data_1DJ6 # _entry.id 1DJ6 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _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 1DJ6 pdb_00001dj6 10.2210/pdb1dj6/pdb NDB ZD0003 ? ? RCSB RCSB010125 ? ? WWPDB D_1000010125 ? ? # 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 1999-12-18 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-04 5 'Structure model' 1 4 2018-04-04 6 'Structure model' 1 5 2024-02-07 7 'Structure model' 1 6 2024-04-03 # _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' 'Refinement description' 4 5 'Structure model' 'Data collection' 5 6 'Structure model' 'Data collection' 6 6 'Structure model' 'Database references' 7 6 'Structure model' 'Derived calculations' 8 7 '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 4 'Structure model' software 2 5 'Structure model' diffrn_source 3 6 'Structure model' chem_comp_atom 4 6 'Structure model' chem_comp_bond 5 6 'Structure model' database_2 6 6 'Structure model' pdbx_struct_conn_angle 7 6 'Structure model' struct_conn 8 6 'Structure model' struct_site 9 7 'Structure model' pdbx_initial_refinement_model # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_software.name' 2 5 'Structure model' '_diffrn_source.type' 3 6 'Structure model' '_database_2.pdbx_DOI' 4 6 'Structure model' '_database_2.pdbx_database_accession' 5 6 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 6 6 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 7 6 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 8 6 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 9 6 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 10 6 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 11 6 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 12 6 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 13 6 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 14 6 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 15 6 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 16 6 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 17 6 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 18 6 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 19 6 'Structure model' '_pdbx_struct_conn_angle.value' 20 6 'Structure model' '_struct_conn.pdbx_dist_value' 21 6 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 22 6 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 23 6 'Structure model' '_struct_conn.ptnr1_label_asym_id' 24 6 'Structure model' '_struct_conn.ptnr1_label_atom_id' 25 6 'Structure model' '_struct_conn.ptnr1_label_comp_id' 26 6 'Structure model' '_struct_conn.ptnr1_label_seq_id' 27 6 'Structure model' '_struct_conn.ptnr1_symmetry' 28 6 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 29 6 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 30 6 'Structure model' '_struct_conn.ptnr2_label_asym_id' 31 6 'Structure model' '_struct_conn.ptnr2_label_atom_id' 32 6 'Structure model' '_struct_conn.ptnr2_label_comp_id' 33 6 'Structure model' '_struct_conn.ptnr2_label_seq_id' 34 6 'Structure model' '_struct_conn.ptnr2_symmetry' 35 6 'Structure model' '_struct_site.pdbx_auth_asym_id' 36 6 'Structure model' '_struct_site.pdbx_auth_comp_id' 37 6 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1DJ6 _pdbx_database_status.recvd_initial_deposition_date 1999-12-01 _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.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 292D 'CRYSTAL STRUCTURE OF D(CG)3+PA(24) COMPLEX' unspecified PDB 293D 'CRYSTAL STRUCTURE OF D(CG)3+SPERMIDINE COMPLEX' unspecified PDB 336D 'CRYSTAL STRUCTURE OF D(CG)3+THERMOSPERMINE COMPLEX' unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Ohishi, H.' 1 'Tomita, K.-i.' 2 'Nakanishi, I.' 3 'Ohtsuchi, M.' 4 'Hakoshima, T.' 5 'Rich, A.' 6 # _citation.id primary _citation.title ;The crystal structure of N1-[2-(2-amino-ethylamino)-ethyl]-ethane-1,2-diamine (polyamines) binding to the minor groove of d(CGCGCG)2, hexamer at room temperature ; _citation.journal_abbrev 'FEBS Lett.' _citation.journal_volume 523 _citation.page_first 29 _citation.page_last 34 _citation.year 2002 _citation.journal_id_ASTM FEBLAL _citation.country NE _citation.journal_id_ISSN 0014-5793 _citation.journal_id_CSD 0165 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 12123799 _citation.pdbx_database_id_DOI '10.1016/S0014-5793(02)02922-8' # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ohishi, H.' 1 ? primary 'Suzuki, K.' 2 ? primary 'Ohtsuchi, M.' 3 ? primary 'Hakoshima, T.' 4 ? primary 'Rich, A.' 5 ? # 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 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 3 non-polymer syn "N,N'-BIS(2-AMINOETHYL)-1,2-ETHANEDIAMINE" 146.234 2 ? ? ? ? 