data_4DKZ # _entry.id 4DKZ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 4DKZ pdb_00004dkz 10.2210/pdb4dkz/pdb NDB NA1578 ? ? RCSB RCSB070460 ? ? WWPDB D_1000070460 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2012-03-28 2 'Structure model' 1 1 2012-04-04 3 'Structure model' 1 2 2012-04-18 4 'Structure model' 1 3 2024-02-28 # _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' 'Derived calculations' 2 3 'Structure model' 'Database references' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' # 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' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' struct_conn # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4DKZ _pdbx_database_status.recvd_initial_deposition_date 2012-02-05 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _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 'Egli, M.' 1 'Pallan, P.S.' 2 # _citation.id primary _citation.title ;The Conformationally Constrained N-Methanocarba-dT Analogue Adopts an Unexpected C4'-exo Sugar Pucker in the Structure of a DNA Hairpin. ; _citation.journal_abbrev Biochemistry _citation.journal_volume 51 _citation.page_first 2639 _citation.page_last 2641 _citation.year 2012 _citation.journal_id_ASTM BICHAW _citation.country US _citation.journal_id_ISSN 0006-2960 _citation.journal_id_CSD 0033 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 22409313 _citation.pdbx_database_id_DOI 10.1021/bi300215k # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Pallan, P.S.' 1 ? primary 'Marquez, V.E.' 2 ? primary 'Egli, M.' 3 ? # 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 ;Synthetic DNA dodecamer containg North-methanocarba-2'-deoxythymidine (N-MCdT) ; 3683.468 2 ? ? ? ? 2 water nat water 18.015 63 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(DG)(DA)(DA)(0KZ)(0KZ)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAAXXCGCG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # 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 DA n 1 6 DA n 1 7 0KZ n 1 8 0KZ n 1 9 DC n 1 10 DG n 1 11 DC n 1 12 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 ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'Chemically synthesized nucleic acid dodecamer' # 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 0KZ 'DNA linking' . '[(1R,2S,4S,5S)-2-hydroxy-4-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)bicyclo[3.1.0]hex-1-yl]methyl dihydrogen phosphate' ;2'-exo-methanocarba-thymidine monophosphate; North-methanocarba-thymidine monophosphate ; 'C12 H17 N2 O7 P' 332.246 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 HOH non-polymer . WATER ? 'H2 O' 18.015 # 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 1 101 101 DC CYT A . n A 1 2 DG 2 102 102 DG GUA A . n A 1 3 DC 3 103 103 DC CYT A . n A 1 4 DG 4 104 104 DG GUA A . n A 1 5 DA 5 105 105 DA ADE A . n A 1 6 DA 6 106 106 DA ADE A . n A 1 7 0KZ 7 107 107 0KZ NC2 A . n A 1 8 0KZ 8 108 108 0KZ NC2 A . n A 1 9 DC 9 109 109 DC CYT A . n A 1 10 DG 10 110 110 DG GUA A . n A 1 11 DC 11 111 111 DC CYT A . n A 1 12 DG 12 112 112 DG GUA A . n B 1 1 DC 1 201 201 DC CYT B . n B 1 2 DG 2 202 202 DG GUA B . n B 1 3 DC 3 203 203 DC CYT B . n B 1 4 DG 4 204 204 DG GUA B . n B 1 5 DA 5 205 205 DA ADE B . n B 1 6 DA 6 206 206 DA ADE B . n B 1 7 0KZ 7 207 207 0KZ NC2 B . n B 1 8 0KZ 8 208 208 0KZ NC2 B . n B 1 9 DC 9 209 209 DC CYT B . n B 1 10 DG 10 210 210 DG GUA B . n B 1 11 DC 11 211 211 DC CYT B . n B 1 12 DG 12 212 212 DG GUA 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 HOH 1 201 4 HOH HOH A . C 2 HOH 2 202 5 HOH HOH A . C 2 HOH 3 203 10 HOH HOH A . C 2 HOH 4 204 11 HOH HOH A . C 2 HOH 5 205 12 HOH HOH A . C 2 HOH 6 206 15 HOH HOH A . C 2 HOH 7 207 16 HOH HOH A . C 2 HOH 8 208 17 HOH HOH A . C 2 HOH 9 209 18 HOH HOH A . C 2 HOH 10 210 22 HOH HOH A . C 2 HOH 11 211 23 HOH HOH A . C 2 HOH 12 212 24 HOH HOH A . C 2 HOH 13 213 25 HOH HOH A . C 2 HOH 14 214 28 HOH HOH A . C 2 HOH 15 215 30 HOH HOH A . C 2 HOH 16 216 34 HOH HOH A . C 2 HOH 17 217 35 HOH HOH A . C 2 HOH 18 218 46 HOH HOH A . C 2 HOH 19 219 47 HOH HOH A . C 2 HOH 20 220 51 HOH HOH A . C 2 HOH 21 221 54 HOH HOH A . C 2 HOH 22 222 56 HOH HOH A . C 2 HOH 23 223 57 HOH HOH A . C 2 HOH 24 224 58 HOH HOH A . C 2 HOH 25 225 59 HOH HOH A . C 2 HOH 26 226 60 HOH HOH A . C 2 HOH 27 227 61 HOH HOH A . C 2 HOH 28 228 64 HOH HOH A . C 2 HOH 29 229 8 HOH HOH A . D 2 HOH 1 301 1 HOH HOH B . D 2 HOH 2 302 2 HOH HOH B . D 2 HOH 3 303 3 HOH HOH B . D 2 HOH 4 304 6 HOH HOH B . D 2 HOH 5 305 7 HOH HOH B . D 2 HOH 6 306 9 HOH HOH B . D 2 HOH 7 307 13 HOH HOH B . D 2 HOH 8 308 14 HOH HOH B . D 2 HOH 9 309 19 HOH HOH B . D 2 HOH 10 310 20 HOH HOH B . D 2 HOH 11 311 21 HOH HOH B . D 2 HOH 12 312 26 HOH HOH B . D 2 HOH 13 313 27 HOH HOH B . D 2 HOH 14 314 29 HOH HOH B . D 2 HOH 15 315 31 HOH HOH B . D 2 HOH 16 316 32 HOH HOH B . D 2 HOH 17 317 33 HOH HOH B . D 2 HOH 18 318 36 HOH HOH B . D 2 HOH 19 319 37 HOH HOH B . D 2 HOH 20 320 38 HOH HOH B . D 2 HOH 21 321 39 HOH HOH B . D 2 HOH 22 322 41 HOH HOH B . D 2 HOH 23 323 42 HOH HOH B . D 2 HOH 24 324 43 HOH HOH B . D 2 HOH 25 325 44 HOH HOH B . D 2 HOH 26 326 45 HOH HOH B . D 2 HOH 27 327 48 HOH HOH B . D 2 HOH 28 328 49 HOH HOH B . D 2 HOH 29 329 50 HOH HOH B . D 2 HOH 30 330 52 HOH HOH B . D 2 HOH 31 331 53 HOH HOH B . D 2 HOH 32 332 55 HOH HOH B . D 2 HOH 33 333 62 HOH HOH B . D 2 HOH 34 334 63 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal MD2 'data collection' 'diffractometer software from EMBL (with LS-CAT developed extensions)' ? 1 CNS refinement . ? 2 HKL-2000 'data reduction' . ? 3 HKL-2000 'data scaling' . ? 4 CNS phasing . ? 5 # _cell.entry_id 4DKZ _cell.length_a 24.300 _cell.length_b 35.280 _cell.length_c 36.710 _cell.angle_alpha 90.00 _cell.angle_beta 92.84 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _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 4DKZ _symmetry.space_group_name_H-M 'P 1 21 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? # _exptl.entry_id 4DKZ _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 2 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.13 _exptl_crystal.density_percent_sol 42.34 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_details ;40 mM sodium