id 2 _entity_name_com.name '7 KD HYPERTHERMOPHILE DNA-BINDING PROTEIN, 7 kDa DNA-binding proteins a/b/d, Sac7d' # 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 polydeoxyribonucleotide no no '(DG)(DC)(DG)(DA)(DT)(DC)(DG)(DC)' GCGATCGC B,C ? 2 'polypeptide(L)' no no MVKVKFKYKGEEKEVDTSKIKKVWRFGKFVSFTYDDNGKTGRGAVSEKDAPKELLDMLARAEREKK MVKVKFKYKGEEKEVDTSKIKKVWRFGKFVSFTYDDNGKTGRGAVSEKDAPKELLDMLARAEREKK A ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DG n 1 2 DC n 1 3 DG n 1 4 DA n 1 5 DT n 1 6 DC n 1 7 DG n 1 8 DC n 2 1 MET n 2 2 VAL n 2 3 LYS n 2 4 VAL n 2 5 LYS n 2 6 PHE n 2 7 LYS n 2 8 TYR n 2 9 LYS n 2 10 GLY n 2 11 GLU n 2 12 GLU n 2 13 LYS n 2 14 GLU n 2 15 VAL n 2 16 ASP n 2 17 THR n 2 18 SER n 2 19 LYS n 2 20 ILE n 2 21 LYS n 2 22 LYS n 2 23 VAL n 2 24 TRP n 2 25 ARG n 2 26 PHE n 2 27 GLY n 2 28 LYS n 2 29 PHE n 2 30 VAL n 2 31 SER n 2 32 PHE n 2 33 THR n 2 34 TYR n 2 35 ASP n 2 36 ASP n 2 37 ASN n 2 38 GLY n 2 39 LYS n 2 40 THR n 2 41 GLY n 2 42 ARG n 2 43 GLY n 2 44 ALA n 2 45 VAL n 2 46 SER n 2 47 GLU n 2 48 LYS n 2 49 ASP n 2 50 ALA n 2 51 PRO n 2 52 LYS n 2 53 GLU n 2 54 LEU n 2 55 LEU n 2 56 ASP n 2 57 MET n 2 58 LEU n 2 59 ALA n 2 60 ARG n 2 61 ALA n 2 62 GLU n 2 63 ARG n 2 64 GLU n 2 65 LYS n 2 66 LYS n # _entity_src_gen.entity_id 2 _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 Sulfolobus _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 'Sulfolobus acidocaldarius' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 2285 _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 Escherichia _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 'BL21(DE3)pLysS' _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type PLASMID _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name pET3B _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # 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 DN71_SULAC P13123 2 MVKVKFKYKGEEKEVDTSKIKKVWRVGKMVSFTYDDNGKTGRGAVSEKDAPKELLDMLARAEREKK 0 ? 2 PDB 1WTO 1WTO 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 1WTO A 1 ? 66 ? P13123 0 ? 65 ? 1 66 2 2 1WTO B 1 ? 8 ? 1WTO 101 ? 108 ? 101 108 3 2 1WTO C 1 ? 8 ? 1WTO 109 ? 116 ? 109 116 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 1WTO PHE A 26 ? UNP P13123 VAL 25 'engineered mutation' 26 1 1 1WTO PHE A 29 ? UNP P13123 MET 28 'engineered mutation' 29 2 # 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 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HOH non-polymer . WATER ? 'H2 O' 18.015 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 1WTO _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.115 _exptl_crystal.density_percent_sol 39.6 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 298.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details 'PEG 400, Tris buffer, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K' _exptl_crystal_grow.pdbx_pH_range . # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 'PEG 400' ? ? ? 1 2 1 'Tris buffer' ? ? ? 1 3 2 'PEG 400' ? ? ? 1 4 2 'Tris buffer' ? ? ? # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 150 ? 