data_1DCW # _entry.id 1DCW # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.386 _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 1DCW pdb_00001dcw 10.2210/pdb1dcw/pdb NDB UD0008 ? ? RCSB RCSB009977 ? ? WWPDB D_1000009977 ? ? # 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 2000-04-17 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-07 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' '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' pdbx_struct_conn_angle 5 4 'Structure model' struct_conn 6 4 '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 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 7 4 'Structure model' '_struct_conn.pdbx_dist_value' 8 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 9 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 10 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 11 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 12 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 13 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 14 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 15 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 16 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 17 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 18 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 19 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 20 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 21 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 22 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 23 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 24 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1DCW _pdbx_database_status.recvd_initial_deposition_date 1999-11-05 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # _pdbx_database_related.db_name NDB _pdbx_database_related.db_id BD0028 _pdbx_database_related.details CCGCTAGCGG _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Eichman, B.F.' 1 'Vargason, J.M.' 2 'Mooers, B.H.M.' 3 'Ho, P.S.' 4 # _citation.id primary _citation.title 'The Holliday junction in an inverted repeat DNA sequence: sequence effects on the structure of four-way junctions.' _citation.journal_abbrev Proc.Natl.Acad.Sci.USA _citation.journal_volume 97 _citation.page_first 3971 _citation.page_last 3976 _citation.year 2000 _citation.journal_id_ASTM PNASA6 _citation.country US _citation.journal_id_ISSN 0027-8424 _citation.journal_id_CSD 0040 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 10760268 _citation.pdbx_database_id_DOI 10.1073/pnas.97.8.3971 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Eichman, B.F.' 1 ? primary 'Vargason, J.M.' 2 ? primary 'Mooers, B.H.' 3 ? primary 'Ho, P.S.' 4 ? # 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(*CP*CP*GP*GP*TP*AP*CP*CP*GP*G)-3') ; 3045.992 4 ? ? ? ? 2 non-polymer syn 'SODIUM ION' 22.990 1 ? ? ? ? 3 water nat water 18.015 91 ? ? ? ? # _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)(DC)(DG)(DG)(DT)(DA)(DC)(DC)(DG)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CCGGTACCGG _entity_poly.pdbx_strand_id A,B,C,D _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'SODIUM ION' NA 3 water 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 DC n 1 3 DG n 1 4 DG n 1 5 DT n 1 6 DA n 1 7 DC n 1 8 DC n 1 9 DG n 1 10 DG n # 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 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 HOH non-polymer . WATER ? 