cacodylate, pH 6.0, 80 mM sodium chloride, 12 mM spermine tetrahydrochloride and 10% v/v 2-methyl-2,4-pentanediol (MPD), VAPOR DIFFUSION, HANGING DROP, temperature 291K ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'MARMOSAIC 225 mm CCD' _diffrn_detector.pdbx_collection_date 2008-07-17 _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 'C(111)' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.978 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 21-ID-F' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 21-ID-F _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.978 # _reflns.entry_id 4DKZ _reflns.observed_criterion_sigma_I 0.0 _reflns.observed_criterion_sigma_F 0.0 _reflns.d_resolution_low 50 _reflns.d_resolution_high 1.8 _reflns.number_obs 5795 _reflns.number_all 5865 _reflns.percent_possible_obs 98.8 _reflns.pdbx_Rmerge_I_obs 0.032 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_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.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.8 _reflns_shell.d_res_low 1.9 _reflns_shell.percent_possible_all 97.9 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _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 4DKZ _refine.ls_number_reflns_obs 5795 _refine.ls_number_reflns_all 5865 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 50 _refine.ls_d_res_high 1.8 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2338 _refine.ls_R_factor_R_free 0.2518 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free 608 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_free ? _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_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _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_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 490 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 63 _refine_hist.number_atoms_total 553 _refine_hist.d_res_high 1.8 _refine_hist.d_res_low 50 # 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_restraint_function _refine_ls_restr.pdbx_refine_id c_angle_d 0.008 ? ? ? ? 'X-RAY DIFFRACTION' c_angle_deg 1.4 ? ? ? ? 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 4DKZ _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 # _struct.entry_id 4DKZ _struct.title ;Hairpin structure of a DNA dodecamer containing North-methanocarba-2'-deoxythymidine ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4DKZ _struct_keywords.pdbx_keywords DNA _struct_keywords.text ;North-methanocarba-2'-deoxythymidine, N-MCdT, X-ray crystal structure, tetra-loop hairpin, C4'-exo pucker, hairpin DNA, 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 2 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 4DKZ _struct_ref.pdbx_db_accession 4DKZ _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_seq_one_letter_code CGCGAASSCGCG _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 4DKZ A 1 ? 12 ? 4DKZ 101 ? 112 ? 101 112 2 1 4DKZ B 1 ? 12 ? 4DKZ 201 ? 212 ? 201 212 # _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 # _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 # _struct_biol.id 1 _struct_biol.details ? # 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 covale1 covale both ? A DA 6 "O3'" ? ? ? 