1 2 150 ? 1 # loop_ _diffrn_detector.diffrn_id _diffrn_detector.detector _diffrn_detector.type _diffrn_detector.pdbx_collection_date _diffrn_detector.details 1 'IMAGE PLATE' 'RIGAKU RAXIS IV++' 2002-08-27 ? 2 CCD 'ADSC QUANTUM 4' 2001-12-07 ? # loop_ _diffrn_radiation.diffrn_id _diffrn_radiation.wavelength_id _diffrn_radiation.pdbx_monochromatic_or_laue_m_l _diffrn_radiation.monochromator _diffrn_radiation.pdbx_diffrn_protocol _diffrn_radiation.pdbx_scattering_type 1 1 M 'Si 111 CHANNEL' 'SINGLE WAVELENGTH' x-ray 2 1 M 'Si 111 CHANNEL' MAD x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 1.11634 1.0 2 0.9194 1.0 3 0.9200 1.0 4 0.9184 1.0 # loop_ _diffrn_source.diffrn_id _diffrn_source.source _diffrn_source.type _diffrn_source.pdbx_synchrotron_site _diffrn_source.pdbx_synchrotron_beamline _diffrn_source.pdbx_wavelength _diffrn_source.pdbx_wavelength_list 1 SYNCHROTRON 'NSRRC BEAMLINE BL17B2' NSRRC BL17B2 ? 1.11634 2 SYNCHROTRON 'PHOTON FACTORY BEAMLINE BL-18B' 'Photon Factory' BL-18B ? '0.9194, 0.9200, 0.9184' # _reflns.entry_id 1WTO _reflns.observed_criterion_sigma_F 2.0 _reflns.observed_criterion_sigma_I 1.0 _reflns.d_resolution_high 1.5 _reflns.d_resolution_low 40.0 _reflns.number_all 17486 _reflns.number_obs 16734 _reflns.percent_possible_obs 95.7 _reflns.pdbx_Rmerge_I_obs 0.06 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 22.7 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 4.3 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1,2 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.50 _reflns_shell.d_res_low 1.55 _reflns_shell.percent_possible_all 94.2 _reflns_shell.Rmerge_I_obs 0.351 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 4.17 _reflns_shell.pdbx_redundancy 4.5 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 1692 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1WTO _refine.ls_d_res_high 1.5 _refine.ls_d_res_low 40.0 _refine.pdbx_ls_sigma_F 0 _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all 17438 _refine.ls_number_reflns_obs 16272 _refine.ls_number_reflns_R_free 795 _refine.ls_percent_reflns_obs 93.3 _refine.ls_R_factor_all 0.2145 _refine.ls_R_factor_obs 0.2145 _refine.ls_R_factor_R_work 0.214 _refine.ls_R_factor_R_free 0.231 _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_starting_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_stereochemistry_target_values 'Engh & Huber' _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.details ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_SU_B ? _refine.overall_SU_ML ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_data_cutoff_high_rms_absF ? _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_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 1WTO _refine_analyze.Luzzati_coordinate_error_obs 0.20 _refine_analyze.Luzzati_sigma_a_obs 0.14 _refine_analyze.Luzzati_d_res_low_obs 6.0 _refine_analyze.Luzzati_coordinate_error_free 0.24 _refine_analyze.Luzzati_sigma_a_free 0.16 _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 532 _refine_hist.pdbx_number_atoms_nucleic_acid 