'H2 O' 18.015 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 # 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 DC 2 2 2 DC C A . n A 1 3 DG 3 3 3 DG G A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 DT 5 5 5 DT T A . n A 1 6 DA 6 6 6 DA A A . n A 1 7 DC 7 7 7 DC C A . n A 1 8 DC 8 8 8 DC C A . n A 1 9 DG 9 9 9 DG G A . n A 1 10 DG 10 10 10 DG G A . n B 1 1 DC 1 1 1 DC C B . n B 1 2 DC 2 2 2 DC C B . n B 1 3 DG 3 3 3 DG G B . n B 1 4 DG 4 4 4 DG G B . n B 1 5 DT 5 5 5 DT T B . n B 1 6 DA 6 6 6 DA A B . n B 1 7 DC 7 7 7 DC C B . n B 1 8 DC 8 8 8 DC C B . n B 1 9 DG 9 9 9 DG G B . n B 1 10 DG 10 10 10 DG G B . n C 1 1 DC 1 1 1 DC C C . n C 1 2 DC 2 2 2 DC C C . n C 1 3 DG 3 3 3 DG G C . n C 1 4 DG 4 4 4 DG G C . n C 1 5 DT 5 5 5 DT T C . n C 1 6 DA 6 6 6 DA A C . n C 1 7 DC 7 7 7 DC C C . n C 1 8 DC 8 8 8 DC C C . n C 1 9 DG 9 9 9 DG G C . n C 1 10 DG 10 10 10 DG G C . n D 1 1 DC 1 1 1 DC C D . n D 1 2 DC 2 2 2 DC C D . n D 1 3 DG 3 3 3 DG G D . n D 1 4 DG 4 4 4 DG G D . n D 1 5 DT 5 5 5 DT T D . n D 1 6 DA 6 6 6 DA A D . n D 1 7 DC 7 7 7 DC C D . n D 1 8 DC 8 8 8 DC C D . n D 1 9 DG 9 9 9 DG G D . n D 1 10 DG 10 10 10 DG G 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 2 NA 1 11 11 NA NA D . F 3 HOH 1 15 15 HOH HOH A . F 3 HOH 2 18 18 HOH HOH A . F 3 HOH 3 19 19 HOH HOH A . F 3 HOH 4 21 21 HOH HOH A . F 3 HOH 5 37 37 HOH HOH A . F 3 HOH 6 38 38 HOH HOH A . F 3 HOH 7 40 40 HOH HOH A . F 3 HOH 8 41 41 HOH HOH A . F 3 HOH 9 42 42 HOH HOH A . F 3 HOH 10 44 44 HOH HOH A . F 3 HOH 11 45 45 HOH HOH A . F 3 HOH 12 51 51 HOH HOH A . F 3 HOH 13 52 52 HOH HOH A . F 3 HOH 14 54 54 HOH HOH A . F 3 HOH 15 79 79 HOH HOH A . F 3 HOH 16 80 80 HOH HOH A . F 3 HOH 17 87 87 HOH HOH A . F 3 HOH 18 88 88 HOH HOH A . F 3 HOH 19 89 89 HOH HOH A . F 3 HOH 20 92 92 HOH HOH A . F 3 HOH 21 94 94 HOH HOH A . F 3 HOH 22 95 95 HOH HOH A . F 3 HOH 23 96 96 HOH HOH A . F 3 HOH 24 100 100 HOH HOH A . F 3 HOH 25 101 101 HOH HOH A . F 3 HOH 26 102 102 HOH HOH A . G 3 HOH 1 13 13 HOH HOH B . G 3 HOH 2 20 20 HOH HOH B . G 3 HOH 3 22 22 HOH HOH B . G 3 HOH 4 23 23 HOH HOH B . G 3 HOH 5 24 24 HOH HOH B . G 3 HOH 6 32 32 HOH HOH B . G 3 HOH 7 33 33 HOH HOH B . G 3 HOH 8 43 43 HOH HOH B . G 3 HOH 9 50 50 HOH HOH B . G 3 HOH 10 58 58 HOH HOH B . G 3 HOH 11 61 61 HOH HOH B . G 3 HOH 12 66 66 HOH HOH B . G 3 HOH 13 69 69 HOH HOH B . G 3 HOH 14 74 74 HOH HOH B . G 3 HOH 15 75 75 HOH HOH B . G 3 HOH 16 76 76 HOH HOH B . G 3 HOH 17 81 81 HOH HOH B . G 3 HOH 18 84 84 HOH HOH B . G 3 HOH 19 86 86 HOH HOH B . G 3 HOH 20 90 90 HOH HOH B . G 3 HOH 21 91 91 HOH HOH B . G 3 HOH 22 93 93 HOH HOH B . H 3 HOH 1 12 12 HOH HOH C . H 3 HOH 2 14 14 HOH HOH C . H 3 HOH 3 25 25 HOH HOH C . H 3 HOH 4 26 26 HOH HOH C . H 3 HOH 5 31 31 HOH HOH C . H 3 HOH 6 39 39 HOH HOH C . H 3 HOH 7 53 53 HOH HOH C . H 3 HOH 8 57 57 HOH HOH C . H 3 HOH 9 59 59 HOH HOH C . H 3 HOH 10 60 60 HOH HOH C . H 3 HOH 11 63 63 HOH HOH C . H 3 HOH 12 64 64 HOH HOH C . H 3 HOH 13 65 65 HOH HOH C . H 3 HOH 14 67 67 HOH HOH C . H 3 HOH 15 68 68 HOH HOH C . H 3 HOH 16 72 72 HOH HOH C . H 3 HOH 17 82 82 HOH HOH C . H 3 HOH 18 83 83 HOH HOH C . H 3 HOH 19 97 97 HOH HOH C . H 3 HOH 20 98 98 HOH HOH C . H 3 HOH 21 99 99 HOH HOH C . I 3 HOH 1 16 16 HOH HOH D . I 3 HOH 2 17 17 HOH HOH D . I 3 HOH 