4 water nat water 18.015 88 ? ? ? ? # _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_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MAGNESIUM ION' MG 3 "N,N'-BIS(2-AMINOETHYL)-1,2-ETHANEDIAMINE" 104 4 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 DG n 1 3 DC n 1 4 DG n 1 5 DC n 1 6 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 104 non-polymer . "N,N'-BIS(2-AMINOETHYL)-1,2-ETHANEDIAMINE" TRIENTINE 'C6 H18 N4' 146.234 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 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 # 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 MG 1 104 80 MG MG A . D 3 104 1 13 13 104 104 A . E 3 104 1 14 14 104 104 B . F 4 HOH 1 17 17 HOH WAT A . F 4 HOH 2 21 21 HOH WAT A . F 4 HOH 3 26 26 HOH WAT A . F 4 HOH 4 27 27 HOH WAT A . F 4 HOH 5 31 31 HOH WAT A . F 4 HOH 6 33 33 HOH WAT A . F 4 HOH 7 34 34 HOH WAT A . F 4 HOH 8 35 35 HOH WAT A . F 4 HOH 9 36 36 HOH WAT A . F 4 HOH 10 37 37 HOH WAT A . F 4 HOH 11 39 39 HOH WAT A . F 4 HOH 12 40 40 HOH WAT A . F 4 HOH 13 41 41 HOH WAT A . F 4 HOH 14 42 42 HOH WAT A . F 4 HOH 15 43 43 HOH WAT A . F 4 HOH 16 44 44 HOH WAT A . F 4 HOH 17 45 45 HOH WAT A . F 4 HOH 18 46 46 HOH WAT A . F 4 HOH 19 47 47 HOH WAT A . F 4 HOH 20 49 49 HOH WAT A . F 4 HOH 21 50 50 HOH WAT A . F 4 HOH 22 51 51 HOH WAT A . F 4 HOH 23 53 53 HOH WAT A . F 4 HOH 24 54 54 HOH WAT A . F 4 HOH 25 55 55 HOH WAT A . F 4 HOH 26 56 56 HOH WAT A . F 4 HOH 27 57 57 HOH WAT A . F 4 HOH 28 58 58 HOH WAT A . F 4 HOH 29 59 59 HOH WAT A . F 4 HOH 30 61 61 HOH WAT A . F 4 HOH 31 64 64 HOH WAT A . F 4 HOH 32 65 65 HOH WAT A . F 4 HOH 33 68 68 HOH WAT A . F 4 HOH 34 72 72 HOH WAT A . F 4 HOH 35 73 73 HOH WAT A . F 4 HOH 36 74 74 HOH WAT A . F 4 HOH 37 75 75 HOH WAT A . F 4 HOH 38 79 79 HOH WAT A . F 4 HOH 39 81 81 HOH WAT A . F 4 HOH 40 82 82 HOH WAT A . F 4 HOH 41 83 83 HOH WAT A . F 4 HOH 42 84 84 HOH WAT A . F 4 HOH 43 85 85 HOH WAT A . F 4 HOH 44 86 86 HOH WAT A . F 4 HOH 45 87 87 HOH WAT A . F 4 HOH 46 88 88 HOH WAT A . F 4 HOH 47 89 89 HOH WAT A . F 4 HOH 48 90 90 HOH WAT A . F 4 HOH 49 91 91 HOH WAT A . F 4 HOH 50 92 92 HOH WAT A . F 4 HOH 51 93 93 HOH WAT A . F 4 HOH 52 97 97 HOH WAT A . F 4 HOH 53 99 99 HOH WAT A . F 4 HOH 54 101 101 HOH WAT A . F 4 HOH 55 102 102 HOH WAT A . F 4 HOH 56 103 103 HOH WAT A . G 4 HOH 1 15 15 HOH WAT B . G 4 HOH 2 16 16 HOH WAT B . G 4 HOH 3 18 18 HOH WAT B . G 4 HOH 4 19 19 HOH WAT B . G 4 HOH 5 20 20 HOH WAT B . G 4 HOH 6 22 22 HOH WAT B . G 4 HOH 7 23 23 HOH WAT B . G 4 HOH 8 24 24 HOH WAT B . G 4 HOH 9 25 25 HOH WAT B . G 4 HOH 10 28 28 HOH WAT B . G 4 HOH 11 29 29 HOH WAT B . G 4 HOH 12 30 30 HOH WAT B . G 4 HOH 13 32 32 HOH WAT B . G 4 HOH 14 38 38 HOH WAT B . G 4 HOH 15 48 48 HOH WAT B . G 4 HOH 16 52 52 HOH WAT B . G 4 HOH 17 60 60 HOH WAT B . G 4 HOH 18 62 62 HOH WAT B . G 4 HOH 19 63 63 HOH WAT B . G 4 HOH 20 66 66 HOH WAT B . G 4 HOH 21 67 67 HOH WAT B . G 4 HOH 22 69 69 HOH WAT B . G 4 HOH 23 70 70 HOH WAT B . G 4 HOH 24 71 71 HOH WAT B . G 4 HOH 25 76 76 HOH WAT B . G 4 HOH 26 77 77 HOH WAT B . G 4 HOH 27 78 78 HOH WAT B . G 4 HOH 28 94 94 HOH WAT B . G 4 HOH 29 95 95 HOH WAT B . G 4 HOH 30 96 96 HOH WAT B . G 4 HOH 31 98 98 HOH WAT B . G 4 HOH 32 100 100 HOH WAT B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal DIFDAT 'data reduction' . ? 1 X-PLOR 'model building' . ? 2 SHELXL refinement . ? 3 X-PLOR phasing . ? 4 # _cell.entry_id 1DJ6 _cell.length_a 17.93 _cell.length_b 31.36 _cell.length_c 44.62 _cell.angle_alpha 90.0 _cell.angle_beta 90.0 _cell.angle_gamma 90.0 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DJ6 _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? # _exptl.entry_id 1DJ6 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 6 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 29.00 _exptl_crystal.density_Matthews 1.73 _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 283 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details ;2MM AMMONIUM SALT OF D(CG)3, 10MM POLYAMINE PA(222) TETRACHLORIDE, 15MM MGCL2, 30MM SODIUM CACODYLATE BUFFER, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 283K ; _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 MGCL2 ? ? ? 1 2 1 'SODIUM CACODYLATE BUFFER' ? ? ? 1 3 1 'POLYAMINE PA(222) TETRACHLORIDE' ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 283.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'NICOLET P3' _diffrn_detector.pdbx_collection_date ? _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 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'SEALED TUBE' _diffrn_source.type OTHER _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.5418 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1DJ6 _reflns.observed_criterion_sigma_I 3.