322 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 191 _refine_hist.number_atoms_total 1045 _refine_hist.d_res_high 1.5 _refine_hist.d_res_low 40.0 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function c_bond_d 0.015 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.72 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used ? _refine_ls_shell.d_res_high 1.50 _refine_ls_shell.d_res_low 1.55 _refine_ls_shell.number_reflns_R_work ? _refine_ls_shell.R_factor_R_work 0.261 _refine_ls_shell.percent_reflns_obs 81.8 _refine_ls_shell.R_factor_R_free 0.28 _refine_ls_shell.R_factor_R_free_error 0.019 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 68 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # _struct.entry_id 1WTO _struct.title 'Hyperthermophile chromosomal protein SAC7D double mutant V26F/M29F in complex with DNA GCGATCGC' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1WTO _struct_keywords.pdbx_keywords 'DNA BINDING PROTEIN/DNA' _struct_keywords.text ;COMPLEX CHROMATIN PROTEIN-DNA, MINOR-GROOVE DNA BINDING, ARCHEA, KINKED-DNA, INTERCALATION, Sac7d mutant, DNA BINDING PROTEIN-DNA COMPLEX ; # 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 ? C N N 2 ? D N N 3 ? E N N 3 ? F N N 3 ? # _struct_biol.id 1 _struct_biol.details ? _struct_biol.pdbx_parent_biol_id ? # 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 LYS C 48 ? ALA C 50 ? LYS A 48 ALA A 50 5 ? 3 HELX_P HELX_P2 2 PRO C 51 ? GLU C 64 ? PRO A 51 GLU A 64 1 ? 14 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DC 8 N3 ? ? B DG 101 C DC 116 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DC 8 O2 ? ? B DG 101 C DC 116 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DC 8 N4 ? ? B DG 101 C DC 116 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 7 N1 ? ? B DC 102 C DG 115 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 7 O6 ? ? B DC 102 C DG 115 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 7 N2 ? ? B DC 102 C DG 115 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 6 N3 ? ? B DG 103 C DC 114 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 6 O2 ? ? B DG 103 C DC 114 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 6 N4 ? ? B DG 103 C DC 114 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 4 N1 ? ? ? 1_555 B DT 5 N3 ? ? B DA 104 C DT 113 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 4 N6 ? ? ? 1_555 B DT 5 O4 ? ? B DA 104 C DT 113 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DT 5 N3 ? ? ? 1_555 B DA 4 N1 ? ? B DT 105 C DA 112 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DT 5 O4 ? ? ? 1_555 B DA 4 N6 ? ? B DT 105 C DA 112 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 6 N3 ? ? ? 1_555 B DG 3 N1 ? ? B DC 106 C DG 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 6 N4 ? ? ? 1_555 B DG 3 O6 ? ? B DC 106 C DG 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 6 O2 ? ? ? 1_555 B DG 3 N2 ? ? B DC 106 C DG 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 7 N1 ? ? ? 