3 27 27 HOH HOH D . I 3 HOH 4 28 28 HOH HOH D . I 3 HOH 5 29 29 HOH HOH D . I 3 HOH 6 30 30 HOH HOH D . I 3 HOH 7 34 34 HOH HOH D . I 3 HOH 8 35 35 HOH HOH D . I 3 HOH 9 36 36 HOH HOH D . I 3 HOH 10 46 46 HOH HOH D . I 3 HOH 11 47 47 HOH HOH D . I 3 HOH 12 48 48 HOH HOH D . I 3 HOH 13 49 49 HOH HOH D . I 3 HOH 14 55 55 HOH HOH D . I 3 HOH 15 56 56 HOH HOH D . I 3 HOH 16 62 62 HOH HOH D . I 3 HOH 17 70 70 HOH HOH D . I 3 HOH 18 71 71 HOH HOH D . I 3 HOH 19 73 73 HOH HOH D . I 3 HOH 20 77 77 HOH HOH D . I 3 HOH 21 78 78 HOH HOH D . I 3 HOH 22 85 85 HOH HOH D . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal AMoRE phasing . ? 1 X-PLOR refinement 3.851 ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 # _cell.entry_id 1DCW _cell.length_a 66.500 _cell.length_b 23.500 _cell.length_c 76.900 _cell.angle_alpha 90.00 _cell.angle_beta 114.80 _cell.angle_gamma 90.00 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DCW _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting monoclinic _symmetry.Int_Tables_number 5 # _exptl.entry_id 1DCW _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.24 _exptl_crystal.density_percent_sol 45.05 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.00 _exptl_crystal_grow.pdbx_details 'MPD, CACL2, SODIUM CACODYLATE, pH 7.00' _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 CACL2 ? ? ? 1 2 1 'SODIUM CACODYLATE' ? ? ? 1 3 1 MPD ? ? ? 1 4 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 93.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 4' _diffrn_detector.pdbx_collection_date 1999-10-08 _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 ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.100 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ALS BEAMLINE 5.0.2' _diffrn_source.pdbx_synchrotron_site ALS _diffrn_source.pdbx_synchrotron_beamline 5.0.2 _diffrn_source.pdbx_wavelength 1.100 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1DCW _reflns.observed_criterion_sigma_I 0.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 30.160 _reflns.d_resolution_high 2.100 _reflns.number_obs 6322 _reflns.number_all ? _reflns.percent_possible_obs 97.4 _reflns.pdbx_Rmerge_I_obs 0.0450000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 15.6000 _reflns.B_iso_Wilson_estimate 21.60 _reflns.pdbx_redundancy 2.900 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.10 _reflns_shell.d_res_low 2.18 _reflns_shell.percent_possible_all 96.7 _reflns_shell.Rmerge_I_obs 0.2180000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.7 _reflns_shell.pdbx_redundancy 2.70 _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1DCW _refine.ls_number_reflns_obs 5723 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 3.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 8.00 _refine.ls_d_res_high 2.10 _refine.ls_percent_reflns_obs 88.9 _refine.ls_R_factor_obs 0.2300000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2300000 _refine.ls_R_factor_R_free 0.3170000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10.000 _refine.ls_number_reflns_R_free 598 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] -8.5841 _refine.aniso_B[2][2] 16.8867 _refine.aniso_B[3][3] -8.3025 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] -1.8465 _refine.aniso_B[2][3] 0.0000 _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'ANISOTROPIC B VALUES WERE APPLIED TO FCALC DURING REFINEMENT IN ORDER TO SCALE FCALC TO FOBS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _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.