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 10.0 _reflns.d_resolution_high 1.0 _reflns.number_obs 11212 _reflns.number_all 11627 _reflns.percent_possible_obs 96.4 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 40000 _reflns.B_iso_Wilson_estimate 5.7 _reflns.pdbx_redundancy 0.07 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 1DJ6 _refine.ls_number_reflns_obs 11212 _refine.ls_number_reflns_all 11627 _refine.pdbx_ls_sigma_I 3 _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 10.0 _refine.ls_d_res_high 1.0 _refine.ls_percent_reflns_obs 96.4 _refine.ls_R_factor_obs 0.165 _refine.ls_R_factor_all 0.169 _refine.ls_R_factor_R_work 0.14 _refine.ls_R_factor_R_free 0.169 _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 ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _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_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model Z-DNA _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.ls_redundancy_reflns_obs ? _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.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_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 240 _refine_hist.pdbx_number_atoms_ligand 20 _refine_hist.number_atoms_solvent 89 _refine_hist.number_atoms_total 349 _refine_hist.d_res_high 1.0 _refine_hist.d_res_low 10.0 # 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 s_bond_d 0.001 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.01 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist ? ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes ? ? ? ? 'X-RAY DIFFRACTION' ? s_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr ? ? ? ? 'X-RAY DIFFRACTION' ? s_rigid_bond_adp_cmpnt ? ? ? ? 'X-RAY DIFFRACTION' ? s_similar_adp_cmpnt ? ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 1DJ6 _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 1DJ6 _struct.title 'COMPLEX OF A Z-DNA HEXAMER, D(CG)3, WITH SYNTHETIC POLYAMINE AT ROOM TEMPERATURE' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1DJ6 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Z-DNA:POLYAMINE COMPLEX, X-RAY CRYSTAL STRUCTURE, POLYAMINE BINDING IN MINOR GROOVE OF Z-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 3 ? E N N 3 ? F N N 4 ? G N N 4 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1DJ6 _struct_ref.pdbx_db_accession 1DJ6 _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 1DJ6 A 1 ? 6 ? 1DJ6 1 ? 6 ? 1 6 2 1 1DJ6 B 1 ? 6 ? 1DJ6 7 ? 12 ? 7 12 # _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,F,G # _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.pdbx_parent_biol_id ? _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 metalc1 metalc ? ? A DC 3 OP2 ? ? ? 4_465 C MG . MG ? ? A DC 3 A MG 104 1_555 ? ? ? ? ? ? ? 2.703 ? ? metalc2 metalc ? ? F HOH . O ? ? ? 4_465 C MG . MG ? ? A HOH 51 A MG 104 1_555 ? ? ? ? ? ? ? 2.960 ? ? metalc3 metalc ? ? F HOH . O ? ? ? 1_555 C MG . MG ? ? A HOH 82 A MG 104 1_555 ? ? ? ? ? ? ? 2.576 ? ? metalc4 metalc ? ? F HOH . O ? ? ? 4_465 C MG . MG ? ? A HOH 84 A MG 104 1_555 ? ? ? ? ? ? ? 2.636 ? ? 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 ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 OP2 ? A DC 3 ? A DC 3 ? 4_465 MG ? C MG . ? A MG 104 ? 1_555 O ? F HOH . ? A HOH 51 ? 4_465 91.5 ? 2 OP2 ? A DC 3 ? A DC 3 ? 4_465 MG ? C MG . ? A MG 104 ? 1_555 O ? F HOH . ? A HOH 82 ? 1_555 121.3 ? 3 O ? F HOH . ? A HOH 51 ? 4_465 MG ? C MG . ? A MG 104 ? 1_555 O ? F HOH . ? A HOH 82 ? 1_555 131.9 ? 4 OP2 ? A DC 3 ? A DC 3 ? 4_465 MG ? C MG . ? A MG 104 ? 1_555 O ? F HOH . ? A HOH 84 ? 4_465 139.4 ? 5 O ? F HOH . ? A HOH 51 ? 4_465 MG ? C MG . ? A MG 104 ? 1_555 O ? F HOH . ? A HOH 84 ? 4_465 69.0 ? 6 O ? F HOH . ? A HOH 82 ? 1_555 MG ? C MG . ? A MG 104 ? 1_555 O ? F HOH . ? A HOH 84 ? 4_465 97.0 ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A MG 104 ? 4 'BINDING SITE FOR RESIDUE MG A 104' AC2 Software A 104 13 ? 12 'BINDING SITE FOR RESIDUE 104 A 13' AC3 Software B 104 14 ? 15 'BINDING SITE FOR RESIDUE 104 B 14' # 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 4 DC A 3 ? DC A 3 . ? 4_465 ? 2 AC1 4 HOH F . ? HOH A 51 . ? 4_465 ? 3 AC1 4 HOH F . ? HOH A 82 . ? 1_555 ? 4 AC1 4 HOH F . ? HOH A 84 . ? 4_465 ? 5 AC2 12 DC A 3 ? DC A 3 . ? 1_555 ? 6 AC2 12 DG A 4 ? DG A 4 . ? 1_555 ? 7 AC2 12 DC A 5 ? DC A 5 . ? 1_555 ? 8 AC2 12 DG A 6 ? DG A 6 . ? 1_555 ? 9 AC2 12 HOH F . ? HOH A 72 . ? 1_555 ? 10 AC2 12 HOH F . ? HOH A 79 . ? 1_655 ? 11 AC2 12 HOH F . ? HOH A 81 . ? 1_555 ? 12 AC2 12 HOH F . ? HOH A 90 . ? 1_655 ? 13 AC2 12 HOH F . ? HOH A 101 . ? 3_645 ? 14 AC2 12 DC B 3 ? DC B 9 . ? 1_555 ? 15 AC2 12 HOH G . ? HOH B 15 . ? 1_555 ? 16 AC2 12 HOH G . ? HOH B 22 . ? 1_655 ? 17 AC3 15 DC A 5 ? DC A 5 . ? 3_645 ? 18 AC3 15 DG A 6 ? DG A 6 . ? 3_645 ? 19 AC3 15 DC B 1 ? DC B 7 . ? 3_645 ? 20 AC3 15 DG B 2 ? DG B 8 . ? 1_555 ? 21 AC3 15 DG B 6 ? DG B 12 . ? 4_455 ? 22 AC3 15 HOH G . ? HOH B 19 . ? 3_645 ? 23 AC3 15 HOH G . ? HOH B 20 . ? 1_555 ? 24 AC3 15 HOH G . ? HOH B 24 . ? 1_555 ? 