1_555 B DC 2 N3 ? ? B DG 107 C DC 110 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B DC 2 O2 ? ? B DG 107 C DC 110 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 7 O6 ? ? ? 1_555 B DC 2 N4 ? ? B DG 107 C DC 110 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 1 N1 ? ? B DC 108 C DG 109 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 1 O6 ? ? B DC 108 C DG 109 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 1 N2 ? ? B DC 108 C DG 109 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 2 ? B ? 3 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? 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 LYS C 3 ? TYR C 8 ? LYS A 3 TYR A 8 A 2 GLU C 11 ? ASP C 16 ? GLU A 11 ASP A 16 B 1 ILE C 20 ? PHE C 26 ? ILE A 20 PHE A 26 B 2 PHE C 29 ? ASP C 36 ? PHE A 29 ASP A 36 B 3 LYS C 39 ? SER C 46 ? LYS A 39 SER A 46 # 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 VAL C 4 ? N VAL A 4 O VAL C 15 ? O VAL A 15 B 1 2 N PHE C 26 ? N PHE A 26 O PHE C 29 ? O PHE A 29 B 2 3 N ASP C 36 ? N ASP A 36 O LYS C 39 ? O LYS A 39 # _database_PDB_matrix.entry_id 1WTO _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 # _atom_sites.entry_id 1WTO _atom_sites.fract_transf_matrix[1][1] 0.027100 _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] 0.021200 _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] 0.016595 _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_ _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 DG 1 101 101 DG GUA B . n A 1 2 DC 2 102 102 DC CYT B . n A 1 3 DG 3 103 103 DG GUA B . n A 1 4 DA 4 104 104 DA ADE B . n A 1 5 DT 5 105 105 DT THY B . n A 1 6 DC 6 106 106 DC CYT B . n A 1 7 DG 7 107 107 DG GUA B . n A 1 8 DC 8 108 108 DC CYT B . n B 1 1 DG 1 109 109 DG GUA C . n B 1 2 DC 2 110 110 DC CYT C . n B 1 3 DG 3 111 111 DG GUA C . n B 1 4 DA 4 112 112 DA ADE C . n B 1 5 DT 5 113 113 DT THY C . n B 1 6 DC 6 114 114 DC CYT C . n B 1 7 DG 7 115 115 DG GUA C . n B 1 8 DC 8 116 116 DC CYT C . n C 2 1 MET 1 1 ? ? ? A . n C 2 2 VAL 2 2 2 VAL VAL A . n C 2 3 LYS 3 3 3 LYS LYS A . n C 2 4 VAL 4 4 4 VAL VAL A . n C 2 5 LYS 5 5 5 LYS LYS A . n C 2 6 PHE 6 6 6 PHE PHE A . n C 2 7 LYS 7 7 7 LYS LYS A . n C 2 8 TYR 8 8 8 TYR TYR A . n C 2 9 LYS 9 9 9 LYS LYS A . n C 2 10 GLY 10 10 10 GLY GLY A . n C 2 11 GLU 11 11 11 GLU GLU A . n C 2 12 GLU 12 12 12 GLU GLU A . n C 2 13 LYS 13 13 13 LYS LYS A . n C 2 14 GLU 14 14 14 GLU GLU A . n C 2 15 VAL 15 15 15 VAL VAL A . n C 2 16 ASP 16 16 16 ASP ASP A . n C 2 17 THR 17 17 17 THR THR A . n C 2 18 SER 18 18 18 SER SER A . n C 2 19 LYS 19 19 19 LYS LYS A . n C 2 20 ILE 20 20 20 ILE ILE A . n C 2 21 LYS 21 21 21 LYS LYS A . n C 2 22 LYS 22 22 22 LYS LYS A . n C 2 23 VAL 23 23 23 VAL VAL A . n C 2 24 TRP 24 24 24 TRP TRP A . n C 2 25 ARG 25 25 25 ARG ARG A . n C 2 26 PHE 26 26 26 PHE PHE A . n C 2 27 GLY 27 27 27 GLY GLY A . n C 2 28 LYS 28 28 28 LYS LYS A . n C 2 29 PHE 29 29 29 PHE PHE A . n C 2 30 VAL 30 30 30 VAL VAL A . n C 2 31 SER 31 31 31 SER SER A . n C 2 32 PHE 32 32 32 PHE PHE A . n C 2 33 THR 33 33 33 THR THR A . n C 2 34 TYR 34 34 34 TYR TYR A . n C 2 35 ASP 35 35 35 ASP ASP