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _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 808 _refine_hist.pdbx_number_atoms_ligand 1 _refine_hist.number_atoms_solvent 91 _refine_hist.number_atoms_total 900 _refine_hist.d_res_high 2.10 _refine_hist.d_res_low 8.00 # 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 x_bond_d 0.017 ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg 1.90 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 8 _refine_ls_shell.d_res_high 2.10 _refine_ls_shell.d_res_low 2.19 _refine_ls_shell.number_reflns_R_work 450 _refine_ls_shell.R_factor_R_work ? _refine_ls_shell.percent_reflns_obs 68.0 _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 55 _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # _database_PDB_matrix.entry_id 1DCW _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 1DCW _struct.title 'STRUCTURE OF A FOUR-WAY JUNCTION IN AN INVERTED REPEAT SEQUENCE.' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1DCW _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'HOLLIDAY JUNCTION, INVERTED REPEAT, FOUR-WAY JUNCTION, DEOXYRIBONUCLEIC ACID, 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 1 ? D N N 1 ? E N N 2 ? F N N 3 ? G N N 3 ? H N N 3 ? I N N 3 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1DCW _struct_ref.pdbx_db_accession 1DCW _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # 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 1DCW A 1 ? 10 ? 1DCW 1 ? 10 ? 1 10 2 1 1DCW B 1 ? 10 ? 1DCW 1 ? 10 ? 1 10 3 1 1DCW C 1 ? 10 ? 1DCW 1 ? 10 ? 1 10 4 1 1DCW D 1 ? 10 ? 1DCW 1 ? 10 ? 1 10 # _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,G,H,I # _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 # 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 metalc1 metalc ? ? B DA 6 OP2 ? ? ? 1_555 E NA . NA ? ? B DA 6 D NA 11 1_555 ? ? ? ? ? ? ? 2.547 ? ? metalc2 metalc ? ? D DA 6 OP2 ? ? ? 1_555 E NA . NA ? ? D DA 6 D NA 11 1_555 ? ? ? ? ? ? ? 2.504 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 D DG 10 N1 ? ? A DC 1 D DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 D DG 10 O6 ? ? A DC 1 D DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 D DG 10 N2 ? ? A DC 1 D DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 D DG 9 N1 ? ? A DC 2 D DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 D DG 9 O6 ? ? A DC 2 D DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 D DG 9 N2 ? ? A DC 2 D DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N1 ? ? ? 1_555 D DC 8 N3 ? ? A DG 3 D DC 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 N2 ? ? ? 1_555 D DC 8 O2 ? ? A DG 3 D DC 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 3 O6 ? ? ? 