data_1XYI # _entry.id 1XYI # _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 1XYI pdb_00001xyi 10.2210/pdb1xyi/pdb NDB PD0607 ? ? RCSB RCSB030909 ? ? WWPDB D_1000030909 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 1AZP _pdbx_database_related.details 'wildtype Sac7d protein-DNA complex' _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1XYI _pdbx_database_status.recvd_initial_deposition_date 2004-11-10 _pdbx_database_status.deposit_site RCSB _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 1XYI _cell.length_a 37.780 _cell.length_b 47.270 _cell.length_c 52.650 _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 1XYI _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' 7538.743 1 ? 'V26A, M29A' ? ? 3 water nat water 18.015 207 ? ? ? ? # _entity_name_com.entity_id 2 _entity_name_com.name 'chromosomal protein 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 MVKVKFKYKGEEKEVDTSKIKKVWRAGKAVSFTYDDNGKTGRGAVSEKDAPKELLDMLARAEREKK MVKVKFKYKGEEKEVDTSKIKKVWRAGKAVSFTYDDNGKTGRGAVSEKDAPKELLDMLARAEREKK 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 ALA n 2 27 GLY n 2 28 LYS n 2 29 ALA 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 sac7d _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 1XYI 1XYI 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 1XYI A 1 ? 66 ? P13123 0 ? 65 ? 1 66 2 2 1XYI B 1 ? 8 ? 1XYI 101 ? 108 ? 101 108 3 2 1XYI C 1 ? 8 ? 1XYI 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 1XYI ALA A 26 ? UNP P13123 VAL 25 'engineered mutation' 26 1 1 1XYI ALA 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 1XYI _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.896 _exptl_crystal.density_percent_sol 44.2 _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 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.4 _exptl_crystal_grow.pdbx_details 'Tris, PEG400, pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 298K' _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 Tris ? ? ? 1 2 1 PEG400 ? ? ? 1 3 2 Tris ? ? ? 1 4 2 PEG400 ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type 'RIGAKU RAXIS IV' _diffrn_detector.pdbx_collection_date 2002-11-28 _diffrn_detector.details mirrors # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Si 111 CHANNEL' _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.0717 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'NSRRC BEAMLINE BL17B2' _diffrn_source.pdbx_synchrotron_site NSRRC _diffrn_source.pdbx_synchrotron_beamline BL17B2 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.0717 # _reflns.entry_id 1XYI _reflns.observed_criterion_sigma_F 0 _reflns.observed_criterion_sigma_I 1 _reflns.d_resolution_high 1.45 _reflns.d_resolution_low 30 _reflns.number_all 17294 _reflns.number_obs 17190 _reflns.percent_possible_obs 99.4 _reflns.pdbx_Rmerge_I_obs 0.047 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 33.7 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 5.4 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.45 _reflns_shell.d_res_low 1.5 _reflns_shell.percent_possible_all 99.1 _reflns_shell.Rmerge_I_obs 0.395 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 3.5 _reflns_shell.pdbx_redundancy 4.88 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 1712 _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 1XYI _refine.ls_d_res_high 1.45 _refine.ls_d_res_low 30 _refine.pdbx_ls_sigma_F 0 _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all 17294 _refine.ls_number_reflns_obs 16568 _refine.ls_number_reflns_R_free 808 _refine.ls_percent_reflns_obs 95.8 _refine.ls_R_factor_all 0.216 _refine.ls_R_factor_obs 0.216 _refine.ls_R_factor_R_work 0.214 _refine.ls_R_factor_R_free 0.255 _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 1XYI _refine_analyze.Luzzati_coordinate_error_obs 0.19 _refine_analyze.Luzzati_sigma_a_obs 0.16 _refine_analyze.Luzzati_d_res_low_obs 5.0 _refine_analyze.Luzzati_coordinate_error_free 0.23 _refine_analyze.Luzzati_sigma_a_free 0.15 _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 520 _refine_hist.pdbx_number_atoms_nucleic_acid 322 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 207 _refine_hist.number_atoms_total 1049 _refine_hist.d_res_high 1.45 _refine_hist.d_res_low 30 # 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 0.017 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.9 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used ? _refine_ls_shell.d_res_high 1.45 _refine_ls_shell.d_res_low 1.50 _refine_ls_shell.number_reflns_R_work ? _refine_ls_shell.R_factor_R_work 0.301 _refine_ls_shell.percent_reflns_obs 85.6 _refine_ls_shell.R_factor_R_free 0.329 _refine_ls_shell.R_factor_R_free_error 0.014 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 88 _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 1XYI _struct.title 'Hyperthermophile chromosomal protein Sac7d double mutant Val26Ala/Met29Ala in complex with DNA GCGATCGC' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1XYI _struct_keywords.pdbx_keywords 'STRUCTURAL PROTEIN/DNA' _struct_keywords.text 'PROTEIN-DNA COMPLEX, Oligonucleotide binding fold, STRUCTURAL 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 ? # 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 ? ARG C 63 ? PRO A 51 ARG A 63 1 ? 13 # _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 ? ALA C 26 ? ILE A 20 ALA A 26 B 2 ALA C 29 ? ASP C 36 ? ALA 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 TRP C 24 ? N TRP A 24 O SER C 31 ? O SER A 31 B 2 3 N PHE C 32 ? N PHE A 32 O GLY C 43 ? O GLY A 43 # _database_PDB_matrix.entry_id 1XYI _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 1XYI _atom_sites.fract_transf_matrix[1][1] 0.026469 _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] 0.021155 _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] 0.018993 _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 1 MET GLY 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 ALA 26 26 26 ALA ALA 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 ALA 29 29 29 ALA ALA 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 ALA 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 1 256 256 HOH TIP B . D 3 HOH 2 261 261 HOH TIP B . D 3 HOH 3 262 262 HOH TIP B . D 3 HOH 4 263 263 HOH TIP B . D 3 HOH 5 264 264 HOH TIP B . D 3 HOH 6 269 269 HOH TIP B . D 3 HOH 7 272 272 HOH TIP B . D 3 HOH 8 273 273 HOH TIP B . D 3 HOH 9 274 274 HOH TIP B . D 3 HOH 10 277 277 HOH TIP B . D 3 HOH 11 280 280 HOH TIP B . D 3 HOH 12 282 282 HOH TIP B . D 3 HOH 13 284 284 HOH TIP B . D 3 HOH 14 291 291 HOH TIP B . D 3 HOH 15 292 292 HOH TIP B . D 3 HOH 16 293 293 HOH TIP B . D 3 HOH 17 294 294 HOH TIP B . D 3 HOH 18 299 299 HOH