A . n C 2 36 ASP 36 36 36 ASP ASP A . n C 2 37 ASN 37 37 37 ASN ASN A . n C 2 38 GLY 38 38 38 GLY GLY A . n C 2 39 LYS 39 39 39 LYS LYS A . n C 2 40 THR 40 40 40 THR THR A . n C 2 41 GLY 41 41 41 GLY GLY A . n C 2 42 ARG 42 42 42 ARG ARG A . n C 2 43 GLY 43 43 43 GLY GLY A . n C 2 44 ALA 44 44 44 ALA ALA A . n C 2 45 VAL 45 45 45 VAL VAL A . n C 2 46 SER 46 46 46 SER SER A . n C 2 47 GLU 47 47 47 GLU GLU A . n C 2 48 LYS 48 48 48 LYS LYS A . n C 2 49 ASP 49 49 49 ASP ASP A . n C 2 50 ALA 50 50 50 ALA ALA A . n C 2 51 PRO 51 51 51 PRO PRO A . n C 2 52 LYS 52 52 52 LYS LYS A . n C 2 53 GLU 53 53 53 GLU GLU A . n C 2 54 LEU 54 54 54 LEU LEU A . n C 2 55 LEU 55 55 55 LEU LEU A . n C 2 56 ASP 56 56 56 ASP ASP A . n C 2 57 MET 57 57 57 MET MET A . n C 2 58 LEU 58 58 58 LEU LEU A . n C 2 59 ALA 59 59 59 ALA ALA A . n C 2 60 ARG 60 60 60 ARG ARG A . n C 2 61 ALA 61 61 61 ALA ALA A . n C 2 62 GLU 62 62 62 GLU GLU A . n C 2 63 ARG 63 63 63 ARG ARG A . n C 2 64 GLU 64 64 64 GLU GLU A . n C 2 65 LYS 65 65 65 LYS LYS A . n C 2 66 LYS 66 66 66 LYS LYS A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code D 3 HOH 1 203 203 HOH TIP B . D 3 HOH 2 205 205 HOH TIP B . D 3 HOH 3 207 207 HOH TIP B . D 3 HOH 4 209 209 HOH TIP B . D 3 HOH 5 211 211 HOH TIP B . D 3 HOH 6 212 212 HOH TIP B . D 3 HOH 7 214 214 HOH TIP B . D 3 HOH 8 215 215 HOH TIP B . D 3 HOH 9 216 216 HOH TIP B . D 3 HOH 10 223 223 HOH TIP B . D 3 HOH 11 250 250 HOH TIP B . D 3 HOH 12 252 252 HOH TIP B . D 3 HOH 13 263 263 HOH TIP B . D 3 HOH 14 267 267 HOH TIP B . D 3 HOH 15 268 268 HOH TIP B . D 3 HOH 16 269 269 HOH TIP B . D 3 HOH 17 270 270 HOH TIP B . D 3 HOH 18 271 271 HOH TIP B . D 3 HOH 19 291 291 HOH TIP B . D 3 HOH 20 296 296 HOH TIP B . D 3 HOH 21 321 321 HOH TIP B . D 3 HOH 22 324 324 HOH TIP B . D 3 HOH 23 326 326 HOH TIP B . D 3 HOH 24 337 337 HOH TIP B . D 3 HOH 25 338 338 HOH TIP B . D 3 HOH 26 345 345 HOH TIP B . D 3 HOH 27 348 348 HOH TIP B . D 3 HOH 28 353 353 HOH TIP B . D 3 HOH 29 359 359 HOH TIP B . D 3 HOH 30 360 360 HOH TIP B . D 3 HOH 31 367 367 HOH TIP B . D 3 HOH 32 368 368 HOH TIP B . D 3 HOH 33 369 369 HOH TIP B . D 3 HOH 34 372 372 HOH TIP B . D 3 HOH 35 374 374 HOH TIP B . D 3 HOH 36 376 376 HOH TIP B . D 3 HOH 37 379 379 HOH TIP B . E 3 HOH 1 208 208 HOH TIP C . E 3 HOH 2 220 220 HOH TIP C . E 3 HOH 3 221 221 HOH TIP C . E 3 HOH 4 222 222 HOH TIP C . E 3 HOH 5 224 224 HOH TIP C . E 3 HOH 6 225 225 HOH TIP C . E 3 HOH 7 226 226 HOH TIP C . E 3 HOH 8 227 227 HOH TIP C . E 3 HOH 9 228 228 HOH TIP C . E 3 HOH 10 229 229 HOH TIP C . E 3 HOH 11 230 230 HOH TIP C . E 3 HOH 12 232 232 HOH TIP C . E 3 HOH 13 238 238 HOH TIP C . E 3 HOH 14 240 240 HOH TIP C . E 3 HOH 15 241 241 HOH TIP C . E 3 HOH 16 242 242 HOH TIP C . E 3 HOH 17 257 257 HOH TIP C . E 3 HOH 18 265 265 HOH TIP C . E 3 HOH 19 266 266 HOH TIP C . E 3 HOH 20 272 272 HOH TIP C . E 3 HOH 21 273 273 HOH TIP C . E 3 HOH 22 274 274 HOH TIP C . E 3 HOH 23 275 275 HOH TIP C . E 3 HOH 24 276 276 HOH TIP C . E 3 HOH 25 277 277 HOH TIP C . E 3 HOH 26 278 278 HOH TIP C . E 3 HOH 27 293 