1_555 D DC 8 N4 ? ? A DG 3 D DC 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 D DC 7 N3 ? ? A DG 4 D DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 D DC 7 O2 ? ? A DG 4 D DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 D DC 7 N4 ? ? A DG 4 D DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DT 5 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 5 B DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DT 5 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 5 B DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 5 N3 ? ? A DA 6 B DT 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 5 O4 ? ? A DA 6 B DT 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 7 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 7 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 7 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 7 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 7 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 7 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 8 B DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 8 B DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 8 B DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 9 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 9 B DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 9 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 9 B DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 9 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 9 B DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 10 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 10 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 10 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? B DC 7 N3 ? ? ? 1_555 C DG 4 N1 ? ? B DC 7 C DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? B DC 7 N4 ? ? ? 1_555 C DG 4 O6 ? ? B DC 7 C DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? B DC 7 O2 ? ? ? 1_555 C DG 4 N2 ? ? B DC 7 C DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? B DC 8 N3 ? ? ? 1_555 C DG 3 N1 ? ? B DC 8 C DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? B DC 8 N4 ? ? ? 1_555 C DG 3 O6 ? ? B DC 8 C DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? B DC 8 O2 ? ? ? 1_555 C DG 3 N2 ? ? B DC 8 C DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? B DG 9 N1 ? ? ? 1_555 C DC 2 N3 ? ? B DG 9 C DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? B DG 9 N2 ? ? ? 1_555 C DC 2 O2 ? ? B DG 9 C DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? B DG 9 O6 ? ? ? 1_555 C DC 2 N4 ? ? B DG 9 C DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? B DG 10 N1 ? ? ? 1_555 C DC 1 N3 ? ? B DG 10 C DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? B DG 10 N2 ? ? ? 1_555 C DC 1 O2 ? ? B DG 10 C DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? B DG 10 O6 ? ? ? 1_555 C DC 1 N4 ? ? B DG 10 C DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? C DT 5 N3 ? ? ? 1_555 D DA 6 N1 ? ? C DT 5 D DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? C DT 5 O4 ? ? ? 1_555 D DA 6 N6 ? ? C DT 5 D DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C DA 6 N1 ? ? ? 1_555 D DT 5 N3 ? ? C DA 6 D DT 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? C DA 6 N6 ? ? ? 1_555 D DT 5 O4 ? ? C DA 6 D DT 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? C DC 7 N3 ? ? ? 1_555 D DG 4 N1 ? ? C DC 7 D DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? C DC 7 N4 ? ? ? 1_555 D DG 4 O6 ? ? C DC 7 D DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? C DC 7 O2 ? ? ? 1_555 D DG 4 N2 ? ? C DC 7 D DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? C DC 8 N3 ? ? ? 1_555 D DG 3 N1 ? ? C DC 8 D DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? C DC 8 N4 ? ? ? 1_555 D DG 3 O6 ? ? C DC 8 D DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? C DC 8 O2 ? ? ? 1_555 D DG 3 N2 ? ? C DC 8 D DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? C DG 9 N1 ? ? ? 1_555 D DC 2 N3 ? ? C DG 9 D DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? C DG 9 N2 ? ? ? 1_555 D DC 2 O2 ? ? C DG 9 D DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? C DG 9 O6 ? ? ? 1_555 D DC 2 N4 ? ? C DG 9 D DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? C DG 10 N1 ? ? ? 1_555 D DC 1 N3 ? ? C DG 10 D DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? C DG 10 N2 ? ? ? 1_555 D DC 1 O2 ? ? C DG 10 D DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? C DG 10 O6 ? ? ? 1_555 D DC 1 N4 ? ? C DG 10 D DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # _pdbx_struct_conn_angle.id 1 _pdbx_struct_conn_angle.ptnr1_label_atom_id OP2 _pdbx_struct_conn_angle.ptnr1_label_alt_id ? _pdbx_struct_conn_angle.ptnr1_label_asym_id B _pdbx_struct_conn_angle.ptnr1_label_comp_id DA _pdbx_struct_conn_angle.ptnr1_label_seq_id 6 _pdbx_struct_conn_angle.ptnr1_auth_atom_id ? _pdbx_struct_conn_angle.ptnr1_auth_asym_id B _pdbx_struct_conn_angle.ptnr1_auth_comp_id DA _pdbx_struct_conn_angle.ptnr1_auth_seq_id 6 _pdbx_struct_conn_angle.ptnr1_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr1_symmetry 1_555 _pdbx_struct_conn_angle.ptnr2_label_atom_id NA _pdbx_struct_conn_angle.ptnr2_label_alt_id ? _pdbx_struct_conn_angle.ptnr2_label_asym_id E _pdbx_struct_conn_angle.ptnr2_label_comp_id NA _pdbx_struct_conn_angle.ptnr2_label_seq_id . _pdbx_struct_conn_angle.ptnr2_auth_atom_id ? _pdbx_struct_conn_angle.ptnr2_auth_asym_id D _pdbx_struct_conn_angle.ptnr2_auth_comp_id NA _pdbx_struct_conn_angle.ptnr2_auth_seq_id 11 _pdbx_struct_conn_angle.ptnr2_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr2_symmetry 1_555 _pdbx_struct_conn_angle.ptnr3_label_atom_id OP2 _pdbx_struct_conn_angle.ptnr3_label_alt_id ? _pdbx_struct_conn_angle.ptnr3_label_asym_id D _pdbx_struct_conn_angle.ptnr3_label_comp_id DA _pdbx_struct_conn_angle.ptnr3_label_seq_id 6 _pdbx_struct_conn_angle.ptnr3_auth_atom_id ? _pdbx_struct_conn_angle.ptnr3_auth_asym_id D _pdbx_struct_conn_angle.ptnr3_auth_comp_id DA _pdbx_struct_conn_angle.ptnr3_auth_seq_id 6 _pdbx_struct_conn_angle.ptnr3_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr3_symmetry 1_555 _pdbx_struct_conn_angle.value 125.8 _pdbx_struct_conn_angle.value_esd ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id D _struct_site.pdbx_auth_comp_id NA _struct_site.pdbx_auth_seq_id 11 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 2 _struct_site.details 'BINDING SITE FOR RESIDUE NA D 11' # 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 2 DA B 6 ? DA B 6 . ? 1_555 ? 2 AC1 2 DA D 6 ? DA D 6 . ? 1_555 ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "C4'" A DC 7 ? ? "C3'" A DC 7 ? ? 1.439 1.521 -0.082 0.010 N 2 1 N1 A DC 8 ? ? C2 A DC 8 ? ? 1.337 1.397 -0.060 0.010 N 3 1 N3 B DC 8 ? ? C4 B DC 8 ? ? 1.291 1.335 -0.044 0.007 N 4 1 C4 C DT 5 ? ? C5 C DT 5 ? ? 1.389 1.445 -0.056 0.009 N 5 1 N3 C DC 7 ? ? C4 C DC 7 ? ? 1.283 1.335 -0.052 0.007 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O3'" A DT 5 ? ? P A DA 6 ? ? OP2 A DA 6 ? ? 117.77 110.50 7.27 1.10 Y 2 1 "C5'" A DC 7 ? ? "C4'" A DC 7 ? ? "O4'" A DC 7 ? ? 119.67 109.80 9.87 1.10 N 3 1 "C5'" C DC 7 ? ? "C4'" C DC 7 ? ? "O4'" C DC 7 ? ? 119.62 109.80 9.82 1.10 N 4 1 "C5'" C DG 10 ? ? "C4'" C DG 10 ? ? "O4'" C DG 10 ? ? 117.35 109.80 7.55 1.10 N 5 1 "O5'" D DC 7 ? ? P D DC 7 ? ? OP1 D DC 7 ? ? 100.09 105.70 -5.61 0.90 N # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DA A 6 ? ? 0.084 'SIDE CHAIN' 2 1 DC A 7 ? ? 0.068 'SIDE CHAIN' 3 1 DC B 2 ? ? 0.066 'SIDE CHAIN' 4 1 DG B 3 ? ? 0.083 'SIDE CHAIN' 5 1 DG B 4 ? ? 0.081 'SIDE CHAIN' 6 1 DC B 8 ? ? 0.067 'SIDE CHAIN' 7 1 DG B 10 ? ? 0.093 'SIDE CHAIN' 8 1 DG C 9 ? ? 0.058 'SIDE CHAIN' 9 1 DG D 3 ? ? 0.088 'SIDE CHAIN' 10 1 DG D 4 ? ? 0.080 'SIDE CHAIN' # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 38 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id F _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # 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 DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 HOH O O N N 144 HOH H1 H N N 145 HOH H2 H N N 146 NA NA NA N N 147 # 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 HOH O H1 sing N N 150 HOH O H2 sing N N 151 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1DCW 'b-form double helix' 1DCW 'four-way junction' # 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 D DG 10 1_555 0.513 -0.058 0.349 -3.786 -16.666 -1.566 1 A_DC1:DG10_D A 1 ? D 10 ? 19 1 1 A DC 2 1_555 D DG 9 1_555 0.197 -0.401 0.214 2.811 -5.369 -1.733 2 A_DC2:DG9_D A 2 ? D 9 ? 19 1 1 A DG 3 1_555 D DC 8 1_555 -0.271 -0.164 0.268 -0.185 -5.491 -4.215 3 A_DG3:DC8_D A 3 ? D 8 ? 19 1 1 A DG 4 1_555 D DC 7 1_555 -0.565 0.006 0.392 0.177 -12.156 4.040 4 A_DG4:DC7_D A 4 ? D 7 ? 19 1 1 A DT 5 1_555 B DA 6 1_555 0.216 -0.052 0.304 -7.598 -11.751 -6.812 5 A_DT5:DA6_B A 5 ? B 6 ? 20 1 1 A DA 6 1_555 B DT 5 1_555 0.492 -0.157 -0.006 6.124 -7.988 -7.691 6 A_DA6:DT5_B A 6 ? B 5 ? 20 1 1 A DC 7 1_555 B DG 4 1_555 0.316 -0.267 0.318 -1.020 -17.165 -4.647 7 A_DC7:DG4_B A 7 ? B 4 ? 19 1 1 A DC 8 1_555 B DG 3 1_555 0.284 -0.153 -0.089 -5.572 -3.171 -1.222 8 A_DC8:DG3_B A 8 ? B 3 ? 19 1 1 A DG 9 1_555 B DC 2 1_555 0.132 -0.259 -0.158 -4.353 -5.843 -3.215 9 A_DG9:DC2_B A 9 ? B 2 ? 19 1 1 A DG 10 1_555 B DC 1 1_555 0.335 -0.315 0.013 4.092 -10.456 -7.561 10 A_DG10:DC1_B A 10 ? B 1 ? 19 1 1 C DC 1 1_555 B DG 10 1_555 0.206 -0.014 0.701 -6.711 -12.020 2.300 11 C_DC1:DG10_B C 1 ? B 10 ? 19 1 1 C DC 2 1_555 B DG 9 1_555 0.280 -0.358 0.199 2.823 -5.268 -0.773 12 C_DC2:DG9_B C 2 ? B 9 ? 19 1 1 C DG 3 1_555 B DC 8 1_555 -0.175 -0.202 0.371 -1.318 -6.216 0.279 13 C_DG3:DC8_B C 3 ? B 8 ? 19 1 1 C DG 4 1_555 B DC 7 1_555 -0.552 -0.084 0.433 -1.384 -14.253 4.816 14 C_DG4:DC7_B C 4 ? B 7 ? 19 1 1 C DT 5 1_555 D DA 6 1_555 0.238 -0.164 0.122 -5.097 -10.436 -8.680 15 C_DT5:DA6_D C 5 ? D 6 ? 20 1 1 C DA 6 1_555 D DT 5 1_555 0.320 -0.146 0.086 7.753 -7.954 -8.055 16 C_DA6:DT5_D C 6 ? D 5 ? 20 1 1 C DC 7 1_555 D DG 4 1_555 0.217 -0.241 0.378 1.647 -13.984 -2.894 17 C_DC7:DG4_D C 7 ? D 4 ? 19 1 1 C DC 8 1_555 D DG 3 1_555 0.263 -0.273 -0.111 1.338 -6.593 -2.757 18 C_DC8:DG3_D C 8 ? D 3 ? 19 1 1 C DG 9 1_555 D DC 2 1_555 0.112 -0.321 0.034 -4.572 -8.973 -2.670 19 C_DG9:DC2_D C 9 ? D 2 ? 19 1 1 C DG 10 1_555 D DC 1 1_555 0.122 -0.251 0.410 5.491 -9.545 -4.540 20 C_DG10:DC1_D C 10 ? D 1 ? 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 D DG 10 1_555 A DC 2 1_555 D DG 9 1_555 0.069 2.259 3.351 4.424 6.468 39.196 2.502 0.450 3.650 9.526 -6.515 39.941 1 AA_DC1DC2:DG9DG10_DD A 1 ? D 10 ? A 2 ? D 9 ? 1 A DC 2 1_555 D DG 9 1_555 A DG 3 1_555 D DC 8 1_555 0.111 2.811 3.514 0.597 -2.154 35.845 4.883 -0.091 3.347 -3.496 -0.969 35.912 2 AA_DC2DG3:DC8DG9_DD A 2 ? D 9 ? A 3 ? D 8 ? 1 A DG 3 1_555 D DC 8 1_555 A DG 4 1_555 D DC 7 1_555 -0.131 2.095 3.523 -5.388 3.277 42.366 2.509 -0.414 3.657 4.504 7.406 42.811 3 AA_DG3DG4:DC7DC8_DD A 3 ? D 8 ? A 4 ? D 7 ? 1 A DG 4 1_555 D DC 7 1_555 A DT 5 1_555 B DA 6 1_555 -0.749 -0.516 3.492 -1.710 2.523 34.906 -1.261 0.970 3.479 4.196 2.844 35.034 4 AA_DG4DT5:DA6DC7_BD A 4 ? D 7 ? A 5 ? B 6 ? 1 A DT 5 1_555 B DA 6 1_555 A DA 6 1_555 B DT 5 1_555 0.059 1.195 3.179 2.241 2.010 33.401 1.746 0.260 3.241 3.488 -3.890 33.533 5 AA_DT5DA6:DT5DA6_BB A 5 ? B 6 ? A 6 ? B 5 ? 1 A DA 6 1_555 B DT 5 1_555 A DC 7 1_555 B DG 4 1_555 -0.424 0.560 3.513 -4.489 0.584 35.340 0.823 -0.014 3.547 0.957 7.357 35.619 6 AA_DA6DC7:DG4DT5_BB A 6 ? B 5 ? A 7 ? B 4 ? 1 A DC 7 1_555 B DG 4 1_555 A DC 8 1_555 B DG 3 1_555 0.990 1.577 3.469 7.859 2.158 38.461 2.063 -0.440 3.673 3.232 -11.770 39.283 7 AA_DC7DC8:DG3DG4_BB A 7 ? B 4 ? A 8 ? B 3 ? 1 A DC 8 1_555 B DG 3 1_555 A DG 9 1_555 B DC 2 1_555 -0.068 2.840 3.333 0.345 2.018 38.391 4.052 0.148 3.472 3.066 -0.524 38.444 8 AA_DC8DG9:DC2DG3_BB A 8 ? B 3 ? A 9 ? B 2 ? 1 A DG 9 1_555 B DC 2 1_555 A DG 10 1_555 B DC 1 1_555 -0.494 2.244 3.217 -5.976 4.739 37.306 2.817 -0.030 3.500 7.315 9.225 38.051 9 AA_DG9DG10:DC1DC2_BB A 9 ? B 2 ? A 10 ? B 1 ? 1 C DC 1 1_555 B DG 10 1_555 C DC 2 1_555 B DG 9 1_555 -0.023 2.252 3.240 7.767 4.902 41.660 2.590 0.837 3.414 6.794 -10.764 42.616 10 CC_DC1DC2:DG9DG10_BB C 1 ? B 10 ? C 2 ? B 9 ? 1 C DC 2 1_555 B DG 9 1_555 C DG 3 1_555 B DC 8 1_555 0.342 2.862 3.599 -0.046 -2.408 37.932 4.724 -0.532 3.417 -3.700 0.071 38.006 11 CC_DC2DG3:DC8DG9_BB C 2 ? B 9 ? C 3 ? B 8 ? 1 C DG 3 1_555 B DC 8 1_555 C DG 4 1_555 B DC 7 1_555 -0.147 2.149 3.533 -3.947 1.764 40.792 2.857 -0.262 3.617 2.522 5.644 41.011 12 CC_DG3DG4:DC7DC8_BB C 3 ? B 8 ? C 4 ? B 7 ? 1 C DG 4 1_555 B DC 7 1_555 C DT 5 1_555 D DA 6 1_555 -0.870 -0.540 3.329 -0.472 5.250 35.331 -1.646 1.349 3.229 8.591 0.772 35.710 13 CC_DG4DT5:DA6DC7_DB C 4 ? B 7 ? C 5 ? D 6 ? 1 C DT 5 1_555 D DA 6 1_555 C DA 6 1_555 D DT 5 1_555 0.106 1.184 3.222 1.011 -0.565 31.529 2.281 -0.010 3.202 -1.040 -1.860 31.549 14 CC_DT5DA6:DT5DA6_DD C 5 ? D 6 ? C 6 ? D 5 ? 1 C DA 6 1_555 D DT 5 1_555 C DC 7 1_555 D DG 4 1_555 -0.255 0.441 3.491 -3.361 0.926 35.565 0.575 -0.105 3.510 1.511 5.485 35.730 15 CC_DA6DC7:DG4DT5_DD C 6 ? D 5 ? C 7 ? D 4 ? 1 C DC 7 1_555 D DG 4 1_555 C DC 8 1_555 D DG 3 1_555 0.752 1.646 3.388 8.561 5.499 38.700 1.716 -0.022 3.657 8.128 -12.654 39.965 16 CC_DC7DC8:DG3DG4_DD C 7 ? D 4 ? C 8 ? D 3 ? 1 C DC 8 1_555 D DG 3 1_555 C DG 9 1_555 D DC 2 1_555 0.002 2.815 3.501 -1.934 0.076 39.306 4.171 -0.249 3.502 0.112 2.873 39.352 17 CC_DC8DG9:DC2DG3_DD C 8 ? D 3 ? C 9 ? D 2 ? 1 C DG 9 1_555 D DC 2 1_555 C DG 10 1_555 D DC 1 1_555 -0.301 2.220 3.314 -7.401 -0.083 37.691 3.387 -0.485 3.307 -0.128 11.323 38.384 18 CC_DG9DG10:DC1DC2_DD C 9 ? D 2 ? C 10 ? D 1 ? # _atom_sites.entry_id 1DCW _atom_sites.fract_transf_matrix[1][1] 0.015038 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.006948 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.042553 _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] 0.014325 _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 NA O P # loop_