data_1V9G # _entry.id 1V9G # _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 1V9G pdb_00001v9g 10.2210/pdb1v9g/pdb NDB ZD0011 ? ? RCSB RCSB006373 ? ? WWPDB D_1000006373 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 1IOT _pdbx_database_related.details 'The same Z-DNA complexed with spermine in H2O' _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1V9G _pdbx_database_status.recvd_initial_deposition_date 2004-01-26 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Chatake, T.' 1 ? 'Tanaka, I.' 2 ? 'Niimura, N.' 3 ? # _citation.id primary _citation.title 'The hydration structure of a Z-DNA hexameric duplex determined by a neutron diffraction technique.' _citation.journal_abbrev 'Acta Crystallogr.,Sect.D' _citation.journal_volume 61 _citation.page_first 1088 _citation.page_last 1098 _citation.year 2005 _citation.journal_id_ASTM ABCRE6 _citation.country DK _citation.journal_id_ISSN 0907-4449 _citation.journal_id_CSD 0766 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 16041074 _citation.pdbx_database_id_DOI 10.1107/S0907444905015581 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chatake, T.' 1 ? primary 'Tanaka, I.' 2 ? primary 'Umino, H.' 3 ? primary 'Arai, S.' 4 ? primary 'Niimura, N.' 5 ? # _cell.entry_id 1V9G _cell.length_a 18.460 _cell.length_b 30.760 _cell.length_c 43.180 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 1V9G _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(*CP*GP*CP*GP*CP*G)-3'" 1810.205 2 ? ? ? 'Z-DNA duplex' 2 non-polymer syn "N,N'-BIS(3-AMMONIOPROPYL)BUTANE-1,4-DIAMINIUM" 216.434 1 ? ? ? ? 3 water nat water 18.015 44 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGCG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DG n 1 3 DC n 1 4 DG n 1 5 DC n 1 6 DG n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1V9G _struct_ref.pdbx_db_accession 1V9G _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1V9G A 1 ? 6 ? 1V9G 1 ? 6 ? 1 6 2 1 1V9G B 1 ? 6 ? 1V9G 7 ? 12 ? 7 12 # 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 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 DOD non-polymer . 'DEUTERATED WATER' ? 'D2 O' 20.028 SPW non-polymer . "N,N'-BIS(3-AMMONIOPROPYL)BUTANE-1,4-DIAMINIUM" 'SPERMINE (FULLY DEUTERATED FORM)' 'C10 H20 N4 4' 216.434 # _exptl.entry_id 1V9G _exptl.method 'NEUTRON DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.35 _exptl_crystal.density_percent_sol 7.98 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'SMALL TUBES' _exptl_crystal_grow.temp 328 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details 'MPD, sodium cacodylate, magnesium chloride, spermine, pH 7.0, SMALL TUBES, temperature 328K' _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 MPD ? ? ? 1 2 1 'sodium cacodylate' ? ? ? 1 3 1 MgCl2 ? ? ? 1 4 1 spermine ? ? ? 1 5 2 MPD ? ? ? 1 6 2 'sodium cacodylate' ? ? ? 