25 AC3 15 HOH G . ? HOH B 25 . ? 1_555 ? 26 AC3 15 HOH G . ? HOH B 30 . ? 1_555 ? 27 AC3 15 HOH G . ? HOH B 69 . ? 1_555 ? 28 AC3 15 HOH G . ? HOH B 70 . ? 1_555 ? 29 AC3 15 HOH G . ? HOH B 77 . ? 1_555 ? 30 AC3 15 HOH G . ? HOH B 78 . ? 1_555 ? 31 AC3 15 HOH G . ? HOH B 95 . ? 1_555 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O A HOH 65 ? ? O A HOH 83 ? ? 1.31 2 1 O A HOH 55 ? ? O B HOH 62 ? ? 1.49 3 1 O A HOH 61 ? ? O A HOH 73 ? ? 1.54 4 1 O A HOH 26 ? ? O A HOH 44 ? ? 1.81 5 1 C5 A 104 13 ? ? O B HOH 15 ? ? 1.84 6 1 "C2'" A DG 2 ? ? O A HOH 87 ? ? 1.94 7 1 O A HOH 35 ? ? O A HOH 36 ? ? 1.96 8 1 O B HOH 29 ? ? O B HOH 95 ? ? 2.05 9 1 N1 A 104 13 ? ? O A HOH 81 ? ? 2.07 10 1 O A HOH 41 ? ? O A HOH 92 ? ? 2.14 11 1 N1 B 104 14 ? ? O B HOH 20 ? ? 2.16 12 1 N1 B 104 14 ? ? O B HOH 70 ? ? 2.17 13 1 O A HOH 102 ? ? O A HOH 103 ? ? 2.18 14 1 O A HOH 79 ? ? O A HOH 93 ? ? 2.19 # loop_ _pdbx_validate_symm_contact.id _pdbx_validate_symm_contact.PDB_model_num _pdbx_validate_symm_contact.auth_atom_id_1 _pdbx_validate_symm_contact.auth_asym_id_1 _pdbx_validate_symm_contact.auth_comp_id_1 _pdbx_validate_symm_contact.auth_seq_id_1 _pdbx_validate_symm_contact.PDB_ins_code_1 _pdbx_validate_symm_contact.label_alt_id_1 _pdbx_validate_symm_contact.site_symmetry_1 _pdbx_validate_symm_contact.auth_atom_id_2 _pdbx_validate_symm_contact.auth_asym_id_2 _pdbx_validate_symm_contact.auth_comp_id_2 _pdbx_validate_symm_contact.auth_seq_id_2 _pdbx_validate_symm_contact.PDB_ins_code_2 _pdbx_validate_symm_contact.label_alt_id_2 _pdbx_validate_symm_contact.site_symmetry_2 _pdbx_validate_symm_contact.dist 1 1 O A HOH 99 ? ? 1_555 O B HOH 94 ? ? 3_655 1.46 2 1 O A HOH 99 ? ? 1_555 O B HOH 100 ? ? 3_655 1.53 3 1 O A HOH 35 ? ? 1_555 O A HOH 75 ? ? 4_465 1.75 4 1 O A HOH 33 ? ? 1_555 O B HOH 32 ? ? 2_564 1.86 5 1 O A HOH 59 ? ? 1_555 O A HOH 64 ? ? 4_565 1.88 6 1 N7 A DG 6 ? ? 1_555 N1 B 104 14 ? ? 3_655 2.13 # 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 "O5'" A DC 1 ? ? "C5'" A DC 1 ? ? 1.588 1.440 0.148 0.016 N 2 1 "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 1.601 1.518 0.083 0.012 N 3 1 "C2'" A DC 1 ? ? "C1'" A DC 1 ? ? 1.591 1.519 0.072 0.010 N 4 1 "O3'" A DC 1 ? ? "C3'" A DC 1 ? ? 1.516 1.435 0.081 0.013 N 5 1 "C1'" A DC 1 ? ? N1 A DC 1 ? ? 1.607 1.488 0.119 0.013 N 6 1 C4 A DC 1 ? ? N4 A DC 1 ? ? 1.279 1.335 -0.056 0.009 N 7 1 C4 A DC 1 ? ? C5 A DC 1 ? ? 1.513 1.425 0.088 0.008 N 8 1 C5 A DC 1 ? ? C6 A DC 1 ? ? 1.205 1.339 -0.134 0.008 N 9 1 "O5'" A DG 2 ? ? "C5'" A DG 2 ? ? 1.564 1.440 0.124 0.016 N 10 1 "C5'" A DG 2 ? ? "C4'" A DG 2 ? ? 1.429 1.509 -0.080 0.011 N 11 1 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? 1.605 1.529 0.076 0.010 N 12 1 "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 1.681 1.518 0.163 0.012 N 13 1 "C2'" A DG 2 ? ? "C1'" A DG 2 ? ? 1.431 1.518 -0.087 0.010 N 14 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? 1.645 1.420 0.225 0.011 N 15 1 C2 A DG 2 ? ? N3 A DG 2 ? ? 1.496 1.323 0.173 0.008 N 16 1 N3 A DG 2 ? ? C4 A DG 2 ? ? 1.275 1.350 -0.075 0.007 N 17 1 C4 A DG 2 ? ? C5 A DG 2 ? ? 1.473 1.379 0.094 0.007 N 18 1 C6 A DG 2 ? ? N1 A DG 2 ? ? 1.318 1.391 -0.073 0.007 N 19 1 C5 A DG 2 ? ? N7 A DG 2 ? ? 1.329 1.388 -0.059 0.006 N 20 1 N9 A DG 2 ? ? C4 A DG 2 ? ? 1.520 1.375 0.145 0.008 N 21 1 "C2'" A DC 3 ? ? "C1'" A DC 3 ? ? 1.621 1.519 0.102 0.010 N 22 1 "O4'" A DC 3 ? ? "C4'" A DC 3 ? ? 1.538 1.449 0.089 0.009 N 23 1 "C1'" A DC 3 ? ? N1 A DC 3 ? ? 1.618 1.488 0.130 0.013 N 24 1 C2 A DC 3 ? ? O2 A DC 3 ? ? 1.350 1.240 0.110 0.009 N 25 1 C4 A DC 3 ? ? N4 A DC 3 ? ? 1.432 1.335 0.097 0.009 N 26 1 N1 A DC 3 ? ? C6 A DC 3 ? ? 1.299 1.367 -0.068 0.006 N 27 1 C2 A DC 3 ? ? N3 A DC 3 ? ? 1.288 1.353 -0.065 0.008 N 28 1 N3 A DC 3 ? ? C4 A DC 3 ? ? 1.289 1.335 -0.046 0.007 N 29 1 "C5'" A DG 4 ? ? "C4'" A DG 4 ? ? 1.605 1.512 0.093 0.007 N 30 1 "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? 1.642 1.529 0.113 0.010 N 31 1 "C3'" A DG 4 ? ? "C2'" A DG 4 ? ? 1.428 1.516 -0.088 0.008 N 32 1 "C2'" A DG 4 ? ? "C1'" A DG 4 ? ? 1.624 1.519 0.105 0.010 N 33 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? 1.492 1.420 0.072 0.011 N 34 1 C2 A DG 4 ? ? N3 A DG 4 ? ? 1.265 1.323 -0.058 0.008 N 35 1 C5 A DG 4 ? ? C6 A DG 4 ? ? 1.158 1.419 -0.261 0.010 N 36 1 C6 A DG 4 ? ? N1 A DG 4 ? ? 1.587 1.391 0.196 0.007 N 37 1 N7 A DG 4 ? ? C8 A DG 4 ? ? 1.257 1.305 -0.048 0.006 N 38 1 C6 A DG 4 ? ? O6 A DG 4 ? ? 1.387 1.237 0.150 0.009 N 39 1 C2 A DC 5 ? ? O2 A DC 5 ? ? 1.177 1.240 -0.063 0.009 N 40 1 C4 A DC 5 ? ? N4 A DC 5 ? ? 1.400 1.335 0.065 0.009 N 41 1 N1 A DC 5 ? ? C2 A DC 5 ? ? 1.477 1.397 0.080 0.010 N 42 1 N1 A DC 5 ? ? C6 A DC 5 ? ? 1.419 1.367 0.052 0.006 N 43 1 C2 A DC 5 ? ? N3 A DC 5 ? ? 1.301 1.353 -0.052 0.008 N 44 1 C5 A DC 5 ? ? C6 A DC 5 ? ? 1.487 1.339 0.148 0.008 N 45 1 "C2'" A DG 6 ? ? "C1'" A DG 6 ? ? 1.617 1.519 0.098 0.010 N 46 1 "C1'" A DG 6 ? ? N9 A DG 6 ? ? 1.331 1.468 -0.137 0.014 N 47 1 N1 A DG 6 ? ? C2 A DG 6 ? ? 1.484 1.373 0.111 0.008 N 48 1 C4 A DG 6 ? ? C5 A DG 6 ? ? 1.479 1.379 0.100 0.007 N 49 1 C5 A DG 6 ? ? C6 A DG 6 ? ? 1.358 1.419 -0.061 0.010 N 50 1 C5 A DG 6 ? ? N7 A DG 6 ? ? 1.456 1.388 0.068 0.006 N 51 1 N7 A DG 6 ? ? C8 A DG 6 ? ? 1.439 1.305 0.134 0.006 N 52 1 "O5'" B DC 7 ? ? "C5'" B DC 7 ? ? 1.604 1.440 0.164 0.016 N 53 1 "C5'" B DC 7 ? ? "C4'" B DC 7 ? ? 1.435 1.509 -0.074 0.011 N 54 1 "O4'" B DC 7 ? ? "C4'" B DC 7 ? ? 1.304 1.446 -0.142 0.010 N 55 1 C4 B DC 7 ? ? N4 B DC 7 ? ? 1.177 1.335 -0.158 0.009 N 56 1 N1 B DC 7 ? ? C6 B DC 7 ? ? 1.502 1.367 0.135 0.006 N 57 1 N3 B DC 7 ? ? C4 B DC 7 ? ? 1.415 1.335 0.080 0.007 N 58 1 C4 B DC 7 ? ? C5 B DC 7 ? ? 1.348 1.425 -0.077 0.008 N 59 1 "C3'" B DG 8 ? ? "C2'" B DG 8 ? ? 1.704 1.518 0.186 0.012 N 60 1 N3 B DG 8 ? ? C4 B DG 8 ? ? 1.392 1.350 0.042 0.007 N 61 1 C5 B DG 8 ? ? C6 B DG 8 ? ? 1.554 1.419 0.135 0.010 N 62 1 C6 B DG 8 ? ? N1 B DG 8 ? ? 1.459 1.391 0.068 0.007 N 63 1 C5 B DG 8 ? ? N7 B DG 8 ? ? 1.317 1.388 -0.071 0.006 N 64 1 N7 B DG 8 ? ? C8 B DG 8 ? ? 1.421 1.305 0.116 0.006 N 65 1 C6 B DG 8 ? ? O6 B DG 8 ? ? 1.129 1.237 -0.108 0.009 N 66 1 "C4'" B DC 9 ? ? "C3'" B DC 9 ? ? 1.460 1.521 -0.061 0.010 N 67 1 "C3'" B DC 9 ? ? "C2'" B DC 9 ? ? 1.623 1.518 0.105 0.012 N 68 1 "O4'" B DC 9 ? ? "C4'" B DC 9 ? ? 1.368 1.446 -0.078 0.010 N 69 1 "C1'" B DC 9 ? ? N1 B DC 9 ? ? 1.597 1.488 0.109 0.013 N 70 1 N1 B DC 9 ? ? C6 B DC 9 ? ? 1.447 1.367 0.080 0.006 N 71 1 C4 B DC 9 ? ? C5 B DC 9 ? ? 1.494 1.425 0.069 0.008 N 72 1 "O5'" B DG 10 ? ? "C5'" B DG 10 ? ? 1.552 1.440 0.112 0.016 N 73 1 "C4'" B DG 10 ? ? "C3'" B DG 10 ? ? 1.592 1.529 0.063 0.010 N 74 1 "C3'" B DG 10 ? ? "C2'" B DG 10 ? ? 1.383 1.516 -0.133 0.008 N 75 1 "C2'" B DG 10 ? ? "C1'" B DG 10 ? ? 1.675 1.519 0.156 0.010 N 76 1 "O4'" B DG 10 ? ? "C4'" B DG 10 ? ? 1.337 1.446 -0.109 0.010 N 77 1 "O3'" B DG 10 ? ? "C3'" B DG 10 ? ? 1.542 1.435 0.107 0.013 N 78 1 "C1'" B DG 10 ? ? N9 B DG 10 ? ? 1.620 1.488 0.132 0.013 N 79 1 C2 B DG 10 ? ? N3 B DG 10 ? ? 1.275 1.323 -0.048 0.008 N 80 1 N3 B DG 10 ? ? C4 B DG 10 ? ? 1.307 1.350 -0.043 0.007 N 81 1 C5 B DG 10 ? ? N7 B DG 10 ? ? 1.338 1.388 -0.050 0.006 N 82 1 N7 B DG 10 ? ? C8 B DG 10 ? ? 1.264 1.305 -0.041 0.006 N 83 1 C8 B DG 10 ? ? N9 B DG 10 ? ? 1.283 1.374 -0.091 0.007 N 84 1 N9 B DG 10 ? ? C4 B DG 10 ? ? 1.267 1.375 -0.108 0.008 N 85 1 "C5'" B DC 11 ? ? "C4'" B DC 11 ? ? 1.341 1.509 -0.168 0.011 N 86 1 "C4'" B DC 11 ? ? "C3'" B DC 11 ? ? 1.821 1.529 0.292 0.010 N 87 1 "C3'" B DC 11 ? ? "C2'" B DC 11 ? ? 1.665 1.518 0.147 0.012 N 88 1 "C2'" B DC 11 ? ? "C1'" B DC 11 ? ? 1.582 1.519 0.063 0.010 N 89 1 "O4'" B DC 11 ? ? "C4'" B DC 11 ? ? 1.341 1.446 -0.105 0.010 N 90 1 C4 B DC 11 ? ? N4 B DC 11 ? ? 1.196 1.335 -0.139 0.009 N 91 1 N1 B DC 11 ? ? C6 B DC 11 ? ? 1.288 1.367 -0.079 0.006 N 92 1 C2 B DC 11 ? ? N3 B DC 11 ? ? 1.459 1.353 0.106 0.008 N 93 1 N3 B DC 11 ? ? C4 B DC 11 ? ? 1.449 1.335 0.114 0.007 N 94 1 C4 B DC 11 ? ? C5 B DC 11 ? ? 1.518 1.425 0.093 0.008 N 95 1 P B DG 12 ? ? "O5'" B DG 12 ? ? 1.532 1.593 -0.061 0.010 N 96 1 "C4'" B DG 12 ? ? "C3'" B DG 12 ? ? 1.647 1.529 0.118 0.010 N 97 1 "C2'" B DG 12 ? ? "C1'" B DG 12 ? ? 1.595 1.519 0.076 0.010 N 98 1 N3 B DG 12 ? ? C4 B DG 12 ? ? 1.248 1.350 -0.102 0.007 N 99 1 N7 B DG 12 ? ? C8 B DG 12 ? ? 1.262 1.305 -0.043 0.006 N 100 1 N9 B DG 12 ? ? C4 B DG 12 ? ? 1.442 1.375 0.067 0.008 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O5'" A DC 1 ? ? "C5'" A DC 1 ? ? "C4'" A DC 1 ? ? 104.36 109.40 -5.04 0.80 N 2 1 "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? "C1'" A DC 1 ? ? 96.55 102.40 -5.85 0.80 N 3 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 103.15 108.00 -4.85 0.70 N 4 1 C6 A DC 1 ? ? N1 A DC 1 ? ? C2 A DC 1 ? ? 125.65 120.30 5.35 0.40 N 5 1 N1 A DC 1 ? ? C2 A DC 1 ? ? N3 A DC 1 ? ? 112.82 119.20 -6.38 0.70 N 6 1 C2 A DC 1 ? ? N3 A DC 1 ? ? C4 A DC 1 ? ? 125.40 119.90 5.50 0.50 N 7 1 N3 A DC 1 ? ? C4 A DC 1 ? ? C5 A DC 1 ? ? 111.45 121.90 -10.45 0.40 N 8 1 C4 A DC 1 ? ? C5 A DC 1 ? ? C6 A DC 1 ? ? 125.80 117.40 8.40 0.50 N 9 1 C5 A DC 1 ? ? C6 A DC 1 ? ? N1 A DC 1 ? ? 117.48 121.00 -3.52 0.50 N 10 1 N1 A DC 1 ? ? C2 A DC 1 ? ? O2 A DC 1 ? ? 123.44 118.90 4.54 0.60 N 11 1 C5 A DC 1 ? ? C4 A DC 1 ? ? N4 A DC 1 ? ? 127.92 120.20 7.72 0.70 N 12 1 C2 A DC 1 ? ? N1 A DC 1 ? ? "C1'" A DC 1 ? ? 111.56 118.80 -7.24 1.10 N 13 1 "O4'" A DG 2 ? ? "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? 101.23 104.50 -3.27 0.40 N 14 1 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 95.30 102.20 -6.90 0.70 N 15 1 "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? "C1'" A DG 2 ? ? 116.50 102.50 14.00 1.20 N 16 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? "C2'" A DG 2 ? ? 96.46 105.90 -9.44 0.80 N 17 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 99.31 108.00 -8.69 0.70 N 18 1 C2 A DG 2 ? ? N3 A DG 2 ? ? C4 A DG 2 ? ? 105.96 111.90 -5.94 0.50 N 19 1 N3 A DG 2 ? ? C4 A DG 2 ? ? C5 A DG 2 ? ? 138.82 128.60 10.22 0.50 N 20 1 C4 A DG 2 ? ? C5 A DG 2 ? ? C6 A DG 2 ? ? 106.46 118.80 -12.34 0.60 N 21 1 C5 A DG 2 ? ? C6 A DG 2 ? ? N1 A DG 2 ? ? 122.29 111.50 10.79 0.50 N 22 1 C4 A DG 2 ? ? C5 A DG 2 ? ? N7 A DG 2 ? ? 118.31 110.80 7.51 0.40 N 23 1 N9 A DG 2 ? ? C4 A DG 2 ? ? C5 A DG 2 ? ? 96.52 105.40 -8.88 0.40 N 24 1 C6 A DG 2 ? ? C5 A DG 2 ? ? N7 A DG 2 ? ? 135.22 130.40 4.82 0.60 N 25 1 N1 A DG 2 ? ? C2 A DG 2 ? ? N2 A DG 2 ? ? 123.31 116.20 7.11 0.90 N 26 1 N3 A DG 2 ? ? C2 A DG 2 ? ? N2 A DG 2 ? ? 114.44 119.90 -5.46 0.70 N 27 1 C5 A DG 2 ? ? C6 A DG 2 ? ? O6 A DG 2 ? ? 121.06 128.60 -7.54 0.60 N 28 1 C8 A DG 2 ? ? N9 A DG 2 ? ? "C1'" A DG 2 ? ? 118.27 127.00 -8.73 1.30 N 29 1 "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? "C1'" A DC 3 ? ? 96.84 102.40 -5.56 0.80 N 30 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 97.03 108.00 -10.97 0.70 N 31 1 N1 A DC 3 ? ? C2 A DC 3 ? ? N3 A DC 3 ? ? 124.30 119.20 5.10 0.70 N 32 1 C2 A DC 3 ? ? N3 A DC 3 ? ? C4 A DC 3 ? ? 114.86 119.90 -5.04 0.50 N 33 1 N3 A DC 3 ? ? C4 A DC 3 ? ? C5 A DC 3 ? ? 127.59 121.90 5.69 0.40 N 34 1 C4 A DC 3 ? ? C5 A DC 3 ? ? C6 A DC 3 ? ? 111.84 117.40 -5.56 0.50 N 35 1 N1 A DC 3 ? ? C2 A DC 3 ? ? O2 A DC 3 ? ? 112.80 118.90 -6.10 0.60 N 36 1 "O5'" A DG 4 ? ? "C5'" A DG 4 ? ? "C4'" A DG 4 ? ? 103.83 109.40 -5.57 0.80 N 37 1 "O4'" A DG 4 ? ? "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? 100.14 104.50 -4.36 0.40 N 38 1 "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? "C2'" A DG 4 ? ? 108.61 103.10 5.51 0.90 N 39 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 101.14 108.00 -6.86 0.70 N 40 1 C6 A DG 4 ? ? N1 A DG 4 ? ? C2 A DG 4 ? ? 111.50 125.10 -13.60 0.60 N 41 1 N1 A DG 4 ? ? C2 A DG 4 ? ? N3 A DG 4 ? ? 130.71 123.90 6.81 0.60 N 42 1 C2 A DG 4 ? ? N3 A DG 4 ? ? C4 A DG 4 ? ? 106.41 111.90 -5.49 0.50 N 43 1 N3 A DG 4 ? ? C4 A DG 4 ? ? C5 A DG 4 ? ? 134.38 128.60 5.78 0.50 N 44 1 C5 A DG 4 ? ? C6 A DG 4 ? ? N1 A DG 4 ? ? 120.17 111.50 8.67 0.50 N 45 1 C4 A DG 4 ? ? C5 A DG 4 ? ? N7 A DG 4 ? ? 114.48 110.80 3.68 0.40 N 46 1 N3 A DG 4 ? ? C4 A DG 4 ? ? N9 A DG 4 ? ? 121.81 126.00 -4.19 0.60 N 47 1 N1 A DG 4 ? ? C2 A DG 4 ? ? N2 A DG 4 ? ? 106.57 116.20 -9.63 0.90 N 48 1 N1 A DG 4 ? ? C6 A DG 4 ? ? O6 A DG 4 ? ? 102.76 119.90 -17.14 0.60 N 49 1 C5 A DG 4 ? ? C6 A DG 4 ? ? O6 A DG 4 ? ? 137.05 128.60 8.45 0.60 N 50 1 C8 A DG 4 ? ? N9 A DG 4 ? ? "C1'" A DG 4 ? ? 118.16 127.00 -8.84 1.30 N 51 1 C4 A DG 4 ? ? N9 A DG 4 ? ? "C1'" A DG 4 ? ? 136.34 126.50 9.84 1.30 N 52 1 "C5'" A DC 5 ? ? "C4'" A DC 5 ? ? "C3'" A DC 5 ? ? 124.67 115.70 8.97 1.20 N 53 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? N1 A DC 5 ? ? 100.72 108.00 -7.28 0.70 N 54 1 C6 A DC 5 ? ? N1 A DC 5 ? ? C2 A DC 5 ? ? 123.39 120.30 3.09 0.40 N 55 1 N3 A DC 5 ? ? C4 A DC 5 ? ? C5 A DC 5 ? ? 127.50 121.90 5.60 0.40 N 56 1 C4 A DC 5 ? ? C5 A DC 5 ? ? C6 A DC 5 ? ? 114.07 117.40 -3.33 0.50 N 57 1 C5 A DC 5 ? ? C6 A DC 5 ? ? N1 A DC 5 ? ? 115.05 121.00 -5.95 0.50 N 58 1 C5 A DC 5 ? ? C4 A DC 5 ? ? N4 A DC 5 ? ? 113.92 120.20 -6.28 0.70 N 59 1 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 111.56 108.30 3.26 0.30 N 60 1 N1 A DG 6 ? ? C2 A DG 6 ? ? N3 A DG 6 ? ? 117.02 123.90 -6.88 0.60 N 61 1 C2 A DG 6 ? ? N3 A DG 6 ? ? C4 A DG 6 ? ? 120.13 111.90 8.23 0.50 N 62 1 N3 A DG 6 ? ? C4 A DG 6 ? ? C5 A DG 6 ? ? 121.92 128.60 -6.68 0.50 N 63 1 C4 A DG 6 ? ? C5 A DG 6 ? ? N7 A DG 6 ? ? 108.36 110.80 -2.44 0.40 N 64 1 C5 A DG 6 ? ? N7 A DG 6 ? ? C8 A DG 6 ? ? 101.24 104.30 -3.06 0.50 N 65 1 N9 A DG 6 ? ? C4 A DG 6 ? ? C5 A DG 6 ? ? 108.84 105.40 3.44 0.40 N 66 1 N3 A DG 6 ? ? C2 A DG 6 ? ? N2 A DG 6 ? ? 124.40 119.90 4.50 0.70 N 67 1 C5 A DG 6 ? ? C6 A DG 6 ? ? O6 A DG 6 ? ? 124.97 128.60 -3.63 0.60 N 68 1 "O4'" B DC 7 ? ? "C4'" B DC 7 ? ? "C3'" B DC 7 ? ? 109.66 106.00 3.66 0.60 N 69 1 "C3'" B DC 7 ? ? "C2'" B DC 7 ? ? "C1'" B DC 7 ? ? 96.10 102.40 -6.30 0.80 N 70 1 "O4'" B DC 7 ? ? "C1'" B DC 7 ? ? N1 B DC 7 ? ? 103.02 108.00 -4.98 0.70 N 71 1 C6 B DC 7 ? ? N1 B DC 7 ? ? C2 B DC 7 ? ? 114.01 120.30 -6.29 0.40 N 72 1 C2 B DC 7 ? ? N3 B DC 7 ? ? C4 B DC 7 ? ? 126.33 119.90 6.43 0.50 N 73 1 N3 B DC 7 ? ? C4 B DC 7 ? ? C5 B DC 7 ? ? 115.88 121.90 -6.02 0.40 N 74 1 C4 B DC 7 ? ? C5 B DC 7 ? ? C6 B DC 7 ? ? 122.70 117.40 5.30 0.50 N 75 1 C5 B DC 7 ? ? C4 B DC 7 ? ? N4 B DC 7 ? ? 126.21 120.20 6.01 0.70 N 76 1 "O4'" B DG 8 ? ? "C1'" B DG 8 ? ? "C2'" B DG 8 ? ? 111.06 106.80 4.26 0.50 N 77 1 "O4'" B DG 8 ? ? "C1'" B DG 8 ? ? N9 B DG 8 ? ? 110.64 108.30 2.34 0.30 N 78 1 C6 B DG 8 ? ? N1 B DG 8 ? ? C2 B DG 8 ? ? 132.47 125.10 7.37 0.60 N 79 1 C5 B DG 8 ? ? C6 B DG 8 ? ? N1 B DG 8 ? ? 103.48 111.50 -8.02 0.50 N 80 1 N7 B DG 8 ? ? C8 B DG 8 ? ? N9 B DG 8 ? ? 108.72 113.10 -4.38 0.50 N 81 1 N9 B DG 8 ? ? C4 B DG 8 ? ? C5 B DG 8 ? ? 108.02 105.40 2.62 0.40 N 82 1 N1 B DG 8 ? ? C6 B DG 8 ? ? O6 B DG 8 ? ? 128.22 119.90 8.32 0.60 N 83 1 C8 B DG 8 ? ? N9 B DG 8 ? ? "C1'" B DG 8 ? ? 118.94 127.00 -8.06 1.30 N 84 1 "O4'" B DC 9 ? ? "C4'" B DC 9 ? ? "C3'" B DC 9 ? ? 110.23 106.00 4.23 0.60 N 85 1 "C3'" B DC 9 ? ? "C2'" B DC 9 ? ? "C1'" B DC 9 ? ? 93.37 102.40 -9.03 0.80 N 86 1 "O4'" B DC 9 ? ? "C1'" B DC 9 ? ? N1 B DC 9 ? ? 102.94 108.00 -5.06 0.70 N 87 1 C2 B DC 9 ? ? N3 B DC 9 ? ? C4 B DC 9 ? ? 124.28 119.90 4.38 0.50 N 88 1 "C4'" B DG 10 ? ? "C3'" B DG 10 ? ? "C2'" B DG 10 ? ? 112.75 103.10 9.65 0.90 N 89 1 "C3'" B DG 10 ? ? "C2'" B DG 10 ? ? "C1'" B DG 10 ? ? 93.32 102.40 -9.08 0.80 N 90 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? "C2'" B DG 10 ? ? 113.55 106.80 6.75 0.50 N 91 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 101.97 108.00 -6.03 0.70 N 92 1 C2 B DG 10 ? ? N3 B DG 10 ? ? C4 B DG 10 ? ? 115.50 111.90 3.60 0.50 N 93 1 N3 B DG 10 ? ? C4 B DG 10 ? ? C5 B DG 10 ? ? 125.08 128.60 -3.52 0.50 N 94 1 C4 B DG 10 ? ? C5 B DG 10 ? ? N7 B DG 10 ? ? 103.05 110.80 -7.75 0.40 N 95 1 C5 B DG 10 ? ? N7 B DG 10 ? ? C8 B DG 10 ? ? 110.13 104.30 5.83 0.50 N 96 1 N7 B DG 10 ? ? C8 B DG 10 ? ? N9 B DG 10 ? ? 108.53 113.10 -4.57 0.50 N 97 1 C8 B DG 10 ? ? N9 B DG 10 ? ? C4 B DG 10 ? ? 110.46 106.40 4.06 0.40 N 98 1 C6 B DG 10 ? ? C5 B DG 10 ? ? N7 B DG 10 ? ? 137.52 130.40 7.12 0.60 N 99 1 N3 B DG 10 ? ? C2 B DG 10 ? ? N2 B DG 10 ? ? 124.27 119.90 4.37 0.70 N 100 1 N1 B DG 10 ? ? C6 B DG 10 ? ? O6 B DG 10 ? ? 125.03 119.90 5.13 0.60 N 101 1 C5 B DG 10 ? ? C6 B DG 10 ? ? O6 B DG 10 ? ? 124.67 128.60 -3.93 0.60 N 102 1 C8 B DG 10 ? ? N9 B DG 10 ? ? "C1'" B DG 10 ? ? 116.39 127.00 -10.61 1.30 N 103 1 "C1'" B DC 11 ? ? "O4'" B DC 11 ? ? "C4'" B DC 11 ? ? 116.76 110.30 6.46 0.70 N 104 1 "C4'" B DC 11 ? ? "C3'" B DC 11 ? ? "C2'" B DC 11 ? ? 95.13 102.20 -7.07 0.70 N 105 1 "O4'" B DC 11 ? ? "C1'" B DC 11 ? ? N1 B DC 11 ? ? 111.45 108.30 3.15 0.30 N 106 1 C6 B DC 11 ? ? N1 B DC 11 ? ? C2 B DC 11 ? ? 122.77 120.30 2.47 0.40 N 107 1 N1 B DC 11 ? ? C2 B DC 11 ? ? N3 B DC 11 ? ? 109.77 119.20 -9.43 0.70 N 108 1 C2 B DC 11 ? ? N3 B DC 11 ? ? C4 B DC 11 ? ? 130.56 119.90 10.66 0.50 N 109 1 N3 B DC 11 ? ? C4 B DC 11 ? ? C5 B DC 11 ? ? 111.72 121.90 -10.18 0.40 N 110 1 C4 B DC 11 ? ? C5 B DC 11 ? ? C6 B DC 11 ? ? 112.17 117.40 -5.23 0.50 N 111 1 C5 B DC 11 ? ? C6 B DC 11 ? ? N1 B DC 11 ? ? 132.80 121.00 11.80 0.50 N 112 1 N1 B DC 11 ? ? C2 B DC 11 ? ? O2 B DC 11 ? ? 124.85 118.90 5.95 0.60 N 113 1 N3 B DC 11 ? ? C4 B DC 11 ? ? N4 B DC 11 ? ? 122.33 118.00 4.33 0.70 N 114 1 C5 B DC 11 ? ? C4 B DC 11 ? ? N4 B DC 11 ? ? 125.90 120.20 5.70 0.70 N 115 1 C2 B DG 12 ? ? N3 B DG 12 ? ? C4 B DG 12 ? ? 108.21 111.90 -3.69 0.50 N 116 1 N3 B DG 12 ? ? C4 B DG 12 ? ? C5 B DG 12 ? ? 134.80 128.60 6.20 0.50 N 117 1 C4 B DG 12 ? ? C5 B DG 12 ? ? N7 B DG 12 ? ? 117.71 110.80 6.91 0.40 N 118 1 C5 B DG 12 ? ? N7 B DG 12 ? ? C8 B DG 12 ? ? 100.39 104.30 -3.91 0.50 N 119 1 N7 B DG 12 ? ? C8 B DG 12 ? ? N9 B DG 12 ? ? 116.53 113.10 3.43 0.50 N 120 1 N9 B DG 12 ? ? C4 B DG 12 ? ? C5 B DG 12 ? ? 98.48 105.40 -6.92 0.40 N 121 1 C6 B DG 12 ? ? C5 B DG 12 ? ? N7 B DG 12 ? ? 124.89 130.40 -5.51 0.60 N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DG _pdbx_validate_planes.auth_asym_id B _pdbx_validate_planes.auth_seq_id 10 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.044 _pdbx_validate_planes.type 'SIDE CHAIN' # 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 104 N1 N N N 1 104 C2 C N N 2 104 C3 C N N 3 104 N4 N N N 4 104 C5 C N N 5 104 C6 C N N 6 104 N7 N N N 7 104 C8 C N N 8 104 C9 C N N 9 104 N10 N N N 10 104 H11 H N N 11 104 H12 H N N 12 104 H21 H N N 13 104 H22 H N N 14 104 H31 H N N 15 104 H32 H N N 16 104 HN4 H N N 17 104 H51 H N N 18 104 H52 H N N 19 104 H61 H N N 20 104 H62 H N N 21 104 HN7 H N N 22 104 H81 H N N 23 104 H82 H N N 24 104 H91 H N N 25 104 H92 H N N 26 104 H101 H N N 27 104 H102 H N N 28 DC OP3 O N N 29 DC P P N N 30 DC OP1 O N N 31 DC OP2 O N N 32 DC "O5'" O N N 33 DC "C5'" C N N 34 DC "C4'" C N R 35 DC "O4'" O N N 36 DC "C3'" C N S 37 DC "O3'" O N N 38 DC "C2'" C N N 39 DC "C1'" C N R 40 DC N1 N N N 41 DC C2 C N N 42 DC O2 O N N 43 DC N3 N N N 44 DC C4 C N N 45 DC N4 N N N 46 DC C5 C N N 47 DC C6 C N N 48 DC HOP3 H N N 49 DC HOP2 H N N 50 DC "H5'" H N N 51 DC "H5''" H N N 52 DC "H4'" H N N 53 DC "H3'" H N N 54 DC "HO3'" H N N 55 DC "H2'" H N N 56 DC "H2''" H N N 57 DC "H1'" H N N 58 DC H41 H N N 59 DC H42 H N N 60 DC H5 H N N 61 DC H6 H N N 62 DG OP3 O N N 63 DG P P N N 64 DG OP1 O N N 65 DG OP2 O N N 66 DG "O5'" O N N 67 DG "C5'" C N N 68 DG "C4'" C N R 69 DG "O4'" O N N 70 DG "C3'" C N S 71 DG "O3'" O N N 72 DG "C2'" C N N 73 DG "C1'" C N R 74 DG N9 N Y N 75 DG C8 C Y N 76 DG N7 N Y N 77 DG C5 C Y N 78 DG C6 C N N 79 DG O6 O N N 80 DG N1 N N N 81 DG C2 C N N 82 DG N2 N N N 83 DG N3 N N N 84 DG C4 C Y N 85 DG HOP3 H N N 86 DG HOP2 H N N 87 DG "H5'" H N N 88 DG "H5''" H N N 89 DG "H4'" H N N 90 DG "H3'" H N N 91 DG "HO3'" H N N 92 DG "H2'" H N N 93 DG "H2''" H N N 94 DG "H1'" H N N 95 DG H8 H N N 96 DG H1 H N N 97 DG H21 H N N 98 DG H22 H N N 99 HOH O O N N 100 HOH H1 H N N 101 HOH H2 H N N 102 MG MG MG N N 103 # 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 104 N1 C2 sing N N 1 104 N1 H11 sing N N 2 104 N1 H12 sing N N 3 104 C2 C3 sing N N 4 104 C2 H21 sing N N 5 104 C2 H22 sing N N 6 104 C3 N4 sing N N 7 104 C3 H31 sing N N 8 104 C3 H32 sing N N 9 104 N4 C5 sing N N 10 104 N4 HN4 sing N N 11 104 C5 C6 sing N N 12 104 C5 H51 sing N N 13 104 C5 H52 sing N N 14 104 C6 N7 sing N N 15 104 C6 H61 sing N N 16 104 C6 H62 sing N N 17 104 N7 C8 sing N N 18 104 N7 HN7 sing N N 19 104 C8 C9 sing N N 20 104 C8 H81 sing N N 21 104 C8 H82 sing N N 22 104 C9 N10 sing N N 23 104 C9 H91 sing N N 24 104 C9 H92 sing N N 25 104 N10 H101 sing N N 26 104 N10 H102 sing N N 27 DC OP3 P sing N N 28 DC OP3 HOP3 sing N N 29 DC P OP1 doub N N 30 DC P OP2 sing N N 31 DC P "O5'" sing N N 32 DC OP2 HOP2 sing N N 33 DC "O5'" "C5'" sing N N 34 DC "C5'" "C4'" sing N N 35 DC "C5'" "H5'" sing N N 36 DC "C5'" "H5''" sing N N 37 DC "C4'" "O4'" sing N N 38 DC "C4'" "C3'" sing N N 39 DC "C4'" "H4'" sing N N 40 DC "O4'" "C1'" sing N N 41 DC "C3'" "O3'" sing N N 42 DC "C3'" "C2'" sing N N 43 DC "C3'" "H3'" sing N N 44 DC "O3'" "HO3'" sing N N 45 DC "C2'" "C1'" sing N N 46 DC "C2'" "H2'" sing N N 47 DC "C2'" "H2''" sing N N 48 DC "C1'" N1 sing N N 49 DC "C1'" "H1'" sing N N 50 DC N1 C2 sing N N 51 DC N1 C6 sing N N 52 DC C2 O2 doub N N 53 DC C2 N3 sing N N 54 DC N3 C4 doub N N 55 DC C4 N4 sing N N 56 DC C4 C5 sing N N 57 DC N4 H41 sing N N 58 DC N4 H42 sing N N 59 DC C5 C6 doub N N 60 DC C5 H5 sing N N 61 DC C6 H6 sing N N 62 DG OP3 P sing N N 63 DG OP3 HOP3 sing N N 64 DG P OP1 doub N N 65 DG P OP2 sing N N 66 DG P "O5'" sing N N 67 DG OP2 HOP2 sing N N 68 DG "O5'" "C5'" sing N N 69 DG "C5'" "C4'" sing N N 70 DG "C5'" "H5'" sing N N 71 DG "C5'" "H5''" sing N N 72 DG "C4'" "O4'" sing N N 73 DG "C4'" "C3'" sing N N 74 DG "C4'" "H4'" sing N N 75 DG "O4'" "C1'" sing N N 76 DG "C3'" "O3'" sing N N 77 DG "C3'" "C2'" sing N N 78 DG "C3'" "H3'" sing N N 79 DG "O3'" "HO3'" sing N N 80 DG "C2'" "C1'" sing N N 81 DG "C2'" "H2'" sing N N 82 DG "C2'" "H2''" sing N N 83 DG "C1'" N9 sing N N 84 DG "C1'" "H1'" sing N N 85 DG N9 C8 sing Y N 86 DG N9 C4 sing Y N 87 DG C8 N7 doub Y N 88 DG C8 H8 sing N N 89 DG N7 C5 sing Y N 90 DG C5 C6 sing N N 91 DG C5 C4 doub Y N 92 DG C6 O6 doub N N 93 DG C6 N1 sing N N 94 DG N1 C2 sing N N 95 DG N1 H1 sing N N 96 DG C2 N2 sing N N 97 DG C2 N3 doub N N 98 DG N2 H21 sing N N 99 DG N2 H22 sing N N 100 DG N3 C4 sing N N 101 HOH O H1 sing N N 102 HOH O H2 sing N N 103 # _ndb_struct_conf_na.entry_id 1DJ6 _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 -0.435 -0.152 0.107 1.946 0.580 0.374 1 A_DC1:DG12_B A 1 ? B 12 ? 19 1 1 A DG 2 1_555 B DC 5 1_555 0.371 -0.169 -0.138 -5.725 -0.213 0.091 2 A_DG2:DC11_B A 2 ? B 11 ? 19 1 1 A DC 3 1_555 B DG 4 1_555 -0.342 -0.143 0.026 2.482 -5.211 0.876 3 A_DC3:DG10_B A 3 ? B 10 ? 19 1 1 A DG 4 1_555 B DC 3 1_555 0.182 -0.128 0.252 -6.892 -1.949 2.162 4 A_DG4:DC9_B A 4 ? B 9 ? 19 1 1 A DC 5 1_555 B DG 2 1_555 -0.194 -0.088 -0.017 -1.281 -0.069 1.251 5 A_DC5:DG8_B A 5 ? B 8 ? 19 1 1 A DG 6 1_555 B DC 1 1_555 0.218 -0.227 0.145 3.253 3.063 4.079 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 0.077 5.398 3.643 0.578 -5.280 -4.940 -8.301 4.368 6.404 46.827 5.122 -7.253 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 -0.039 -0.976 3.365 -1.481 -4.202 -51.558 1.407 -0.146 3.280 4.821 -1.699 -51.737 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 -0.005 5.363 3.792 -2.221 -3.865 -6.544 -20.397 -10.637 5.749 29.732 -17.082 -7.916 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 0.014 -0.958 3.431 2.598 -2.295 -53.266 1.218 0.186 3.386 2.557 2.894 -53.371 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 0.113 5.196 3.401 0.243 -1.385 -9.126 -28.753 1.320 4.136 8.634 1.518 -9.234 5 AA_DC5DG6:DC7DG8_BB A 5 ? B 8 ? A 6 ? B 7 ? # _pdbx_initial_refinement_model.accession_code ? _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 Other _pdbx_initial_refinement_model.details Z-DNA # _atom_sites.entry_id 1DJ6 _atom_sites.fract_transf_matrix[1][1] 0.055772 _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] 0.031888 _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] 0.022411 _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 MG N O P # loop_