293 HOH TIP C . E 3 HOH 28 308 308 HOH TIP C . E 3 HOH 29 318 318 HOH TIP C . E 3 HOH 30 319 319 HOH TIP C . E 3 HOH 31 320 320 HOH TIP C . E 3 HOH 32 327 327 HOH TIP C . E 3 HOH 33 329 329 HOH TIP C . E 3 HOH 34 332 332 HOH TIP C . E 3 HOH 35 358 358 HOH TIP C . E 3 HOH 36 361 361 HOH TIP C . E 3 HOH 37 362 362 HOH TIP C . E 3 HOH 38 363 363 HOH TIP C . E 3 HOH 39 364 364 HOH TIP C . E 3 HOH 40 365 365 HOH TIP C . E 3 HOH 41 373 373 HOH TIP C . E 3 HOH 42 386 386 HOH TIP C . F 3 HOH 1 201 201 HOH TIP A . F 3 HOH 2 202 202 HOH TIP A . F 3 HOH 3 204 204 HOH TIP A . F 3 HOH 4 206 206 HOH TIP A . F 3 HOH 5 210 210 HOH TIP A . F 3 HOH 6 213 213 HOH TIP A . F 3 HOH 7 217 217 HOH TIP A . F 3 HOH 8 218 218 HOH TIP A . F 3 HOH 9 219 219 HOH TIP A . F 3 HOH 10 231 231 HOH TIP A . F 3 HOH 11 233 233 HOH TIP A . F 3 HOH 12 234 234 HOH TIP A . F 3 HOH 13 235 235 HOH TIP A . F 3 HOH 14 236 236 HOH TIP A . F 3 HOH 15 237 237 HOH TIP A . F 3 HOH 16 239 239 HOH TIP A . F 3 HOH 17 243 243 HOH TIP A . F 3 HOH 18 244 244 HOH TIP A . F 3 HOH 19 245 245 HOH TIP A . F 3 HOH 20 246 246 HOH TIP A . F 3 HOH 21 247 247 HOH TIP A . F 3 HOH 22 248 248 HOH TIP A . F 3 HOH 23 249 249 HOH TIP A . F 3 HOH 24 251 251 HOH TIP A . F 3 HOH 25 253 253 HOH TIP A . F 3 HOH 26 254 254 HOH TIP A . F 3 HOH 27 255 255 HOH TIP A . F 3 HOH 28 256 256 HOH TIP A . F 3 HOH 29 258 258 HOH TIP A . F 3 HOH 30 259 259 HOH TIP A . F 3 HOH 31 260 260 HOH TIP A . F 3 HOH 32 261 261 HOH TIP A . F 3 HOH 33 262 262 HOH TIP A . F 3 HOH 34 264 264 HOH TIP A . F 3 HOH 35 279 279 HOH TIP A . F 3 HOH 36 280 280 HOH TIP A . F 3 HOH 37 281 281 HOH TIP A . F 3 HOH 38 282 282 HOH TIP A . F 3 HOH 39 283 283 HOH TIP A . F 3 HOH 40 284 284 HOH TIP A . F 3 HOH 41 285 285 HOH TIP A . F 3 HOH 42 286 286 HOH TIP A . F 3 HOH 43 287 287 HOH TIP A . F 3 HOH 44 288 288 HOH TIP A . F 3 HOH 45 289 289 HOH TIP A . F 3 HOH 46 290 290 HOH TIP A . F 3 HOH 47 292 292 HOH TIP A . F 3 HOH 48 294 294 HOH TIP A . F 3 HOH 49 295 295 HOH TIP A . F 3 HOH 50 297 297 HOH TIP A . F 3 HOH 51 298 298 HOH TIP A . F 3 HOH 52 299 299 HOH TIP A . F 3 HOH 53 300 300 HOH TIP A . F 3 HOH 54 301 301 HOH TIP A . F 3 HOH 55 302 302 HOH TIP A . F 3 HOH 56 303 303 HOH TIP A . F 3 HOH 57 304 304 HOH TIP A . F 3 HOH 58 305 305 HOH TIP A . F 3 HOH 59 306 306 HOH TIP A . F 3 HOH 60 307 307 HOH TIP A . F 3 HOH 61 309 309 HOH TIP A . F 3 HOH 62 310 310 HOH TIP A . F 3 HOH 63 311 311 HOH TIP A . F 3 HOH 64 312 312 HOH TIP A . F 3 HOH 65 313 313 HOH TIP A . F 3 HOH 66 314 314 HOH TIP A . F 3 HOH 67 315 315 HOH TIP A . F 3 HOH 68 316 316 HOH TIP A . F 3 HOH 69 317 317 HOH TIP A . F 3 HOH 70 322 322 HOH TIP A . F 3 HOH 71 323 323 HOH TIP A . F 3 HOH 72 325 325 HOH TIP A . F 3 HOH 73 328 328 HOH TIP A . F 3 HOH 74 330 330 HOH TIP A . F 3 HOH 75 331 331 HOH TIP A . F 3 HOH 76 333 333 HOH TIP A . F 3 HOH 77 334 334 HOH TIP A . F 3 HOH 78 335 335 HOH TIP A . F 3 HOH 79 336 336 HOH TIP A . F 3 HOH 80 339 339 HOH TIP A . F 3 HOH 81 340 340 HOH TIP A . F 3 HOH 82 341 341 HOH TIP A . F 3 HOH 83 342 342 HOH TIP A . F 3 HOH 84 343 