TIP B . D 3 HOH 19 300 300 HOH TIP B . D 3 HOH 20 307 307 HOH TIP B . D 3 HOH 21 308 308 HOH TIP B . D 3 HOH 22 309 309 HOH TIP B . D 3 HOH 23 312 312 HOH TIP B . D 3 HOH 24 348 348 HOH TIP B . D 3 HOH 25 349 349 HOH TIP B . D 3 HOH 26 351 351 HOH TIP B . D 3 HOH 27 352 352 HOH TIP B . D 3 HOH 28 354 354 HOH TIP B . D 3 HOH 29 355 355 HOH TIP B . D 3 HOH 30 378 378 HOH TIP B . D 3 HOH 31 380 380 HOH TIP B . D 3 HOH 32 381 381 HOH TIP B . D 3 HOH 33 384 384 HOH TIP B . D 3 HOH 34 390 390 HOH TIP B . D 3 HOH 35 393 393 HOH TIP B . D 3 HOH 36 397 397 HOH TIP B . D 3 HOH 37 398 398 HOH TIP B . E 3 HOH 1 202 202 HOH TIP C . E 3 HOH 2 206 206 HOH TIP C . E 3 HOH 3 207 207 HOH TIP C . E 3 HOH 4 214 214 HOH TIP C . E 3 HOH 5 265 265 HOH TIP C . E 3 HOH 6 266 266 HOH TIP C . E 3 HOH 7 267 267 HOH TIP C . E 3 HOH 8 268 268 HOH TIP C . E 3 HOH 9 270 270 HOH TIP C . E 3 HOH 10 271 271 HOH TIP C . E 3 HOH 11 275 275 HOH TIP C . E 3 HOH 12 276 276 HOH TIP C . E 3 HOH 13 278 278 HOH TIP C . E 3 HOH 14 279 279 HOH TIP C . E 3 HOH 15 281 281 HOH TIP C . E 3 HOH 16 289 289 HOH TIP C . E 3 HOH 17 313 313 HOH TIP C . E 3 HOH 18 342 342 HOH TIP C . E 3 HOH 19 344 344 HOH TIP C . E 3 HOH 20 356 356 HOH TIP C . E 3 HOH 21 364 364 HOH TIP C . E 3 HOH 22 366 366 HOH TIP C . E 3 HOH 23 367 367 HOH TIP C . E 3 HOH 24 368 368 HOH TIP C . E 3 HOH 25 369 369 HOH TIP C . E 3 HOH 26 370 370 HOH TIP C . E 3 HOH 27 376 376 HOH TIP C . E 3 HOH 28 377 377 HOH TIP C . E 3 HOH 29 379 379 HOH TIP C . E 3 HOH 30 399 399 HOH TIP C . E 3 HOH 31 400 400 HOH TIP C . F 3 HOH 1 201 201 HOH TIP A . F 3 HOH 2 203 203 HOH TIP A . F 3 HOH 3 204 204 HOH TIP A . F 3 HOH 4 205 205 HOH TIP A . F 3 HOH 5 208 208 HOH TIP A . F 3 HOH 6 209 209 HOH TIP A . F 3 HOH 7 210 210 HOH TIP A . F 3 HOH 8 211 211 HOH TIP A . F 3 HOH 9 212 212 HOH TIP A . F 3 HOH 10 213 213 HOH TIP A . F 3 HOH 11 215 215 HOH TIP A . F 3 HOH 12 216 216 HOH TIP A . F 3 HOH 13 217 217 HOH TIP A . F 3 HOH 14 218 218 HOH TIP A . F 3 HOH 15 219 219 HOH TIP A . F 3 HOH 16 220 220 HOH TIP A . F 3 HOH 17 221 221 HOH TIP A . F 3 HOH 18 222 222 HOH TIP A . F 3 HOH 19 223 223 HOH TIP A . F 3 HOH 20 224 224 HOH TIP A . F 3 HOH 21 225 225 HOH TIP A . F 3 HOH 22 226 226 HOH TIP A . F 3 HOH 23 227 227 HOH TIP A . F 3 HOH 24 228 228 HOH TIP A . F 3 HOH 25 229 229 HOH TIP A . F 3 HOH 26 230 230 HOH TIP A . F 3 HOH 27 231 231 HOH TIP A . F 3 HOH 28 232 232 HOH TIP A . F 3 HOH 29 233 233 HOH TIP A . F 3 HOH 30 234 234 HOH TIP A . F 3 HOH 31 235 235 HOH TIP A . F 3 HOH 32 236 236 HOH TIP A . F 3 HOH 33 237 237 HOH TIP A . F 3 HOH 34 238 238 HOH TIP A . F 3 HOH 35 239 239 HOH TIP A . F 3 HOH 36 240 240 HOH TIP A . F 3 HOH 37 241 241 HOH TIP A . F 3 HOH 38 242 242 HOH TIP A . F 3 HOH 39 243 243 HOH TIP A . F 3 HOH 40 244 244 HOH TIP A . F 3 HOH 41 245 245 HOH TIP A . F 3 HOH 42 246 246 HOH TIP A . F 3 HOH 43 247 247 HOH TIP A . F 3 HOH 44 248 248 HOH TIP A . F 3 HOH 45 249 249 HOH TIP A . F 3 HOH 46 250 250 HOH TIP A . F 3 HOH 47 251 251 HOH TIP A . F 3 HOH 48 252 252 HOH TIP A . F 3 HOH 49 253 253 HOH TIP A . F 3 HOH 50 254 254 HOH TIP A . F 3 HOH 51 255 255 HOH TIP A . F 3 HOH 52 257 257 HOH TIP A . F 3 HOH 53 258 258 HOH TIP A . F 3 HOH 54 259 259 HOH TIP A . F 3 HOH 55 260 260 HOH TIP A . F 3 HOH 56 283 283 HOH TIP A . F 3 HOH 57 285 285 HOH TIP A . F 3 HOH 58 286 286 HOH TIP A . F 3 HOH 59 287 287 HOH TIP A . F 3 HOH 60 288 288 HOH TIP A . F 3 HOH 61 290 290 HOH TIP A . F 3 HOH 62 295 295 HOH TIP A . F 3 HOH 63 296 296 HOH TIP A . F 3 HOH 64 297 297 HOH TIP A . F 3 HOH 65 298 298 HOH TIP A . F 3 HOH 66 301 301 HOH TIP A . F 3 HOH 67 302 302 HOH TIP A . F 3 HOH 68 303 303 HOH TIP A . F 3 HOH 69 304 304 HOH TIP A . F 3 HOH 70 305 305 HOH TIP A . F 3 HOH 71 306 306 HOH TIP A . F 3 HOH 72 310 310 HOH TIP A . F 3 HOH 73 311 311 HOH TIP A . F 3 HOH 74 314 314 HOH TIP A . F 3 HOH 75 315 315 HOH TIP A . F 3 HOH 76 316 316 HOH TIP A . F 3 HOH 77 317 317 HOH TIP A . F 3 HOH 78 318 318 HOH TIP A . F 3 HOH 79 319 319 HOH TIP A . F 3 HOH 80 320 320 HOH TIP A . F 3 HOH 81 321 321 HOH TIP A . F 3 HOH 82 322 322 HOH TIP A . F 3 HOH 83 323 323 HOH TIP A . F 3 HOH 84 324 324 HOH TIP A . F 3 HOH 85 325 325 HOH TIP A . F 3 HOH 86 326 326 HOH TIP A . F 3 HOH 87 327 327 HOH TIP A . F 3 HOH 88 328 328 HOH TIP A . F 3 HOH 89 329 329 HOH TIP A . F 3 HOH 90 330 330 HOH TIP A . F 3 HOH 91 331 331 HOH TIP A . F 3 HOH 92 332 332 HOH TIP A . F 3 HOH 93 333 333 HOH TIP A . F 3 HOH 94 334 334 HOH TIP A . F 3 HOH 95 335 335 HOH TIP A . F 3 HOH 96 336 336 HOH TIP A . F 3 HOH 97 337 337 HOH TIP A . F 3 HOH 98 338 338 HOH TIP A . F 3 HOH 99 339 339 HOH TIP A . F 3 HOH 100 340 340 HOH TIP A . F 3 HOH 101 341 341 HOH TIP A . F 3 HOH 102 343 343 HOH TIP A . F 3 HOH 103 345 345 HOH TIP A . F 3 HOH 104 346 346 HOH TIP A . F 3 HOH 105 347 347 HOH TIP A . F 3 HOH 106 350 350 HOH TIP A . F 3 HOH 107 353 353 HOH TIP A . F 3 HOH 108 357 357 HOH TIP A . F 3 HOH 109 358 358 HOH TIP A . F 3 HOH 110 359 359 HOH TIP A . F 3 HOH 111 360 360 HOH TIP A . F 3 HOH 112 361 361 HOH TIP A . F 3 HOH 113 362 362 HOH TIP A . F 3 HOH 114 363 363 HOH TIP A . F 3 HOH 115 365 365 HOH TIP A . F 3 HOH 116 371 371 HOH TIP A . F 3 HOH 117 372 372 HOH TIP A . F 3 HOH 118 373 373 HOH TIP A . F 3 HOH 119 374 374 HOH TIP A . F 3 HOH 120 375 375 HOH TIP A . F 3 HOH 121 382 382 HOH TIP A . F 3 HOH 122 383 383 HOH TIP A . F 3 HOH 123 385 385 HOH TIP A . F 3 HOH 124 386 386 HOH TIP A . F 3 HOH 125 387 387 HOH TIP A . F 3 HOH 126 388 388 HOH TIP A . F 3 HOH 127 389 389 HOH TIP A . F 3 HOH 128 391 391 HOH TIP A . F 3 HOH 129 392 392 HOH TIP A . F 3 HOH 130 394 394 HOH TIP A . F 3 HOH 131 395 395 HOH TIP A . F 3 HOH 132 396 396 HOH TIP A . F 3 HOH 133 401 401 HOH TIP A . F 3 HOH 134 402 402 HOH TIP A . F 3 HOH 135 403 403 HOH TIP A . F 3 HOH 136 404 404 HOH TIP A . F 3 HOH 137 405 405 HOH TIP A . F 3 HOH 138 406 406 HOH TIP A . F 3 HOH 139 407 407 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 2005-02-08 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' Advisory 4 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' pdbx_validate_close_contact 3 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' '_pdbx_validate_close_contact.auth_asym_id_1' 4 4 'Structure model' '_pdbx_validate_close_contact.auth_asym_id_2' 5 4 'Structure model' '_pdbx_validate_close_contact.auth_seq_id_1' 6 4 'Structure model' '_pdbx_validate_close_contact.auth_seq_id_2' 7 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 # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O C HOH 289 ? ? O C HOH 344 ? ? 1.81 2 1 O C HOH 344 ? ? O A HOH 215 ? ? 1.96 3 1 OE2 A GLU 12 ? ? O A HOH 335 ? ? 2.09 4 1 O B HOH 264 ? ? O C HOH 265 ? ? 2.18 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 "O3'" _pdbx_validate_rmsd_bond.auth_asym_id_1 C _pdbx_validate_rmsd_bond.auth_comp_id_1 DC _pdbx_validate_rmsd_bond.auth_seq_id_1 114 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 "C3'" _pdbx_validate_rmsd_bond.auth_asym_id_2 C _pdbx_validate_rmsd_bond.auth_comp_id_2 DC _pdbx_validate_rmsd_bond.auth_seq_id_2 114 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.365 _pdbx_validate_rmsd_bond.bond_target_value 1.419 _pdbx_validate_rmsd_bond.bond_deviation -0.054 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.006 _pdbx_validate_rmsd_bond.linker_flag N # 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 "O5'" C DG 109 ? ? "C5'" C DG 109 ? ? "C4'" C DG 109 ? ? 104.49 109.40 -4.91 0.80 N 2 1 "C5'" C DC 110 ? ? "C4'" C DC 110 ? ? "C3'" C DC 110 ? ? 99.06 114.10 -15.04 1.80 N 3 1 NE A ARG 42 ? ? CZ A ARG 42 ? ? NH2 A ARG 42 ? ? 117.11 120.30 -3.19 0.50 N # 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 ? ? 0.098 'SIDE CHAIN' 2 1 DC B 108 ? ? 0.081 'SIDE CHAIN' 3 1 DC C 110 ? ? 0.065 'SIDE CHAIN' # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A MET 1 ? CB ? C MET 1 CB 2 1 Y 1 A MET 1 ? CG ? C MET 1 CG 3 1 Y 1 A MET 1 ? SD ? C MET 1 SD 4 1 Y 1 A MET 1 ? CE ? C MET 1 CE 5 1 Y 1 A LYS 39 ? CG ? C LYS 39 CG 6 1 Y 1 A LYS 39 ? CD ? C LYS 39 CD 7 1 Y 1 A LYS 39 ? CE ? C LYS 39 CE 8 1 Y 1 A LYS 39 ? NZ ? C LYS 39 NZ # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1XYI 'double helix' 1XYI '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 -0.255 -0.157 -0.091 -6.900 -0.722 -1.891 1 B_DG101:DC116_C B 101 ? C 116 ? 19 1 1 A DC 2 1_555 B DG 7 1_555 0.179 -0.204 0.133 -1.629 -5.149 -2.462 2 B_DC102:DG115_C B 102 ? C 115 ? 19 1 1 A DG 3 1_555 B DC 6 1_555 -0.138 -0.181 -0.181 -0.217 -20.819 1.891 3 B_DG103:DC114_C B 103 ? C 114 ? 19 1 1 A DA 4 1_555 B DT 5 1_555 0.052 -0.045 -0.281 -4.726 -4.342 -4.341 4 B_DA104:DT113_C B 104 ? C 113 ? 20 1 1 A DT 5 1_555 B DA 4 1_555 -0.041 -0.107 0.002 3.523 -8.273 4.941 5 B_DT105:DA112_C B 105 ? C 112 ? 20 1 1 A DC 6 1_555 B DG 3 1_555 0.068 -0.103 -0.178 9.448 -7.275 -1.961 6 B_DC106:DG111_C B 106 ? C 111 ? 19 1 1 A DG 7 1_555 B DC 2 1_555 -0.092 -0.145 0.356 1.802 -11.920 -3.514 7 B_DG107:DC110_C B 107 ? C 110 ? 19 1 1 A DC 8 1_555 B DG 1 1_555 0.187 -0.198 -0.387 3.621 10.824 -2.512 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 -0.809 -0.373 3.214 -2.130 -0.515 29.065 -0.629 1.146 3.270 -1.025 4.236 29.146 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 0.128 0.359 3.315 0.957 11.000 32.092 -1.214 -0.060 3.261 19.202 -1.671 33.891 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 -0.205 0.745 3.987 -1.824 29.019 25.956 -3.660 0.009 3.254 49.010 3.080 38.789 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 1.000 -0.281 3.237 -2.881 11.559 25.256 -3.226 -2.734 2.721 24.755 6.169 27.884 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 -0.774 0.117 3.273 4.926 2.491 33.688 -0.189 2.088 3.132 4.263 -8.428 34.124 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 -0.297 0.665 3.519 -4.667 0.739 42.186 0.838 -0.103 3.542 1.023 6.459 42.438 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 1.296 0.498 3.455 4.581 -10.547 33.790 2.441 -1.412 3.299 -17.527 -7.613 35.639 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 #