1 7 2 MgCl2 ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 298 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 _diffrn.pdbx_serial_crystal_experiment ? # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type BIX-3M _diffrn_detector.pdbx_collection_date 2003-06-10 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Elastically-bent perfect silicon monochromator' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type neutron # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 2.88 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'NUCLEAR REACTOR' _diffrn_source.type 'JRR-3M BEAMLINE 1G-A' _diffrn_source.pdbx_synchrotron_site JRR-3M _diffrn_source.pdbx_synchrotron_beamline 1G-A _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 2.88 # _reflns.entry_id 1V9G _reflns.observed_criterion_sigma_F 0 _reflns.observed_criterion_sigma_I 0 _reflns.d_resolution_high 1.6 _reflns.d_resolution_low 50.0 _reflns.number_all 2627 _reflns.number_obs 2627 _reflns.percent_possible_obs 73.7 _reflns.pdbx_Rmerge_I_obs 0.127 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 6.2 _reflns.B_iso_Wilson_estimate 3.9 _reflns.pdbx_redundancy 2.0 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.6 _reflns_shell.d_res_low 1.66 _reflns_shell.percent_possible_all 40.9 _reflns_shell.Rmerge_I_obs 0.208 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 3.5 _reflns_shell.pdbx_redundancy 1.7 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 142 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 1V9G _refine.ls_d_res_high 1.8 _refine.ls_d_res_low 25.05 _refine.pdbx_ls_sigma_F 3 _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all 2510 _refine.ls_number_reflns_obs 1821 _refine.ls_number_reflns_R_free 163 _refine.ls_percent_reflns_obs 72.5 _refine.ls_R_factor_all 0.256 _refine.ls_R_factor_obs 0.229 _refine.ls_R_factor_R_work 0.222 _refine.ls_R_factor_R_free 0.294 _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF 3 _refine.pdbx_data_cutoff_low_absF 0 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_R_free 6.5 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 'PDB ENTRY 1IOT' _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 ? _refine.solvent_model_details 'bulk solvent correction' _refine.solvent_model_param_bsol 20.1 _refine.solvent_model_param_ksol 0.06 _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model isotropic _refine.B_iso_mean 12.09 _refine.aniso_B[1][1] 1.289 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][2] 1.581 _refine.aniso_B[2][3] 0.00 _refine.aniso_B[3][3] -2.87 _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 'NEUTRON DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_overall_phase_error ? _refine.pdbx_TLS_residual_ADP_flag ? _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 1V9G _refine_analyze.Luzzati_coordinate_error_obs .24 _refine_analyze.Luzzati_sigma_a_obs .29 _refine_analyze.Luzzati_d_res_low_obs 5 _refine_analyze.Luzzati_coordinate_error_free .30 _refine_analyze.Luzzati_sigma_a_free .37 _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 'NEUTRON DIFFRACTION' # _refine_hist.pdbx_refine_id 'NEUTRON DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 240 _refine_hist.pdbx_number_atoms_ligand 14 _refine_hist.number_atoms_solvent 44 _refine_hist.number_atoms_total 298 _refine_hist.d_res_high 1.8 _refine_hist.d_res_low 25.05 # 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 0.005 ? ? ? 'NEUTRON DIFFRACTION' ? c_angle_deg 0.830 ? ? ? 'NEUTRON DIFFRACTION' ? c_dihedral_angle_d 0.430 ? ? ? 'NEUTRON DIFFRACTION' ? c_improper_angle_d 0.820 ? ? ? 'NEUTRON DIFFRACTION' ? # loop_ _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.pdbx_refine_id _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.R_factor_all 6 1.80 1.91 206 0.293 56.7 0.425 . 4.8 19 . 'NEUTRON DIFFRACTION' . . . 6 1.91 2.06 . 0.285 61.7 0.322 . . 20 . 'NEUTRON DIFFRACTION' . . . 6 2.06 2.27 . 0.267 71.4 0.327 . . 29 . 'NEUTRON DIFFRACTION' . . . 6 2.27 2.60 . 0.25 76.3 0.283 . . 24 . 'NEUTRON DIFFRACTION' . . . 6 2.60 3.27 . 0.191 80.7 0.312 . . 33 . 'NEUTRON DIFFRACTION' . . . 6 3.27 50.0 . 0.162 86.0 0.234 . . 38 . 'NEUTRON DIFFRACTION' . . . # _struct.entry_id 1V9G _struct.title 'Neutron Crystallographic analysis of the Z-DNA hexamer CGCGCG' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1V9G _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Z-DNA, HYDROGEN, HYDRATION, H/D EXCHANGE, NEUTRON, 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 1 ? C N N 2 ? D N N 3 ? E N N 3 ? # 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 1 N3 ? ? ? 1_555 B DG 6 N1 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 6 O6 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 6 N2 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 6 B DC 7 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 A _struct_site.pdbx_auth_comp_id SPW _struct_site.pdbx_auth_seq_id 13 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 9 _struct_site.details 'BINDING SITE FOR RESIDUE SPW A 13' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 9 DG A 2 ? DG A 2 . ? 1_555 ? 2 AC1 9 DC A 3 ? DC A 3 . ? 1_555 ? 3 AC1 9 DG A 4 ? DG A 4 . ? 1_555 ? 4 AC1 9 DG B 2 ? DG B 8 . ? 1_555 ? 5 AC1 9 DOD D . ? DOD A 106 . ? 1_555 ? 6 AC1 9 DOD E . ? DOD B 119 . ? 1_555 ? 7 AC1 9 DOD D . ? DOD A 132 . ? 1_555 ? 8 AC1 9 DOD D . ? DOD A 135 . ? 1_555 ? 9 AC1 9 DOD E . ? DOD B 136 . ? 1_555 ? # _database_PDB_matrix.entry_id 1V9G _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 1V9G _atom_sites.fract_transf_matrix[1][1] 0.054171 _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] 0.032510 _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] 0.023159 _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 D H 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 DC 1 1 1 DC C A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 DC 5 5 5 DC C A . n A 1 6 DG 6 6 6 DG G A . n B 1 1 DC 1 7 7 DC C B . n B 1 2 DG 2 8 8 DG G B . n B 1 3 DC 3 9 9 DC C B . n B 1 4 DG 4 10 10 DG G B . n B 1 5 DC 5 11 11 DC C B . n B 1 6 DG 6 12 12 DG G B . 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 C 2 SPW 1 13 13 SPW SPW A . D 3 DOD 1 102 102 DOD DOD A . D 3 DOD 2 104 104 DOD DOD A . D 3 DOD 3 106 106 DOD DOD A . D 3 DOD 4 108 108 DOD DOD A . D 3 DOD 5 109 109 DOD DOD A . D 3 DOD 6 110 110 DOD DOD A . D 3 DOD 7 111 111 DOD DOD A . D 3 DOD 8 114 114 DOD DOD A . D 3 DOD 9 117 117 DOD DOD A . D 3 DOD 10 120 120 DOD DOD A . D 3 DOD 11 122 122 DOD DOD A . D 3 DOD 12 126 126 DOD DOD A . D 3 DOD 13 127 127 DOD DOD A . D 3 DOD 14 128 128 DOD DOD A . D 3 DOD 15 129 129 DOD DOD A . D 3 DOD 16 131 131 DOD DOD A . D 3 DOD 17 132 132 DOD DOD A . D 3 DOD 18 133 133 DOD DOD A . D 3 DOD 19 134 134 DOD DOD A . D 3 DOD 20 135 135 DOD DOD A . D 3 DOD 21 137 137 DOD DOD A . D 3 DOD 22 138 138 DOD DOD A . D 3 DOD 23 142 142 DOD DOD A . D 3 DOD 24 143 143 DOD DOD A . E 3 DOD 1 100 100 DOD DOD B . E 3 DOD 2 101 101 DOD DOD B . E 3 DOD 3 103 103 DOD DOD B . E 3 DOD 4 105 105 DOD DOD B . E 3 DOD 5 107 107 DOD DOD B . E 3 DOD 6 112 112 DOD DOD B . E 3 DOD 7 113 113 DOD DOD B . E 3 DOD 8 115 115 DOD DOD B . E 3 DOD 9 116 116 DOD DOD B . E 3 DOD 10 118 118 DOD DOD B . E 3 DOD 11 119 119 DOD DOD B . E 3 DOD 12 121 121 DOD DOD B . E 3 DOD 13 123 123 DOD DOD B . E 3 DOD 14 124 124 DOD DOD B . E 3 DOD 15 125 125 DOD DOD B . E 3 DOD 16 130 130 DOD DOD B . E 3 DOD 17 136 136 DOD DOD B . E 3 DOD 18 139 139 DOD DOD B . E 3 DOD 19 140 140 DOD DOD B . E 3 DOD 20 141 141 DOD DOD B . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # _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 2005-01-26 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2013-08-21 5 'Structure model' 1 4 2018-03-07 6 'Structure model' 1 5 2018-06-20 7 'Structure model' 1 6 2018-11-28 8 'Structure model' 1 7 2018-12-05 9 'Structure model' 1 8 2023-10-25 # _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' 'Non-polymer description' 3 3 'Structure model' 'Version format compliance' 4 4 'Structure model' 'Derived calculations' 5 4 'Structure model' Other 6 5 'Structure model' 'Data collection' 7 6 'Structure model' 'Data collection' 8 6 'Structure model' 'Experimental preparation' 9 7 'Structure model' 'Data collection' 10 7 'Structure model' 'Source and taxonomy' 11 8 'Structure model' 'Data collection' 12 9 'Structure model' 'Data collection' 13 9 'Structure model' 'Database references' 14 9 'Structure model' 'Derived calculations' 15 9 '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 5 'Structure model' diffrn_detector 2 6 'Structure model' exptl_crystal_grow 3 7 'Structure model' diffrn_detector 4 7 'Structure model' diffrn_source 5 7 'Structure model' pdbx_entity_src_syn 6 8 'Structure model' diffrn_radiation 7 9 'Structure model' chem_comp_atom 8 9 'Structure model' chem_comp_bond 9 9 'Structure model' database_2 10 9 'Structure model' pdbx_initial_refinement_model 11 9 'Structure model' struct_site # 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 5 'Structure model' '_diffrn_detector.detector' 2 6 'Structure model' '_exptl_crystal_grow.pdbx_details' 3 6 'Structure model' '_exptl_crystal_grow.temp' 4 7 'Structure model' '_diffrn_detector.detector' 5 7 'Structure model' '_diffrn_source.pdbx_synchrotron_beamline' 6 7 'Structure model' '_diffrn_source.pdbx_synchrotron_site' 7 7 'Structure model' '_diffrn_source.type' 8 8 'Structure model' '_diffrn_radiation.pdbx_scattering_type' 9 9 'Structure model' '_database_2.pdbx_DOI' 10 9 'Structure model' '_database_2.pdbx_database_accession' 11 9 'Structure model' '_struct_site.pdbx_auth_asym_id' 12 9 'Structure model' '_struct_site.pdbx_auth_comp_id' 13 9 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal _software.date _software.type _software.location _software.language DENZO 'data reduction' . ? 1 ? ? ? ? SCALEPACK 'data scaling' . ? 2 ? ? ? ? CNS refinement . ? 3 ? ? ? ? CNS phasing . ? 4 ? ? ? ? # 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 DC OP3 O N N 1 DC P P N N 2 DC OP1 O N N 3 DC OP2 O N N 4 DC "O5'" O N N 5 DC "C5'" C N N 6 DC "C4'" C N R 7 DC "O4'" O N N 8 DC "C3'" C N S 9 DC "O3'" O N N 10 DC "C2'" C N N 11 DC "C1'" C N R 12 DC N1 N N N 13 DC C2 C N N 14 DC O2 O N N 15 DC N3 N N N 16 DC C4 C N N 17 DC N4 N N N 18 DC C5 C N N 19 DC C6 C N N 20 DC HOP3 H N N 21 DC HOP2 H N N 22 DC "H5'" H N N 23 DC "H5''" H N N 24 DC "H4'" H N N 25 DC "H3'" H N N 26 DC "HO3'" H N N 27 DC "H2'" H N N 28 DC "H2''" H N N 29 DC "H1'" H N N 30 DC H41 H N N 31 DC H42 H N N 32 DC H5 H N N 33 DC H6 H N N 34 DG OP3 O N N 35 DG P P N N 36 DG OP1 O N N 37 DG OP2 O N N 38 DG "O5'" O N N 39 DG "C5'" C N N 40 DG "C4'" C N R 41 DG "O4'" O N N 42 DG "C3'" C N S 43 DG "O3'" O N N 44 DG "C2'" C N N 45 DG "C1'" C N R 46 DG N9 N Y N 47 DG C8 C Y N 48 DG N7 N Y N 49 DG C5 C Y N 50 DG C6 C N N 51 DG O6 O N N 52 DG N1 N N N 53 DG C2 C N N 54 DG N2 N N N 55 DG N3 N N N 56 DG C4 C Y N 57 DG HOP3 H N N 58 DG HOP2 H N N 59 DG "H5'" H N N 60 DG "H5''" H N N 61 DG "H4'" H N N 62 DG "H3'" H N N 63 DG "HO3'" H N N 64 DG "H2'" H N N 65 DG "H2''" H N N 66 DG "H1'" H N N 67 DG H8 H N N 68 DG H1 H N N 69 DG H21 H N N 70 DG H22 H N N 71 DOD O O N N 72 DOD D1 D N N 73 DOD D2 D N N 74 SPW N1 N N N 75 SPW C2 C N N 76 SPW C3 C N N 77 SPW C4 C N N 78 SPW N5 N N N 79 SPW C6 C N N 80 SPW C7 C N N 81 SPW C8 C N N 82 SPW C9 C N N 83 SPW N10 N N N 84 SPW C11 C N N 85 SPW C12 C N N 86 SPW C13 C N N 87 SPW N14 N N N 88 SPW D1A D N N 89 SPW D1B D N N 90 SPW D1C D N N 91 SPW D5A D N N 92 SPW D5B D N N 93 SPW DXT D N N 94 SPW DXU D N N 95 SPW DXX D N N 96 SPW DXY D N N 97 SPW DXZ D N N 98 SPW H2A H N N 99 SPW H2B H N N 100 SPW H3A H N N 101 SPW H3B H N N 102 SPW H4A H N N 103 SPW H4B H N N 104 SPW H6A H N N 105 SPW H6B H N N 106 SPW H7A H N N 107 SPW H7B H N N 108 SPW H8A H N N 109 SPW H8B H N N 110 SPW H9A H N N 111 SPW H9B H N N 112 SPW H111 H N N 113 SPW H112 H N N 114 SPW H121 H N N 115 SPW H122 H N N 116 SPW H131 H N N 117 SPW H132 H N N 118 # 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 DC OP3 P sing N N 1 DC OP3 HOP3 sing N N 2 DC P OP1 doub N N 3 DC P OP2 sing N N 4 DC P "O5'" sing N N 5 DC OP2 HOP2 sing N N 6 DC "O5'" "C5'" sing N N 7 DC "C5'" "C4'" sing N N 8 DC "C5'" "H5'" sing N N 9 DC "C5'" "H5''" sing N N 10 DC "C4'" "O4'" sing N N 11 DC "C4'" "C3'" sing N N 12 DC "C4'" "H4'" sing N N 13 DC "O4'" "C1'" sing N N 14 DC "C3'" "O3'" sing N N 15 DC "C3'" "C2'" sing N N 16 DC "C3'" "H3'" sing N N 17 DC "O3'" "HO3'" sing N N 18 DC "C2'" "C1'" sing N N 19 DC "C2'" "H2'" sing N N 20 DC "C2'" "H2''" sing N N 21 DC "C1'" N1 sing N N 22 DC "C1'" "H1'" sing N N 23 DC N1 C2 sing N N 24 DC N1 C6 sing N N 25 DC C2 O2 doub N N 26 DC C2 N3 sing N N 27 DC N3 C4 doub N N 28 DC C4 N4 sing N N 29 DC C4 C5 sing N N 30 DC N4 H41 sing N N 31 DC N4 H42 sing N N 32 DC C5 C6 doub N N 33 DC C5 H5 sing N N 34 DC C6 H6 sing N N 35 DG OP3 P sing N N 36 DG OP3 HOP3 sing N N 37 DG P OP1 doub N N 38 DG P OP2 sing N N 39 DG P "O5'" sing N N 40 DG OP2 HOP2 sing N N 41 DG "O5'" "C5'" sing N N 42 DG "C5'" "C4'" sing N N 43 DG "C5'" "H5'" sing N N 44 DG "C5'" "H5''" sing N N 45 DG "C4'" "O4'" sing N N 46 DG "C4'" "C3'" sing N N 47 DG "C4'" "H4'" sing N N 48 DG "O4'" "C1'" sing N N 49 DG "C3'" "O3'" sing N N 50 DG "C3'" "C2'" sing N N 51 DG "C3'" "H3'" sing N N 52 DG "O3'" "HO3'" sing N N 53 DG "C2'" "C1'" sing N N 54 DG "C2'" "H2'" sing N N 55 DG "C2'" "H2''" sing N N 56 DG "C1'" N9 sing N N 57 DG "C1'" "H1'" sing N N 58 DG N9 C8 sing Y N 59 DG N9 C4 sing Y N 60 DG C8 