1_555 A 0KZ 7 P ? ? A DA 106 A 0KZ 107 1_555 ? ? ? ? ? ? ? 1.581 ? ? covale2 covale both ? B DA 6 "O3'" ? ? ? 1_555 B 0KZ 7 P ? ? B DA 206 B 0KZ 207 1_555 ? ? ? ? ? ? ? 1.586 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 A DG 12 N1 ? ? A DC 101 A DG 112 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 A DG 12 O6 ? ? A DC 101 A DG 112 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 A DG 12 N2 ? ? A DC 101 A DG 112 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DC 11 N3 ? ? A DG 102 A DC 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DC 11 O2 ? ? A DG 102 A DC 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DC 11 N4 ? ? A DG 102 A DC 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 A DG 10 N1 ? ? A DC 103 A DG 110 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 A DG 10 O6 ? ? A DC 103 A DG 110 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 A DG 10 N2 ? ? A DC 103 A DG 110 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DC 9 N3 ? ? A DG 104 A DC 109 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DC 9 O2 ? ? A DG 104 A DC 109 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DC 9 N4 ? ? A DG 104 A DC 109 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? B DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? B DC 201 B DG 212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? B DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? B DC 201 B DG 212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? B DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? B DC 201 B DG 212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? B DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? B DG 202 B DC 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? B DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? B DG 202 B DC 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? B DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? B DG 202 B DC 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? B DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? B DC 203 B DG 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? B DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? B DC 203 B DG 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? B DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? B DC 203 B DG 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? B DG 4 N1 ? ? ? 1_555 B DC 9 N3 ? ? B DG 204 B DC 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? B DG 4 N2 ? ? ? 1_555 B DC 9 O2 ? ? B DG 204 B DC 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? B DG 4 O6 ? ? ? 1_555 B DC 9 N4 ? ? B DG 204 B DC 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _pdbx_validate_chiral.id _pdbx_validate_chiral.PDB_model_num _pdbx_validate_chiral.auth_atom_id _pdbx_validate_chiral.label_alt_id _pdbx_validate_chiral.auth_asym_id _pdbx_validate_chiral.auth_comp_id _pdbx_validate_chiral.auth_seq_id _pdbx_validate_chiral.PDB_ins_code _pdbx_validate_chiral.details _pdbx_validate_chiral.omega 1 1 "C4'" ? A 0KZ 107 ? PLANAR . 2 1 "C4'" ? A 0KZ 108 ? PLANAR . 3 1 "C4'" ? B 0KZ 207 ? PLANAR . 4 1 "C4'" ? B 0KZ 208 ? PLANAR . # 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 0KZ C2 C N N 1 0KZ N3 N N N 2 0KZ C4 C N N 3 0KZ C5 C N N 4 0KZ C6 C N N 5 0KZ C7 C N N 6 0KZ P P N N 7 0KZ OP1 O N N 8 0KZ OP2 O N N 9 0KZ "O5'" O N N 10 0KZ "C5'" C N N 11 0KZ "C4'" C N R 12 0KZ "C6'" C N S 13 0KZ "C7'" C N N 14 0KZ "C1'" C N S 15 0KZ N1 N N N 16 0KZ O2 O N N 17 0KZ O4 O N N 18 0KZ "C2'" C N N 19 0KZ "C3'" C N S 20 0KZ "O3'" O N N 21 0KZ H1 H N N 22 0KZ H2 H N N 23 0KZ H3 H N N 24 0KZ H4 H N N 25 0KZ H5 H N N 26 0KZ H7 H N N 27 0KZ H8 H N N 28 0KZ H9 H N N 29 0KZ H10 H N N 30 0KZ H11 H N N 31 0KZ H12 H N N 32 0KZ H13 H N N 33 0KZ H14 H N N 34 0KZ H15 H N N 35 0KZ H16 H N N 36 0KZ H17 H N N 37 0KZ OP3 O N N 38 0KZ H19 H N N 39 DA OP3 O N N 40 DA P P N N 41 DA OP1 O N N 42 DA OP2 O N N 43 DA "O5'" O N N 44 DA "C5'" C N N 45 DA "C4'" C N R 46 DA "O4'" O N N 47 DA "C3'" C N S 48 DA "O3'" O N N 49 DA "C2'" C N N 50 DA "C1'" C N R 51 DA N9 N Y N 52 DA C8 C Y N 53 DA N7 N Y N 54 DA C5 C Y N 55 DA C6 C Y N 56 DA N6 N N N 57 DA N1 N Y N 58 DA C2 C Y N 59 DA N3 N Y N 60 DA C4 C Y N 61 DA HOP3 H N N 62 DA HOP2 H N N 63 DA "H5'" H N N 64 DA "H5''" H N N 65 DA "H4'" H N N 66 DA "H3'" H N N 67 DA "HO3'" H N N 68 DA "H2'" H N N 69 DA "H2''" H N N 70 DA "H1'" H N N 71 DA H8 H N N 72 DA H61 H N N 73 DA H62 H N N 74 DA H2 H N N 75 DC OP3 O N N 76 DC P P N N 77 DC OP1 O N N 78 DC OP2 O N N 79 DC "O5'" O N N 80 DC "C5'" C N N 81 DC "C4'" C N R 82 DC "O4'" O N N 83 DC "C3'" C N S 84 DC "O3'" O N N 85 DC "C2'" C N N 86 DC "C1'" C N R 87 DC N1 N N N 88 DC C2 C N N 89 DC O2 O N N 90 DC N3 N N N 91 DC C4 C N N 92 DC N4 N N N 93 DC C5 C N N 94 DC C6 C N N 95 DC HOP3 H N N 96 DC HOP2 H N N 97 DC "H5'" H N N 98 DC "H5''" H N N 99 DC "H4'" H N N 100 DC "H3'" H N N 101 DC "HO3'" H N N 102 DC "H2'" H N N 103 DC "H2''" H N N 104 DC "H1'" H N N 105 DC H41 H N N 106 DC H42 H N N 107 DC H5 H N N 108 DC H6 H N N 109 DG OP3 O N N 110 DG P P N N 111 DG OP1 O N N 112 DG OP2 O N N 113 DG "O5'" O N N 114 DG "C5'" C N N 115 DG "C4'" C N R 116 DG "O4'" O N N 117 DG "C3'" C N S 118 DG "O3'" O N N 119 DG "C2'" C N N 120 DG "C1'" C N R 121 DG N9 N Y N 122 DG C8 C Y N 123 DG N7 N Y N 124 DG C5 C Y N 125 DG C6 C N N 126 DG O6 O N N 127 DG N1 N N N 128 DG C2 C N N 129 DG N2 N N N 130 DG N3 N N N 131 DG C4 C Y N 132 DG HOP3 H N N 133 DG HOP2 H N N 134 DG "H5'" H N N 135 DG "H5''" H N N 136 DG "H4'" H N N 137 DG "H3'" H N N 138 DG "HO3'" H N N 139 DG "H2'" H N N 140 DG "H2''" H N N 141 DG "H1'" H N N 142 DG H8 H N N 143 DG H1 H N N 144 DG H21 H N N 145 DG H22 H N N 146 HOH O O N N 147 HOH H1 H N N 148 HOH H2 H N N 149 # 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 0KZ "O3'" "C3'" sing N N 1 0KZ "C7'" "C4'" sing N N 2 0KZ "C7'" "C6'" sing N N 3 0KZ "C4'" "C5'" sing N N 4 0KZ "C4'" "C3'" sing N N 5 0KZ "C4'" "C6'" sing N N 6 0KZ "C5'" "O5'" sing N N 7 0KZ "C3'" "C2'" sing N N 8 0KZ OP1 P doub N N 9 0KZ "C6'" "C1'" sing N N 10 0KZ "C2'" "C1'" sing N N 11 0KZ "O5'" P sing