343 HOH TIP A . F 3 HOH 85 344 344 HOH TIP A . F 3 HOH 86 346 346 HOH TIP A . F 3 HOH 87 347 347 HOH TIP A . F 3 HOH 88 349 349 HOH TIP A . F 3 HOH 89 350 350 HOH TIP A . F 3 HOH 90 351 351 HOH TIP A . F 3 HOH 91 352 352 HOH TIP A . F 3 HOH 92 354 354 HOH TIP A . F 3 HOH 93 355 355 HOH TIP A . F 3 HOH 94 356 356 HOH TIP A . F 3 HOH 95 357 357 HOH TIP A . F 3 HOH 96 366 366 HOH TIP A . F 3 HOH 97 370 370 HOH TIP A . F 3 HOH 98 371 371 HOH TIP A . F 3 HOH 99 375 375 HOH TIP A . F 3 HOH 100 377 377 HOH TIP A . F 3 HOH 101 378 378 HOH TIP A . F 3 HOH 102 380 380 HOH TIP A . F 3 HOH 103 381 381 HOH TIP A . F 3 HOH 104 382 382 HOH TIP A . F 3 HOH 105 383 383 HOH TIP A . F 3 HOH 106 384 384 HOH TIP A . F 3 HOH 107 385 385 HOH TIP A . F 3 HOH 108 387 387 HOH TIP A . F 3 HOH 109 388 388 HOH TIP A . F 3 HOH 110 389 389 HOH TIP A . F 3 HOH 111 390 390 HOH TIP A . F 3 HOH 112 391 391 HOH TIP A . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # _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 2005-02-22 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2021-11-10 # _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' 'Version format compliance' 3 4 'Structure model' 'Database references' # 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' database_2 2 4 'Structure model' struct_ref_seq_dif # 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' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_ref_seq_dif.details' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal HKL-2000 'data collection' . ? 1 SCALEPACK 'data scaling' . ? 2 SOLVE phasing . ? 3 CNS refinement . ? 4 HKL-2000 'data reduction' . ? 5 # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 O _pdbx_validate_symm_contact.auth_asym_id_1 A _pdbx_validate_symm_contact.auth_comp_id_1 HOH _pdbx_validate_symm_contact.auth_seq_id_1 204 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 O _pdbx_validate_symm_contact.auth_asym_id_2 A _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 349 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 4_567 _pdbx_validate_symm_contact.dist 2.12 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 "C5'" _pdbx_validate_rmsd_angle.auth_asym_id_1 B _pdbx_validate_rmsd_angle.auth_comp_id_1 DA _pdbx_validate_rmsd_angle.auth_seq_id_1 104 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 "C4'" _pdbx_validate_rmsd_angle.auth_asym_id_2 B _pdbx_validate_rmsd_angle.auth_comp_id_2 DA _pdbx_validate_rmsd_angle.auth_seq_id_2 104 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 "O4'" _pdbx_validate_rmsd_angle.auth_asym_id_3 B _pdbx_validate_rmsd_angle.auth_comp_id_3 DA _pdbx_validate_rmsd_angle.auth_seq_id_3 104 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 93.58 _pdbx_validate_rmsd_angle.angle_target_value 109.30 _pdbx_validate_rmsd_angle.angle_deviation -15.72 _pdbx_validate_rmsd_angle.angle_standard_deviation 1.90 _pdbx_validate_rmsd_angle.linker_flag 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 LYS A 21 ? ? -104.87 -83.76 2 1 ASP A 36 ? ? -106.63 76.22 # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DC B 102 ? ? 