N7 doub Y N 61 DG C8 H8 sing N N 62 DG N7 C5 sing Y N 63 DG C5 C6 sing N N 64 DG C5 C4 doub Y N 65 DG C6 O6 doub N N 66 DG C6 N1 sing N N 67 DG N1 C2 sing N N 68 DG N1 H1 sing N N 69 DG C2 N2 sing N N 70 DG C2 N3 doub N N 71 DG N2 H21 sing N N 72 DG N2 H22 sing N N 73 DG N3 C4 sing N N 74 DOD O D1 sing N N 75 DOD O D2 sing N N 76 SPW N1 C2 sing N N 77 SPW N1 D1A sing N N 78 SPW N1 D1B sing N N 79 SPW N1 D1C sing N N 80 SPW C2 C3 sing N N 81 SPW C2 H2A sing N N 82 SPW C2 H2B sing N N 83 SPW C3 C4 sing N N 84 SPW C3 H3A sing N N 85 SPW C3 H3B sing N N 86 SPW C4 N5 sing N N 87 SPW C4 H4A sing N N 88 SPW C4 H4B sing N N 89 SPW N5 C6 sing N N 90 SPW N5 D5A sing N N 91 SPW N5 D5B sing N N 92 SPW C6 C7 sing N N 93 SPW C6 H6A sing N N 94 SPW C6 H6B sing N N 95 SPW C7 C8 sing N N 96 SPW C7 H7A sing N N 97 SPW C7 H7B sing N N 98 SPW C8 C9 sing N N 99 SPW C8 H8A sing N N 100 SPW C8 H8B sing N N 101 SPW C9 N10 sing N N 102 SPW C9 H9A sing N N 103 SPW C9 H9B sing N N 104 SPW N10 C11 sing N N 105 SPW N10 DXT sing N N 106 SPW N10 DXU sing N N 107 SPW C11 C12 sing N N 108 SPW C11 H111 sing N N 109 SPW C11 H112 sing N N 110 SPW C12 C13 sing N N 111 SPW C12 H121 sing N N 112 SPW C12 H122 sing N N 113 SPW C13 N14 sing N N 114 SPW C13 H131 sing N N 115 SPW C13 H132 sing N N 116 SPW N14 DXX sing N N 117 SPW N14 DXY sing N N 118 SPW N14 DXZ sing N N 119 # _ndb_struct_conf_na.entry_id 1V9G _ndb_struct_conf_na.feature 'z-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 1 1_555 B DG 6 1_555 -0.160 -0.029 0.013 9.656 5.134 0.650 1 A_DC1:DG12_B A 1 ? B 12 ? 19 1 1 A DG 2 1_555 B DC 5 1_555 0.181 -0.018 0.048 -6.965 3.645 0.099 2 A_DG2:DC11_B A 2 ? B 11 ? 19 1 1 A DC 3 1_555 B DG 4 1_555 -0.694 -0.211 0.121 2.690 6.183 2.087 3 A_DC3:DG10_B A 3 ? B 10 ? 19 1 1 A DG 4 1_555 B DC 3 1_555 0.452 -0.123 0.393 -3.245 3.734 1.368 4 A_DG4:DC9_B A 4 ? B 9 ? 19 1 1 A DC 5 1_555 B DG 2 1_555 -0.211 0.110 0.000 5.656 0.522 -1.275 5 A_DC5:DG8_B A 5 ? B 8 ? 19 1 1 A DG 6 1_555 B DC 1 1_555 0.090 -0.043 0.630 5.333 2.714 1.327 6 A_DG6:DC7_B A 6 ? B 7 ? 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 DC 1 1_555 B DG 6 1_555 A DG 2 1_555 B DC 5 1_555 0.056 5.699 3.906 1.067 -1.519 -8.631 -32.116 3.807 4.791 9.943 6.984 -8.828 1 AA_DC1DG2:DC11DG12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A DG 2 1_555 B DC 5 1_555 A DC 3 1_555 B DG 4 1_555 0.571 -0.482 3.239 0.154 -5.753 -55.735 0.837 0.616 3.178 6.136 0.164 -56.008 2 AA_DG2DC3:DG10DC11_BB A 2 ? B 11 ? A 3 ? B 10 ? 1 A DC 3 1_555 B DG 4 1_555 A DG 4 1_555 B DC 3 1_555 -0.402 5.361 3.735 -4.029 -0.380 -4.974 -45.932 -24.774 2.964 3.681 -38.983 -6.412 3 AA_DC3DG4:DC9DG10_BB A 3 ? B 10 ? A 4 ? B 9 ? 1 A DG 4 1_555 B DC 3 1_555 A DC 5 1_555 B DG 2 1_555 -0.358 -1.172 3.301 2.446 -0.447 -51.154 1.387 -0.244 3.304 0.518 2.831 -51.210 4 AA_DG4DC5:DG8DC9_BB A 4 ? B 9 ? A 5 ? B 8 ? 1 A DC 5 1_555 B DG 2 1_555 A DG 6 1_555 B DC 1 1_555 0.017 5.550 3.860 -2.955 5.599 -8.965 -35.177 -3.155 0.334 -31.204 -16.468 -10.971 5 AA_DC5DG6:DC7DG8_BB A 5 ? B 8 ? A 6 ? B 7 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 "N,N'-BIS(3-AMMONIOPROPYL)BUTANE-1,4-DIAMINIUM" SPW 3 water DOD # _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 1IOT _pdbx_initial_refinement_model.details 'PDB ENTRY 1IOT' #