N N 12 0KZ "C1'" N1 sing N N 13 0KZ P OP2 sing N N 14 0KZ N1 C6 sing N N 15 0KZ N1 C2 sing N N 16 0KZ O2 C2 doub N N 17 0KZ C6 C5 doub N N 18 0KZ C2 N3 sing N N 19 0KZ C5 C7 sing N N 20 0KZ C5 C4 sing N N 21 0KZ N3 C4 sing N N 22 0KZ C4 O4 doub N N 23 0KZ N3 H1 sing N N 24 0KZ C6 H2 sing N N 25 0KZ C7 H3 sing N N 26 0KZ C7 H4 sing N N 27 0KZ C7 H5 sing N N 28 0KZ OP2 H7 sing N N 29 0KZ "C5'" H8 sing N N 30 0KZ "C5'" H9 sing N N 31 0KZ "C6'" H10 sing N N 32 0KZ "C7'" H11 sing N N 33 0KZ "C7'" H12 sing N N 34 0KZ "C1'" H13 sing N N 35 0KZ "C2'" H14 sing N N 36 0KZ "C2'" H15 sing N N 37 0KZ "C3'" H16 sing N N 38 0KZ "O3'" H17 sing N N 39 0KZ P OP3 sing N N 40 0KZ OP3 H19 sing N N 41 DA OP3 P sing N N 42 DA OP3 HOP3 sing N N 43 DA P OP1 doub N N 44 DA P OP2 sing N N 45 DA P "O5'" sing N N 46 DA OP2 HOP2 sing N N 47 DA "O5'" "C5'" sing N N 48 DA "C5'" "C4'" sing N N 49 DA "C5'" "H5'" sing N N 50 DA "C5'" "H5''" sing N N 51 DA "C4'" "O4'" sing N N 52 DA "C4'" "C3'" sing N N 53 DA "C4'" "H4'" sing N N 54 DA "O4'" "C1'" sing N N 55 DA "C3'" "O3'" sing N N 56 DA "C3'" "C2'" sing N N 57 DA "C3'" "H3'" sing N N 58 DA "O3'" "HO3'" sing N N 59 DA "C2'" "C1'" sing N N 60 DA "C2'" "H2'" sing N N 61 DA "C2'" "H2''" sing N N 62 DA "C1'" N9 sing N N 63 DA "C1'" "H1'" sing N N 64 DA N9 C8 sing Y N 65 DA N9 C4 sing Y N 66 DA C8 N7 doub Y N 67 DA C8 H8 sing N N 68 DA N7 C5 sing Y N 69 DA C5 C6 sing Y N 70 DA C5 C4 doub Y N 71 DA C6 N6 sing N N 72 DA C6 N1 doub Y N 73 DA N6 H61 sing N N 74 DA N6 H62 sing N N 75 DA N1 C2 sing Y N 76 DA C2 N3 doub Y N 77 DA C2 H2 sing N N 78 DA N3 C4 sing Y N 79 DC OP3 P sing N N 80 DC OP3 HOP3 sing N N 81 DC P OP1 doub N N 82 DC P OP2 sing N N 83 DC P "O5'" sing N N 84 DC OP2 HOP2 sing N N 85 DC "O5'" "C5'" sing N N 86 DC "C5'" "C4'" sing N N 87 DC "C5'" "H5'" sing N N 88 DC "C5'" "H5''" sing N N 89 DC "C4'" "O4'" sing N N 90 DC "C4'" "C3'" sing N N 91 DC "C4'" "H4'" sing N N 92 DC "O4'" "C1'" sing N N 93 DC "C3'" "O3'" sing N N 94 DC "C3'" "C2'" sing N N 95 DC "C3'" "H3'" sing N N 96 DC "O3'" "HO3'" sing N N 97 DC "C2'" "C1'" sing N N 98 DC "C2'" "H2'" sing N N 99 DC "C2'" "H2''" sing N N 100 DC "C1'" N1 sing N N 101 DC "C1'" "H1'" sing N N 102 DC N1 C2 sing N N 103 DC N1 C6 sing N N 104 DC C2 O2 doub N N 105 DC C2 N3 sing N N 106 DC N3 C4 doub N N 107 DC C4 N4 sing N N 108 DC C4 C5 sing N N 109 DC N4 H41 sing N N 110 DC N4 H42 sing N N 111 DC C5 C6 doub N N 112 DC C5 H5 sing N N 113 DC C6 H6 sing N N 114 DG OP3 P sing N N 115 DG OP3 HOP3 sing N N 116 DG P OP1 doub N N 117 DG P OP2 sing N N 118 DG P "O5'" sing N N 119 DG OP2 HOP2 sing N N 120 DG "O5'" "C5'" sing N N 121 DG "C5'" "C4'" sing N N 122 DG "C5'" "H5'" sing N N 123 DG "C5'" "H5''" sing N N 124 DG "C4'" "O4'" sing N N 125 DG "C4'" "C3'" sing N N 126 DG "C4'" "H4'" sing N N 127 DG "O4'" "C1'" sing N N 128 DG "C3'" "O3'" sing N N 129 DG "C3'" "C2'" sing N N 130 DG "C3'" "H3'" sing N N 131 DG "O3'" "HO3'" sing N N 132 DG "C2'" "C1'" sing N N 133 DG "C2'" "H2'" sing N N 134 DG "C2'" "H2''" sing N N 135 DG "C1'" N9 sing N N 136 DG "C1'" "H1'" sing N N 137 DG N9 C8 sing Y N 138 DG N9 C4 sing Y N 139 DG C8 N7 doub Y N 140 DG C8 H8 sing N N 141 DG N7 C5 sing Y N 142 DG C5 C6 sing N N 143 DG C5 C4 doub Y N 144 DG C6 O6 doub N N 145 DG C6 N1 sing N N 146 DG N1 C2 sing N N 147 DG N1 H1 sing N N 148 DG C2 N2 sing N N 149 DG C2 N3 doub N N 150 DG N2 H21 sing N N 151 DG N2 H22 sing N N 152 DG N3 C4 sing N N 153 HOH O H1 sing N N 154 HOH O H2 sing N N 155 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 4DKZ 'z-form double helix' 4DKZ 'hairpin loop' # 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 9 1_555 A DG 4 1_555 -0.046 -0.139 -0.223 7.268 2.058 0.947 1 A_DC109:DG104_A A 109 ? A 104 ? 19 1 1 A DG 10 1_555 A DC 3 1_555 0.397 -0.201 0.068 2.946 2.949 2.022 2 A_DG110:DC103_A A 110 ? A 103 ? 19 1 1 A DC 11 1_555 A DG 2 1_555 -0.350 -0.120 0.234 5.397 3.410 1.742 3 A_DC111:DG102_A A 111 ? A 102 ? 19 1 1 A DG 12 1_555 A DC 1 1_555 0.165 -0.153 0.137 1.538 -6.686 1.062 4 A_DG112:DC101_A A 112 ? A 101 ? 19 1 1 B DC 1 1_555 B DG 12 1_555 -0.219 -0.086 0.152 -2.368 -9.048 1.525 5 B_DC201:DG212_B B 201 ? B 212 ? 19 1 1 B DG 2 1_555 B DC 11 1_555 0.320 -0.137 0.119 -5.269 4.208 1.716 6 B_DG202:DC211_B B 202 ? B 211 ? 19 1 1 B DC 3 1_555 B DG 10 1_555 -0.384 -0.149 0.162 -3.405 0.073 1.973 7 B_DC203:DG210_B B 203 ? B 210 ? 19 1 1 B DG 4 1_555 B DC 9 1_555 0.178 -0.149 -0.289 -5.472 4.235 1.228 8 B_DG204:DC209_B B 204 ? B 209 ? 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 9 1_555 A DG 4 1_555 A DG 10 1_555 A DC 3 1_555 -0.067 5.292 3.572 -0.169 -6.446 -10.807 -12.434 -0.614 5.774 30.877 -0.810 -12.580 1 AA_DC109DG110:DC103DG104_AA A 109 ? A 104 ? A 110 ? A 103 ? 1 A DG 10 1_555 A DC 3 1_555 A DC 11 1_555 A DG 2 1_555 -0.114 -1.233 3.316 -1.452 -5.429 -52.016 1.756 -0.224 3.177 6.169 -1.650 -52.298 2 AA_DG110DC111:DG102DC103_AA A 110 ? A 103 ? A 111 ? A 102 ? 1 A DC 11 1_555 A DG 2 1_555 A DG 12 1_555 A DC 1 1_555 -0.173 5.507 3.710 -1.451 0.120 -7.739 -40.506 -6.152 3.530 -0.880 -10.629 -7.874 3 AA_DC111DG112:DC101DG102_AA A 111 ? A 102 ? A 112 ? A 101 ? 1 A DG 12 1_555 A DC 1 1_555 B DC 1 1_555 B DG 12 1_555 0.061 2.000 3.440 -0.205 -8.130 12.241 13.945 -0.393 1.766 -33.684 0.850 14.688 4 AB_DG112DC201:DG212DC101_BA A 112 ? A 101 ? B 201 ? B 212 ? 1 B DC 1 1_555 B DG 12 1_555 B DG 2 1_555 B DC 11 1_555 0.077 5.455 3.620 2.577 0.690 -7.972 -39.102 7.584 2.963 -4.791 17.892 -8.406 5 BB_DC201DG202:DC211DG212_BB B 201 ? B 212 ? B 202 ? B 211 ? 1 B DG 2 1_555 B DC 11 1_555 B DC 3 1_555 B DG 10 1_555 0.025 -1.311 3.379 -0.863 -6.059 -50.789 1.943 -0.031 3.213 7.035 -1.002 -51.132 6 BB_DG202DC203:DG210DC211_BB B 202 ? B 211 ? B 203 ? B 210 ? 1 B DC 3 1_555 B DG 10 1_555 B DG 4 1_555 B DC 9 1_555 0.176 5.322 3.520 2.840 -4.860 -10.114 -16.659 6.563 5.265 25.169 14.705 -11.571 7 BB_DC203DG204:DC209DG210_BB B 203 ? B 210 ? B 204 ? B 209 ? # _atom_sites.entry_id 4DKZ _atom_sites.fract_transf_matrix[1][1] 0.041152 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.002041 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.028345 _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] 0.027274 _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 # loop_