0.097 'SIDE CHAIN' 2 1 DT C 113 ? ? 0.077 'SIDE CHAIN' # _pdbx_unobs_or_zero_occ_residues.id 1 _pdbx_unobs_or_zero_occ_residues.PDB_model_num 1 _pdbx_unobs_or_zero_occ_residues.polymer_flag Y _pdbx_unobs_or_zero_occ_residues.occupancy_flag 1 _pdbx_unobs_or_zero_occ_residues.auth_asym_id A _pdbx_unobs_or_zero_occ_residues.auth_comp_id MET _pdbx_unobs_or_zero_occ_residues.auth_seq_id 1 _pdbx_unobs_or_zero_occ_residues.PDB_ins_code ? _pdbx_unobs_or_zero_occ_residues.label_asym_id C _pdbx_unobs_or_zero_occ_residues.label_comp_id MET _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 # _ndb_struct_conf_na.entry_id 1WTO _ndb_struct_conf_na.feature 'b-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DG 1 1_555 B DC 8 1_555 -0.250 -0.082 0.076 -0.834 -0.035 4.285 1 B_DG101:DC116_C B 101 ? C 116 ? 19 1 1 A DC 2 1_555 B DG 7 1_555 0.157 -0.018 -0.379 18.531 -0.691 -1.395 2 B_DC102:DG115_C B 102 ? C 115 ? 19 1 1 A DG 3 1_555 B DC 6 1_555 -0.297 -0.139 -0.013 -7.899 -3.624 -0.592 3 B_DG103:DC114_C B 103 ? C 114 ? 19 1 1 A DA 4 1_555 B DT 5 1_555 0.067 -0.060 0.065 -0.575 -10.577 4.381 4 B_DA104:DT113_C B 104 ? C 113 ? 20 1 1 A DT 5 1_555 B DA 4 1_555 -0.105 -0.065 -0.131 2.576 -9.867 -1.203 5 B_DT105:DA112_C B 105 ? C 112 ? 20 1 1 A DC 6 1_555 B DG 3 1_555 0.103 -0.177 -0.309 3.935 -7.727 -1.304 6 B_DC106:DG111_C B 106 ? C 111 ? 19 1 1 A DG 7 1_555 B DC 2 1_555 -0.208 -0.116 0.098 -1.692 -3.381 -2.141 7 B_DG107:DC110_C B 107 ? C 110 ? 19 1 1 A DC 8 1_555 B DG 1 1_555 0.757 -0.315 0.058 2.387 -1.046 1.327 8 B_DC108:DG109_C B 108 ? C 109 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DG 1 1_555 B DC 8 1_555 A DC 2 1_555 B DG 7 1_555 -0.474 0.026 2.812 3.211 4.302 26.021 -0.909 1.753 2.703 9.427 -7.036 26.560 1 BB_DG101DC102:DG115DC116_CC B 101 ? C 116 ? B 102 ? C 115 ? 1 A DC 2 1_555 B DG 7 1_555 A DG 3 1_555 B DC 6 1_555 -0.020 1.055 5.275 0.403 57.528 15.624 -4.824 0.061 2.460 76.092 -0.533 59.438 2 BB_DC102DG103:DC114DG115_CC B 102 ? C 115 ? B 103 ? C 114 ? 1 A DG 3 1_555 B DC 6 1_555 A DA 4 1_555 B DT 5 1_555 0.420 0.421 3.196 -1.816 10.273 25.368 -1.653 -1.335 3.091 22.231 3.930 27.397 3 BB_DG103DA104:DT113DC114_CC B 103 ? C 114 ? B 104 ? C 113 ? 1 A DA 4 1_555 B DT 5 1_555 A DT 5 1_555 B DA 4 1_555 -0.189 -0.351 3.210 1.837 -2.498 32.847 -0.201 0.639 3.212 -4.406 -3.240 32.989 4 BB_DA104DT105:DA112DT113_CC B 104 ? C 113 ? B 105 ? C 112 ? 1 A DT 5 1_555 B DA 4 1_555 A DC 6 1_555 B DG 3 1_555 1.165 0.251 3.249 4.548 2.348 37.097 0.077 -1.207 3.373 3.669 -7.107 37.436 5 BB_DT105DC106:DG111DA112_CC B 105 ? C 112 ? B 106 ? C 111 ? 1 A DC 6 1_555 B DG 3 1_555 A DG 7 1_555 B DC 2 1_555 -0.969 0.335 3.423 -6.624 3.657 36.598 0.002 0.571 3.554 5.748 10.412 37.346 6 BB_DC106DG107:DC110DG111_CC B 106 ? C 111 ? B 107 ? C 110 ? 1 A DG 7 1_555 B DC 2 1_555 A DC 8 1_555 B DG 1 1_555 0.003 -0.321 3.226 -0.741 2.579 31.735 -1.047 -0.138 3.189 4.705 1.352 31.846 7 BB_DG107DC108:DG109DC110_CC B 107 ? C 110 ? B 108 ? C 109 ? # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH #