data_6UDN # _entry.id 6UDN # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.380 _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 6UDN pdb_00006udn 10.2210/pdb6udn/pdb WWPDB D_1000244413 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.details _pdbx_database_related.db_id _pdbx_database_related.content_type PDB . 6U40 unspecified PDB . 6UAL unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6UDN _pdbx_database_status.recvd_initial_deposition_date 2019-09-19 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Simmons, C.R.' 1 ? 'MacCulloch, T.' 2 ? 'Stephanopoulos, N.' 3 ? 'Yan, H.' 4 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country GE _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Angew.Chem.Int.Ed.Engl. _citation.journal_id_ASTM ACIEAY _citation.journal_id_CSD 0179 _citation.journal_id_ISSN 1521-3773 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 59 _citation.language ? _citation.page_first 18619 _citation.page_last 18626 _citation.title 'A Self-Assembled Rhombohedral DNA Crystal Scaffold with Tunable Cavity Sizes and High-Resolution Structural Detail.' _citation.year 2020 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1002/anie.202005505 _citation.pdbx_database_id_PubMed 32533629 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Simmons, C.R.' 1 0000-0002-2290-6132 primary 'MacCulloch, T.' 2 0000-0001-5875-3361 primary 'Zhang, F.' 3 0000-0002-3177-7547 primary 'Liu, Y.' 4 ? primary 'Stephanopoulos, N.' 5 0000-0001-7859-410X primary 'Yan, H.' 6 0000-0001-7397-9852 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 120.000 _cell.angle_gamma_esd ? _cell.entry_id 6UDN _cell.details ? _cell.formula_units_Z ? _cell.length_a 116.091 _cell.length_a_esd ? _cell.length_b 116.091 _cell.length_b_esd ? _cell.length_c 45.001 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 9 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6UDN _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3' _symmetry.pdbx_full_space_group_name_H-M ? # 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 ;DNA (5'-D(*TP*AP*CP*TP*GP*AP*CP*TP*CP*AP*TP*GP*CP*TP*CP*AP*TP*CP*TP*GP*A)-3') ; 6373.134 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(P*AP*GP*CP*AP*TP*GP*A)-3') ; 2146.449 1 ? ? ? ? 3 polymer syn ;DNA (5'-D(*TP*AP*TP*CP*AP*GP*AP*TP*G)-3') ; 2754.835 1 ? ? ? ? 4 polymer syn ;DNA (5'-D(P*GP*TP*CP*AP*G)-3') ; 1520.036 1 ? ? ? ? 5 non-polymer syn ARSENIC 74.922 2 ? ? ? ? # 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 ;(DT)(DA)(DC)(DT)(DG)(DA)(DC)(DT)(DC)(DA)(DT)(DG)(DC)(DT)(DC)(DA)(DT)(DC)(DT)(DG) (DA) ; TACTGACTCATGCTCATCTGA B ? 2 polydeoxyribonucleotide no no '(DA)(DG)(DC)(DA)(DT)(DG)(DA)' AGCATGA A ? 3 polydeoxyribonucleotide no no '(DT)(DA)(DT)(DC)(DA)(DG)(DA)(DT)(DG)' TATCAGATG C ? 4 polydeoxyribonucleotide no no '(DG)(DT)(DC)(DA)(DG)' GTCAG D ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DT n 1 2 DA n 1 3 DC n 1 4 DT n 1 5 DG n 1 6 DA n 1 7 DC n 1 8 DT n 1 9 DC n 1 10 DA n 1 11 DT n 1 12 DG n 1 13 DC n 1 14 DT n 1 15 DC n 1 16 DA n 1 17 DT n 1 18 DC n 1 19 DT n 1 20 DG n 1 21 DA n 2 1 DA n 2 2 DG n 2 3 DC n 2 4 DA n 2 5 DT n 2 6 DG n 2 7 DA n 3 1 DT n 3 2 DA n 3 3 DT n 3 4 DC n 3 5 DA n 3 6 DG n 3 7 DA n 3 8 DT n 3 9 DG n 4 1 DG n 4 2 DT n 4 3 DC n 4 4 DA n 4 5 DG n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample 1 21 'synthetic construct' ? 32630 ? 2 1 sample 1 7 'synthetic construct' ? 32630 ? 3 1 sample 1 9 'synthetic construct' ? 32630 ? 4 1 sample 1 5 'synthetic construct' ? 32630 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 6UDN 6UDN ? 1 ? 1 2 PDB 6UDN 6UDN ? 2 ? 1 3 PDB 6UDN 6UDN ? 3 ? 1 4 PDB 6UDN 6UDN ? 4 ? 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 6UDN B 1 ? 21 ? 6UDN 5 ? 25 ? 5 25 2 2 6UDN A 1 ? 7 ? 6UDN 65 ? 71 ? 65 71 3 3 6UDN C 1 ? 9 ? 6UDN 56 ? 64 ? 56 64 4 4 6UDN D 1 ? 5 ? 6UDN 72 ? 76 ? 72 76 # 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 ARS non-polymer . ARSENIC ? As 74.922 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 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 6UDN _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 4.56 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 73.03 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details 'Temperature gradient generated from 60 to 25 C at 0.3 degrees per hour' _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;0.5 mL of 0.05 M cacodylate pH 6.0 with 20 mM MgCl2, 1.0 mM spermine, and 15% ethanol was added to the reservoir with 2 uL added to the drop containing 4 uL of DNA stock. ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS PILATUS3 6M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2019-04-15 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.0 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'ALS BEAMLINE 5.0.2' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.0 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 5.0.2 _diffrn_source.pdbx_synchrotron_site ALS # _reflns.B_iso_Wilson_estimate 94.740 _reflns.entry_id 6UDN _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.600 _reflns.d_resolution_low 50.000 _reflns.details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_obs 6933 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 99.900 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 10.000 _reflns.pdbx_Rmerge_I_obs 0.094 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 10.900 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 2.659 _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all 0.100 _reflns.pdbx_Rpim_I_all 0.032 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all 69622 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.meanI_over_sigI_all _reflns_shell.meanI_over_sigI_obs _reflns_shell.number_measured_all _reflns_shell.number_measured_obs _reflns_shell.number_possible _reflns_shell.number_unique_all _reflns_shell.number_unique_obs _reflns_shell.percent_possible_all _reflns_shell.percent_possible_obs _reflns_shell.Rmerge_F_all _reflns_shell.Rmerge_F_obs _reflns_shell.Rmerge_I_all _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_gt _reflns_shell.meanI_over_uI_all _reflns_shell.meanI_over_uI_gt _reflns_shell.number_measured_gt _reflns_shell.number_unique_gt _reflns_shell.percent_possible_gt _reflns_shell.Rmerge_F_gt _reflns_shell.Rmerge_I_gt _reflns_shell.pdbx_redundancy _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_netI_over_sigmaI_all _reflns_shell.pdbx_netI_over_sigmaI_obs _reflns_shell.pdbx_Rrim_I_all _reflns_shell.pdbx_Rpim_I_all _reflns_shell.pdbx_rejects _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_CC_half _reflns_shell.pdbx_CC_star _reflns_shell.pdbx_R_split 2.600 2.640 ? ? ? ? ? ? 367 100.000 ? ? ? ? 0.994 ? ? ? ? ? ? ? ? 9.800 ? 0.440 ? ? 1.050 0.334 ? 1 1 0.754 ? ? 2.640 2.690 ? ? ? ? ? ? 302 100.000 ? ? ? ? 0.724 ? ? ? ? ? ? ? ? 9.600 ? 0.445 ? ? 0.765 0.246 ? 2 1 0.852 ? ? 2.690 2.740 ? ? ? ? ? ? 388 100.000 ? ? ? ? 0.634 ? ? ? ? ? ? ? ? 9.500 ? 0.465 ? ? 0.670 0.217 ? 3 1 0.871 ? ? 2.740 2.800 ? ? ? ? ? ? 312 100.000 ? ? ? ? 0.457 ? ? ? ? ? ? ? ? 9.900 ? 0.481 ? ? 0.481 0.152 ? 4 1 0.914 ? ? 2.800 2.860 ? ? ? ? ? ? 368 100.000 ? ? ? ? 0.442 ? ? ? ? ? ? ? ? 10.000 ? 0.501 ? ? 0.466 0.147 ? 5 1 0.945 ? ? 2.860 2.930 ? ? ? ? ? ? 341 100.000 ? ? ? ? 0.312 ? ? ? ? ? ? ? ? 10.400 ? 0.538 ? ? 0.328 0.101 ? 6 1 0.975 ? ? 2.930 3.000 ? ? ? ? ? ? 341 100.000 ? ? ? ? 0.232 ? ? ? ? ? ? ? ? 10.500 ? 0.604 ? ? 0.244 0.075 ? 7 1 0.984 ? ? 3.000 3.080 ? ? ? ? ? ? 330 100.000 ? ? ? ? 0.169 ? ? ? ? ? ? ? ? 10.200 ? 0.935 ? ? 0.178 0.055 ? 8 1 0.994 ? ? 3.080 3.170 ? ? ? ? ? ? 361 100.000 ? ? ? ? 0.128 ? ? ? ? ? ? ? ? 10.200 ? 1.518 ? ? 0.135 0.042 ? 9 1 0.994 ? ? 3.170 3.280 ? ? ? ? ? ? 363 100.000 ? ? ? ? 0.100 ? ? ? ? ? ? ? ? 9.600 ? 2.609 ? ? 0.107 0.036 ? 10 1 0.992 ? ? 3.280 3.390 ? ? ? ? ? ? 317 99.100 ? ? ? ? 0.125 ? ? ? ? ? ? ? ? 9.400 ? 2.756 ? ? 0.134 0.046 ? 11 1 0.995 ? ? 3.390 3.530 ? ? ? ? ? ? 365 99.700 ? ? ? ? 0.101 ? ? ? ? ? ? ? ? 9.900 ? 3.298 ? ? 0.106 0.034 ? 12 1 0.995 ? ? 3.530 3.690 ? ? ? ? ? ? 340 100.000 ? ? ? ? 0.106 ? ? ? ? ? ? ? ? 10.500 ? 3.472 ? ? 0.111 0.034 ? 13 1 0.994 ? ? 3.690 3.880 ? ? ? ? ? ? 354 100.000 ? ? ? ? 0.098 ? ? ? ? ? ? ? ? 10.400 ? 3.573 ? ? 0.103 0.032 ? 14 1 0.995 ? ? 3.880 4.130 ? ? ? ? ? ? 353 100.000 ? ? ? ? 0.094 ? ? ? ? ? ? ? ? 10.300 ? 4.201 ? ? 0.099 0.031 ? 15 1 0.995 ? ? 4.130 4.450 ? ? ? ? ? ? 353 100.000 ? ? ? ? 0.087 ? ? ? ? ? ? ? ? 9.700 ? 4.130 ? ? 0.092 0.029 ? 16 1 0.994 ? ? 4.450 4.890 ? ? ? ? ? ? 342 100.000 ? ? ? ? 0.093 ? ? ? ? ? ? ? ? 10.300 ? 4.648 ? ? 0.098 0.030 ? 17 1 0.994 ? ? 4.890 5.600 ? ? ? ? ? ? 346 100.000 ? ? ? ? 0.089 ? ? ? ? ? ? ? ? 10.600 ? 5.238 ? ? 0.094 0.029 ? 18 1 0.992 ? ? 5.600 7.050 ? ? ? ? ? ? 337 100.000 ? ? ? ? 0.086 ? ? ? ? ? ? ? ? 9.800 ? 4.912 ? ? 0.090 0.029 ? 19 1 0.995 ? ? 7.050 50.000 ? ? ? ? ? ? 353 99.700 ? ? ? ? 0.087 ? ? ? ? ? ? ? ? 10.100 ? 7.895 ? ? 0.092 0.030 ? 20 1 0.991 ? ? # _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.B_iso_max 162.020 _refine.B_iso_mean 101.7290 _refine.B_iso_min 54.740 _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 6UDN _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 2.6020 _refine.ls_d_res_low 23.7030 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 6866 _refine.ls_number_reflns_R_free 347 _refine.ls_number_reflns_R_work 6519 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.0500 _refine.ls_percent_reflns_R_free 5.0500 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2350 _refine.ls_R_factor_R_free 0.2556 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2339 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.030 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 6U40 _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 37.6900 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.3200 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id final _refine_hist.details ? _refine_hist.d_res_high 2.6020 _refine_hist.d_res_low 23.7030 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 857 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total 42 _refine_hist.pdbx_B_iso_mean_ligand 141.01 _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 855 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.006 ? 956 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 0.847 ? 1467 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.050 ? 166 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.005 ? 42 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 37.857 ? 406 ? f_dihedral_angle_d ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 2.6020 3.2769 . . 172 3254 99.0000 . . . 0.3593 0.0000 0.3376 . . . . . . . . . . . 'X-RAY DIFFRACTION' 3.2769 23.7030 . . 175 3265 99.0000 . . . 0.2362 0.0000 0.2166 . . . . . . . . . . . # _struct.entry_id 6UDN _struct.title 'Crystal Structure of a Self-Assembling DNA Scaffold Containing TA Sticky Ends and Rhombohedral Symmetry' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 6UDN _struct_keywords.text 'Self-Assembly, DNA Nanotechnology, DNA Scaffold, Crystal Lattice, DNA' _struct_keywords.pdbx_keywords DNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 4 ? E N N 5 ? F N N 5 ? # 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 DC 3 N3 ? ? ? 1_555 D DG 5 N1 ? ? B DC 7 D DG 76 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 3 N4 ? ? ? 1_555 D DG 5 O6 ? ? B DC 7 D DG 76 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 3 O2 ? ? ? 1_555 D DG 5 N2 ? ? B DC 7 D DG 76 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DT 4 N3 ? ? ? 1_555 D DA 4 N1 ? ? B DT 8 D DA 75 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DT 4 O4 ? ? ? 1_555 D DA 4 N6 ? ? B DT 8 D DA 75 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 5 N1 ? ? ? 1_555 D DC 3 N3 ? ? B DG 9 D DC 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 5 N2 ? ? ? 1_555 D DC 3 O2 ? ? B DG 9 D DC 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 5 O6 ? ? ? 1_555 D DC 3 N4 ? ? B DG 9 D DC 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DA 6 N1 ? ? ? 1_555 D DT 2 N3 ? ? B DA 10 D DT 73 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 6 N6 ? ? ? 1_555 D DT 2 O4 ? ? B DA 10 D DT 73 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 7 N3 ? ? ? 1_555 D DG 1 N1 ? ? B DC 11 D DG 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 7 N4 ? ? ? 1_555 D DG 1 O6 ? ? B DC 11 D DG 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 7 O2 ? ? ? 1_555 D DG 1 N2 ? ? B DC 11 D DG 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 7 N1 ? ? B DT 12 A DA 71 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 7 N6 ? ? B DT 12 A DA 71 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 6 N1 ? ? B DC 13 A DG 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 6 O6 ? ? B DC 13 A DG 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 6 N2 ? ? B DC 13 A DG 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DA 10 N1 ? ? ? 1_555 B DT 5 N3 ? ? B DA 14 A DT 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DA 10 N6 ? ? ? 1_555 B DT 5 O4 ? ? B DA 14 A DT 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DT 11 N3 ? ? ? 1_555 B DA 4 N1 ? ? B DT 15 A DA 68 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DT 11 O4 ? ? ? 1_555 B DA 4 N6 ? ? B DT 15 A DA 68 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 3 N3 ? ? B DG 16 A DC 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 3 O2 ? ? B DG 16 A DC 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 3 N4 ? ? B DG 16 A DC 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DC 13 N3 ? ? ? 1_555 B DG 2 N1 ? ? B DC 17 A DG 66 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 13 N4 ? ? ? 1_555 B DG 2 O6 ? ? B DC 17 A DG 66 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 13 O2 ? ? ? 1_555 B DG 2 N2 ? ? B DC 17 A DG 66 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DT 14 N3 ? ? ? 1_555 B DA 1 N1 ? ? B DT 18 A DA 65 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DT 14 O4 ? ? ? 1_555 B DA 1 N6 ? ? B DT 18 A DA 65 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DC 15 N3 ? ? ? 1_555 C DG 9 N1 ? ? B DC 19 C DG 64 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DC 15 N4 ? ? ? 1_555 C DG 9 O6 ? ? B DC 19 C DG 64 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A DC 15 O2 ? ? ? 1_555 C DG 9 N2 ? ? B DC 19 C DG 64 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A DA 16 N1 ? ? ? 1_555 C DT 8 N3 ? ? B DA 20 C DT 63 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A DA 16 N6 ? ? ? 1_555 C DT 8 O4 ? ? B DA 20 C DT 63 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A DT 17 N3 ? ? ? 1_555 C DA 7 N1 ? ? B DT 21 C DA 62 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A DT 17 O4 ? ? ? 1_555 C DA 7 N6 ? ? B DT 21 C DA 62 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A DC 18 N3 ? ? ? 1_555 C DG 6 N1 ? ? B DC 22 C DG 61 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A DC 18 N4 ? ? ? 1_555 C DG 6 O6 ? ? B DC 22 C DG 61 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A DC 18 O2 ? ? ? 1_555 C DG 6 N2 ? ? B DC 22 C DG 61 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A DT 19 N3 ? ? ? 1_555 C DA 5 N1 ? ? B DT 23 C DA 60 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A DT 19 O4 ? ? ? 1_555 C DA 5 N6 ? ? B DT 23 C DA 60 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A DG 20 N1 ? ? ? 1_555 C DC 4 N3 ? ? B DG 24 C DC 59 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A DG 20 N2 ? ? ? 1_555 C DC 4 O2 ? ? B DG 24 C DC 59 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? A DG 20 O6 ? ? ? 1_555 C DC 4 N4 ? ? B DG 24 C DC 59 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? A DA 21 N1 ? ? ? 1_555 C DT 3 N3 ? ? B DA 25 C DT 58 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? A DA 21 N6 ? ? ? 1_555 C DT 3 O4 ? ? B DA 25 C DT 58 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id D _struct_site.pdbx_auth_comp_id ARS _struct_site.pdbx_auth_seq_id 101 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 1 _struct_site.details 'binding site for residue ARS D 101' # _struct_site_gen.id 1 _struct_site_gen.site_id AC1 _struct_site_gen.pdbx_num_res 1 _struct_site_gen.label_comp_id DG _struct_site_gen.label_asym_id C _struct_site_gen.label_seq_id 9 _struct_site_gen.pdbx_auth_ins_code ? _struct_site_gen.auth_comp_id DG _struct_site_gen.auth_asym_id C _struct_site_gen.auth_seq_id 64 _struct_site_gen.label_atom_id . _struct_site_gen.label_alt_id ? _struct_site_gen.symmetry 6_445 _struct_site_gen.details ? # _atom_sites.entry_id 6UDN _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 0.008614 _atom_sites.fract_transf_matrix[1][2] 0.004973 _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] 0.009947 _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] 0.022222 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol AS C H MG N O P # 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 DT 1 5 5 DT DT B . n A 1 2 DA 2 6 6 DA DA B . n A 1 3 DC 3 7 7 DC DC B . n A 1 4 DT 4 8 8 DT DT B . n A 1 5 DG 5 9 9 DG DG B . n A 1 6 DA 6 10 10 DA DA B . n A 1 7 DC 7 11 11 DC DC B . n A 1 8 DT 8 12 12 DT DT B . n A 1 9 DC 9 13 13 DC DC B . n A 1 10 DA 10 14 14 DA DA B . n A 1 11 DT 11 15 15 DT DT B . n A 1 12 DG 12 16 16 DG DG B . n A 1 13 DC 13 17 17 DC DC B . n A 1 14 DT 14 18 18 DT DT B . n A 1 15 DC 15 19 19 DC DC B . n A 1 16 DA 16 20 20 DA DA B . n A 1 17 DT 17 21 21 DT DT B . n A 1 18 DC 18 22 22 DC DC B . n A 1 19 DT 19 23 23 DT DT B . n A 1 20 DG 20 24 24 DG DG B . n A 1 21 DA 21 25 25 DA DA B . n B 2 1 DA 1 65 65 DA DA A . n B 2 2 DG 2 66 66 DG DG A . n B 2 3 DC 3 67 67 DC DC A . n B 2 4 DA 4 68 68 DA DA A . n B 2 5 DT 5 69 69 DT DT A . n B 2 6 DG 6 70 70 DG DG A . n B 2 7 DA 7 71 71 DA DA A . n C 3 1 DT 1 56 56 DT DT C . n C 3 2 DA 2 57 57 DA DA C . n C 3 3 DT 3 58 58 DT DT C . n C 3 4 DC 4 59 59 DC DC C . n C 3 5 DA 5 60 60 DA DA C . n C 3 6 DG 6 61 61 DG DG C . n C 3 7 DA 7 62 62 DA DA C . n C 3 8 DT 8 63 63 DT DT C . n C 3 9 DG 9 64 64 DG DG C . n D 4 1 DG 1 72 72 DG DG D . n D 4 2 DT 2 73 73 DT DT D . n D 4 3 DC 3 74 74 DC DC D . n D 4 4 DA 4 75 75 DA DA D . n D 4 5 DG 5 76 76 DG DG D . 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 E 5 ARS 1 101 5 ARS AS A . F 5 ARS 1 101 6 ARS AS D . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 # _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 2020-09-23 2 'Structure model' 1 1 2021-02-24 3 'Structure model' 1 2 2021-03-10 4 'Structure model' 1 3 2023-10-11 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Database references' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Refinement description' # 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 2 'Structure model' citation 2 2 'Structure model' citation_author 3 3 'Structure model' citation 4 4 'Structure model' chem_comp_atom 5 4 'Structure model' chem_comp_bond 6 4 'Structure model' database_2 7 4 'Structure model' pdbx_initial_refinement_model # 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 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_ASTM' 4 2 'Structure model' '_citation.journal_id_CSD' 5 2 'Structure model' '_citation.journal_id_ISSN' 6 2 'Structure model' '_citation.pdbx_database_id_DOI' 7 2 'Structure model' '_citation.pdbx_database_id_PubMed' 8 2 'Structure model' '_citation.title' 9 2 'Structure model' '_citation.year' 10 3 'Structure model' '_citation.journal_volume' 11 3 'Structure model' '_citation.page_first' 12 3 'Structure model' '_citation.page_last' 13 4 'Structure model' '_database_2.pdbx_DOI' 14 4 'Structure model' '_database_2.pdbx_database_accession' # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.11.1_2575 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 3 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.25 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 5 # _pdbx_entry_details.entry_id 6UDN _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest N # loop_ _pdbx_validate_symm_contact.id _pdbx_validate_symm_contact.PDB_model_num _pdbx_validate_symm_contact.auth_atom_id_1 _pdbx_validate_symm_contact.auth_asym_id_1 _pdbx_validate_symm_contact.auth_comp_id_1 _pdbx_validate_symm_contact.auth_seq_id_1 _pdbx_validate_symm_contact.PDB_ins_code_1 _pdbx_validate_symm_contact.label_alt_id_1 _pdbx_validate_symm_contact.site_symmetry_1 _pdbx_validate_symm_contact.auth_atom_id_2 _pdbx_validate_symm_contact.auth_asym_id_2 _pdbx_validate_symm_contact.auth_comp_id_2 _pdbx_validate_symm_contact.auth_seq_id_2 _pdbx_validate_symm_contact.PDB_ins_code_2 _pdbx_validate_symm_contact.label_alt_id_2 _pdbx_validate_symm_contact.site_symmetry_2 _pdbx_validate_symm_contact.dist 1 1 "O5'" B DT 5 ? ? 1_555 "O3'" B DA 25 ? ? 7_544 1.96 2 1 OP1 A DA 65 ? ? 1_555 "O3'" A DA 71 ? ? 8_444 2.09 # _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 D _pdbx_validate_rmsd_bond.auth_comp_id_1 DA _pdbx_validate_rmsd_bond.auth_seq_id_1 75 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 P _pdbx_validate_rmsd_bond.auth_asym_id_2 D _pdbx_validate_rmsd_bond.auth_comp_id_2 DG _pdbx_validate_rmsd_bond.auth_seq_id_2 76 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.527 _pdbx_validate_rmsd_bond.bond_target_value 1.607 _pdbx_validate_rmsd_bond.bond_deviation -0.080 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.012 _pdbx_validate_rmsd_bond.linker_flag Y # 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 "O4'" B DG 16 ? ? "C1'" B DG 16 ? ? N9 B DG 16 ? ? 111.18 108.30 2.88 0.30 N 2 1 "O4'" C DG 64 ? ? "C1'" C DG 64 ? ? N9 C DG 64 ? ? 110.88 108.30 2.58 0.30 N # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ARS AS AS N N 1 DA OP3 O N N 2 DA P P N N 3 DA OP1 O N N 4 DA OP2 O N N 5 DA "O5'" O N N 6 DA "C5'" C N N 7 DA "C4'" C N R 8 DA "O4'" O N N 9 DA "C3'" C N S 10 DA "O3'" O N N 11 DA "C2'" C N N 12 DA "C1'" C N R 13 DA N9 N Y N 14 DA C8 C Y N 15 DA N7 N Y N 16 DA C5 C Y N 17 DA C6 C Y N 18 DA N6 N N N 19 DA N1 N Y N 20 DA C2 C Y N 21 DA N3 N Y N 22 DA C4 C Y N 23 DA HOP3 H N N 24 DA HOP2 H N N 25 DA "H5'" H N N 26 DA "H5''" H N N 27 DA "H4'" H N N 28 DA "H3'" H N N 29 DA "HO3'" H N N 30 DA "H2'" H N N 31 DA "H2''" H N N 32 DA "H1'" H N N 33 DA H8 H N N 34 DA H61 H N N 35 DA H62 H N N 36 DA H2 H N N 37 DC OP3 O N N 38 DC P P N N 39 DC OP1 O N N 40 DC OP2 O N N 41 DC "O5'" O N N 42 DC "C5'" C N N 43 DC "C4'" C N R 44 DC "O4'" O N N 45 DC "C3'" C N S 46 DC "O3'" O N N 47 DC "C2'" C N N 48 DC "C1'" C N R 49 DC N1 N N N 50 DC C2 C N N 51 DC O2 O N N 52 DC N3 N N N 53 DC C4 C N N 54 DC N4 N N N 55 DC C5 C N N 56 DC C6 C N N 57 DC HOP3 H N N 58 DC HOP2 H N N 59 DC "H5'" H N N 60 DC "H5''" H N N 61 DC "H4'" H N N 62 DC "H3'" H N N 63 DC "HO3'" H N N 64 DC "H2'" H N N 65 DC "H2''" H N N 66 DC "H1'" H N N 67 DC H41 H N N 68 DC H42 H N N 69 DC H5 H N N 70 DC H6 H N N 71 DG OP3 O N N 72 DG P P N N 73 DG OP1 O N N 74 DG OP2 O N N 75 DG "O5'" O N N 76 DG "C5'" C N N 77 DG "C4'" C N R 78 DG "O4'" O N N 79 DG "C3'" C N S 80 DG "O3'" O N N 81 DG "C2'" C N N 82 DG "C1'" C N R 83 DG N9 N Y N 84 DG C8 C Y N 85 DG N7 N Y N 86 DG C5 C Y N 87 DG C6 C N N 88 DG O6 O N N 89 DG N1 N N N 90 DG C2 C N N 91 DG N2 N N N 92 DG N3 N N N 93 DG C4 C Y N 94 DG HOP3 H N N 95 DG HOP2 H N N 96 DG "H5'" H N N 97 DG "H5''" H N N 98 DG "H4'" H N N 99 DG "H3'" H N N 100 DG "HO3'" H N N 101 DG "H2'" H N N 102 DG "H2''" H N N 103 DG "H1'" H N N 104 DG H8 H N N 105 DG H1 H N N 106 DG H21 H N N 107 DG H22 H N N 108 DT OP3 O N N 109 DT P P N N 110 DT OP1 O N N 111 DT OP2 O N N 112 DT "O5'" O N N 113 DT "C5'" C N N 114 DT "C4'" C N R 115 DT "O4'" O N N 116 DT "C3'" C N S 117 DT "O3'" O N N 118 DT "C2'" C N N 119 DT "C1'" C N R 120 DT N1 N N N 121 DT C2 C N N 122 DT O2 O N N 123 DT N3 N N N 124 DT C4 C N N 125 DT O4 O N N 126 DT C5 C N N 127 DT C7 C N N 128 DT C6 C N N 129 DT HOP3 H N N 130 DT HOP2 H N N 131 DT "H5'" H N N 132 DT "H5''" H N N 133 DT "H4'" H N N 134 DT "H3'" H N N 135 DT "HO3'" H N N 136 DT "H2'" H N N 137 DT "H2''" H N N 138 DT "H1'" H N N 139 DT H3 H N N 140 DT H71 H N N 141 DT H72 H N N 142 DT H73 H N N 143 DT H6 H N N 144 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 6UDN 'double helix' 6UDN 'a-form double helix' 6UDN '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 DC 3 1_555 D DG 5 1_555 -0.824 0.195 -0.046 4.671 -12.717 -5.536 1 B_DC7:DG76_D B 7 ? D 76 ? 19 1 1 A DT 4 1_555 D DA 4 1_555 0.099 -0.219 -0.007 9.825 -13.731 -8.127 2 B_DT8:DA75_D B 8 ? D 75 ? 20 1 1 A DG 5 1_555 D DC 3 1_555 -0.237 -0.509 -0.119 1.005 -13.037 0.731 3 B_DG9:DC74_D B 9 ? D 74 ? 19 1 1 A DA 6 1_555 D DT 2 1_555 -0.105 -0.416 -0.262 -0.840 -12.952 -2.883 4 B_DA10:DT73_D B 10 ? D 73 ? 20 1 1 A DC 7 1_555 D DG 1 1_555 0.409 0.033 0.397 -1.739 -14.762 10.244 5 B_DC11:DG72_D B 11 ? D 72 ? 19 1 1 A DT 8 1_555 B DA 7 1_555 -0.784 -0.320 0.392 -2.163 -7.137 -0.958 6 B_DT12:DA71_A B 12 ? A 71 ? 20 1 1 A DC 9 1_555 B DG 6 1_555 -0.024 0.004 0.022 2.958 -4.481 4.509 7 B_DC13:DG70_A B 13 ? A 70 ? 19 1 1 A DA 10 1_555 B DT 5 1_555 0.426 -0.421 0.230 1.877 -7.776 -3.926 8 B_DA14:DT69_A B 14 ? A 69 ? 20 1 1 A DT 11 1_555 B DA 4 1_555 -0.838 -0.144 0.074 4.603 -4.802 -0.263 9 B_DT15:DA68_A B 15 ? A 68 ? 20 1 1 A DG 12 1_555 B DC 3 1_555 0.483 -0.161 0.035 9.318 -4.163 -0.545 10 B_DG16:DC67_A B 16 ? A 67 ? 19 1 1 A DC 13 1_555 B DG 2 1_555 0.200 -0.337 0.035 1.125 -11.924 0.995 11 B_DC17:DG66_A B 17 ? A 66 ? 19 1 1 A DT 14 1_555 B DA 1 1_555 0.395 -0.077 0.246 -1.363 -12.560 -2.855 12 B_DT18:DA65_A B 18 ? A 65 ? 20 1 1 A DC 15 1_555 C DG 9 1_555 -0.601 -0.131 0.137 -1.436 -6.411 -1.294 13 B_DC19:DG64_C B 19 ? C 64 ? 19 1 1 A DA 16 1_555 C DT 8 1_555 0.539 -0.248 0.405 9.830 -10.591 3.033 14 B_DA20:DT63_C B 20 ? C 63 ? 20 1 1 A DT 17 1_555 C DA 7 1_555 -0.167 -0.405 0.226 6.616 -12.869 -2.749 15 B_DT21:DA62_C B 21 ? C 62 ? 20 1 1 A DC 18 1_555 C DG 6 1_555 -0.445 -0.326 0.119 0.706 -13.934 0.540 16 B_DC22:DG61_C B 22 ? C 61 ? 19 1 1 A DT 19 1_555 C DA 5 1_555 -1.529 -0.040 -0.230 -0.860 -12.253 -10.067 17 B_DT23:DA60_C B 23 ? C 60 ? 20 1 1 A DG 20 1_555 C DC 4 1_555 0.184 -0.252 -0.069 -1.022 -9.524 3.135 18 B_DG24:DC59_C B 24 ? C 59 ? 19 1 1 A DA 21 1_555 C DT 3 1_555 0.594 -0.394 -0.118 3.117 -11.737 -4.478 19 B_DA25:DT58_C B 25 ? C 58 ? 20 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 DC 3 1_555 D DG 5 1_555 A DT 4 1_555 D DA 4 1_555 -0.600 0.061 3.246 0.512 3.518 36.449 -0.383 1.025 3.229 5.608 -0.815 36.616 1 BB_DC7DT8:DA75DG76_DD B 7 ? D 76 ? B 8 ? D 75 ? 1 A DT 4 1_555 D DA 4 1_555 A DG 5 1_555 D DC 3 1_555 0.606 1.779 3.626 1.548 -0.143 40.789 2.568 -0.679 3.639 -0.205 -2.220 40.818 2 BB_DT8DG9:DC74DA75_DD B 8 ? D 75 ? B 9 ? D 74 ? 1 A DG 5 1_555 D DC 3 1_555 A DA 6 1_555 D DT 2 1_555 -0.018 -0.093 3.374 -3.609 1.658 33.088 -0.446 -0.588 3.348 2.898 6.308 33.319 3 BB_DG9DA10:DT73DC74_DD B 9 ? D 74 ? B 10 ? D 73 ? 1 A DA 6 1_555 D DT 2 1_555 A DC 7 1_555 D DG 1 1_555 1.086 -0.742 3.219 -7.455 1.073 39.907 -1.184 -2.357 2.958 1.555 10.806 40.583 4 BB_DA10DC11:DG72DT73_DD B 10 ? D 73 ? B 11 ? D 72 ? 1 A DC 7 1_555 D DG 1 1_555 A DT 8 1_555 B DA 7 1_555 -1.305 -1.345 3.275 -1.441 -0.303 21.933 -3.410 2.858 3.370 -0.795 3.783 21.982 5 BB_DC11DT12:DA71DG72_AD B 11 ? D 72 ? B 12 ? A 71 ? 1 A DT 8 1_555 B DA 7 1_555 A DC 9 1_555 B DG 6 1_555 0.154 -0.040 3.246 1.858 5.911 34.245 -0.961 0.025 3.198 9.938 -3.124 34.784 6 BB_DT12DC13:DG70DA71_AA B 12 ? A 71 ? B 13 ? A 70 ? 1 A DC 9 1_555 B DG 6 1_555 A DA 10 1_555 B DT 5 1_555 -0.147 0.610 3.405 -0.073 2.035 39.939 0.648 0.206 3.431 2.977 0.106 39.988 7 BB_DC13DA14:DT69DG70_AA B 13 ? A 70 ? B 14 ? A 69 ? 1 A DA 10 1_555 B DT 5 1_555 A DT 11 1_555 B DA 4 1_555 0.385 -0.698 3.268 -0.482 5.173 23.253 -3.347 -1.087 3.034 12.634 1.177 23.819 8 BB_DA14DT15:DA68DT69_AA B 14 ? A 69 ? B 15 ? A 68 ? 1 A DT 11 1_555 B DA 4 1_555 A DG 12 1_555 B DC 3 1_555 0.469 -0.245 3.270 1.045 4.294 37.740 -0.922 -0.588 3.235 6.610 -1.609 37.989 9 BB_DT15DG16:DC67DA68_AA B 15 ? A 68 ? B 16 ? A 67 ? 1 A DG 12 1_555 B DC 3 1_555 A DC 13 1_555 B DG 2 1_555 0.379 -1.021 3.462 -0.548 -0.276 32.956 -1.749 -0.767 3.464 -0.486 0.966 32.962 10 BB_DG16DC17:DG66DC67_AA B 16 ? A 67 ? B 17 ? A 66 ? 1 A DC 13 1_555 B DG 2 1_555 A DT 14 1_555 B DA 1 1_555 -0.132 -1.090 3.484 -0.052 2.931 36.057 -2.189 0.206 3.388 4.726 0.083 36.172 11 BB_DC17DT18:DA65DG66_AA B 17 ? A 66 ? B 18 ? A 65 ? 1 A DT 14 1_555 B DA 1 1_555 A DC 15 1_555 C DG 9 1_555 -0.311 -1.491 3.208 0.476 0.691 23.439 -3.894 0.922 3.156 1.699 -1.170 23.454 12 BB_DT18DC19:DG64DA65_CA B 18 ? A 65 ? B 19 ? C 64 ? 1 A DC 15 1_555 C DG 9 1_555 A DA 16 1_555 C DT 8 1_555 -0.194 0.459 3.229 1.844 6.673 37.623 -0.138 0.528 3.248 10.241 -2.830 38.232 13 BB_DC19DA20:DT63DG64_CC B 19 ? C 64 ? B 20 ? C 63 ? 1 A DA 16 1_555 C DT 8 1_555 A DT 17 1_555 C DA 7 1_555 0.135 -0.830 3.323 0.740 2.926 27.196 -2.482 -0.101 3.220 6.198 -1.568 27.359 14 BB_DA20DT21:DA62DT63_CC B 20 ? C 63 ? B 21 ? C 62 ? 1 A DT 17 1_555 C DA 7 1_555 A DC 18 1_555 C DG 6 1_555 0.463 -0.664 3.310 2.466 2.445 35.250 -1.454 -0.394 3.282 4.026 -4.059 35.415 15 BB_DT21DC22:DG61DA62_CC B 21 ? C 62 ? B 22 ? C 61 ? 1 A DC 18 1_555 C DG 6 1_555 A DT 19 1_555 C DA 5 1_555 -0.688 -0.454 3.335 4.011 1.491 27.649 -1.294 2.376 3.177 3.097 -8.328 27.972 16 BB_DC22DT23:DA60DG61_CC B 22 ? C 61 ? B 23 ? C 60 ? 1 A DT 19 1_555 C DA 5 1_555 A DG 20 1_555 C DC 4 1_555 1.080 1.497 3.524 2.397 2.226 49.410 1.608 -1.096 3.629 2.659 -2.864 49.512 17 BB_DT23DG24:DC59DA60_CC B 23 ? C 60 ? B 24 ? C 59 ? 1 A DG 20 1_555 C DC 4 1_555 A DA 21 1_555 C DT 3 1_555 -0.845 0.582 3.215 -4.632 4.258 36.239 0.337 0.703 3.339 6.783 7.378 36.763 18 BB_DG24DA25:DT58DC59_CC B 24 ? C 59 ? B 25 ? C 58 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Science Foundation (NSF, United States)' 'United States' 1360635 1 'National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)' 'United States' R01GM104960 2 # _pdbx_entity_nonpoly.entity_id 5 _pdbx_entity_nonpoly.name ARSENIC _pdbx_entity_nonpoly.comp_id ARS # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 6U40 _pdbx_initial_refinement_model.details ? # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? #