data_414D # _entry.id 414D # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 414D pdb_0000414d 10.2210/pdb414d/pdb RCSB AD0002 ? ? WWPDB D_1000179214 ? ? # 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 1999-06-14 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-28 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' # 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 # 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' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 414D _pdbx_database_status.recvd_initial_deposition_date 1998-07-13 _pdbx_database_status.deposit_site NDB _pdbx_database_status.process_site NDB _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Savitha, G.' 1 'Viswamitra, M.A.' 2 # _citation.id primary _citation.title 'An A-DNA structure with two independent duplexes in the asymmetric unit.' _citation.journal_abbrev 'Acta Crystallogr.,Sect.D' _citation.journal_volume 55 _citation.page_first 1136 _citation.page_last 1143 _citation.year 1999 _citation.journal_id_ASTM ABCRE6 _citation.country DK _citation.journal_id_ISSN 0907-4449 _citation.journal_id_CSD 0766 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 10329775 _citation.pdbx_database_id_DOI 10.1107/S0907444999003182 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Savitha, G.' 1 ? primary 'Viswamitra, M.A.' 2 ? # 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(*GP*GP*GP*GP*CP*GP*CP*CP*CP*C)-3') ; 3046.980 4 ? ? ? ? 2 water nat water 18.015 116 ? ? ? ? # _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 '(DG)(DG)(DG)(DG)(DC)(DG)(DC)(DC)(DC)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GGGGCGCCCC _entity_poly.pdbx_strand_id A,B,C,D _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DG n 1 2 DG n 1 3 DG n 1 4 DG n 1 5 DC n 1 6 DG n 1 7 DC n 1 8 DC n 1 9 DC n 1 10 DC 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 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 HOH non-polymer . WATER ? 'H2 O' 18.015 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DG 1 1 1 DG G A . n A 1 2 DG 2 2 2 DG G 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 DC 5 5 5 DC C A . n A 1 6 DG 6 6 6 DG G 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 DC 9 9 9 DC C A . n A 1 10 DC 10 10 10 DC C A . n B 1 1 DG 1 11 11 DG G B . n B 1 2 DG 2 12 12 DG G B . n B 1 3 DG 3 13 13 DG G B . n B 1 4 DG 4 14 14 DG G B . n B 1 5 DC 5 15 15 DC C B . n B 1 6 DG 6 16 16 DG G B . n B 1 7 DC 7 17 17 DC C B . n B 1 8 DC 8 18 18 DC C B . n B 1 9 DC 9 19 19 DC C B . n B 1 10 DC 10 20 20 DC C B . n C 1 1 DG 1 21 21 DG G C . n C 1 2 DG 2 22 22 DG G C . n C 1 3 DG 3 23 23 DG G C . n C 1 4 DG 4 24 24 DG G C . n C 1 5 DC 5 25 25 DC C C . n C 1 6 DG 6 26 26 DG G C . n C 1 7 DC 7 27 27 DC C C . n C 1 8 DC 8 28 28 DC C C . n C 1 9 DC 9 29 29 DC C C . n C 1 10 DC 10 30 30 DC C C . n D 1 1 DG 1 31 31 DG G D . n D 1 2 DG 2 32 32 DG G D . n D 1 3 DG 3 33 33 DG G D . n D 1 4 DG 4 34 34 DG G D . n D 1 5 DC 5 35 35 DC C D . n D 1 6 DG 6 36 36 DG G D . n D 1 7 DC 7 37 37 DC C D . n D 1 8 DC 8 38 38 DC C D . n D 1 9 DC 9 39 39 DC C D . n D 1 10 DC 10 40 40 DC C 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 HOH 1 41 41 HOH HOH A . E 2 HOH 2 50 50 HOH HOH A . E 2 HOH 3 51 51 HOH HOH A . E 2 HOH 4 65 65 HOH HOH A . E 2 HOH 5 67 67 HOH HOH A . E 2 HOH 6 77 77 HOH HOH A . E 2 HOH 7 80 80 HOH HOH A . E 2 HOH 8 81 81 HOH HOH A . E 2 HOH 9 97 97 HOH HOH A . E 2 HOH 10 98 98 HOH HOH A . E 2 HOH 11 101 101 HOH HOH A . E 2 HOH 12 109 109 HOH HOH A . E 2 HOH 13 110 110 HOH HOH A . E 2 HOH 14 115 115 HOH HOH A . E 2 HOH 15 116 116 HOH HOH A . E 2 HOH 16 121 121 HOH HOH A . E 2 HOH 17 126 126 HOH HOH A . E 2 HOH 18 127 127 HOH HOH A . E 2 HOH 19 128 128 HOH HOH A . E 2 HOH 20 129 129 HOH HOH A . E 2 HOH 21 131 131 HOH HOH A . E 2 HOH 22 132 132 HOH HOH A . E 2 HOH 23 136 136 HOH HOH A . E 2 HOH 24 144 144 HOH HOH A . E 2 HOH 25 145 145 HOH HOH A . E 2 HOH 26 155 155 HOH HOH A . F 2 HOH 1 46 46 HOH HOH B . F 2 HOH 2 48 48 HOH HOH B . F 2 HOH 3 49 49 HOH HOH B . F 2 HOH 4 52 52 HOH HOH B . F 2 HOH 5 53 53 HOH HOH B . F 2 HOH 6 54 54 HOH HOH B . F 2 HOH 7 66 66 HOH HOH B . F 2 HOH 8 68 68 HOH HOH B . F 2 HOH 9 69 69 HOH HOH B . F 2 HOH 10 70 70 HOH HOH B . F 2 HOH 11 71 71 HOH HOH B . F 2 HOH 12 76 76 HOH HOH B . F 2 HOH 13 79 79 HOH HOH B . F 2 HOH 14 82 82 HOH HOH B . F 2 HOH 15 84 84 HOH HOH B . F 2 HOH 16 89 89 HOH HOH B . F 2 HOH 17 91 91 HOH HOH B . F 2 HOH 18 94 94 HOH HOH B . F 2 HOH 19 96 96 HOH HOH B . F 2 HOH 20 99 99 HOH HOH B . F 2 HOH 21 108 108 HOH HOH B . F 2 HOH 22 113 113 HOH HOH B . F 2 HOH 23 114 114 HOH HOH B . F 2 HOH 24 117 117 HOH HOH B . F 2 HOH 25 119 119 HOH HOH B . F 2 HOH 26 120 120 HOH HOH B . F 2 HOH 27 124 124 HOH HOH B . F 2 HOH 28 125 125 HOH HOH B . F 2 HOH 29 133 133 HOH HOH B . F 2 HOH 30 134 134 HOH HOH B . F 2 HOH 31 141 141 HOH HOH B . F 2 HOH 32 143 143 HOH HOH B . F 2 HOH 33 152 152 HOH HOH B . G 2 HOH 1 43 43 HOH HOH C . G 2 HOH 2 47 47 HOH HOH C . G 2 HOH 3 56 56 HOH HOH C . G 2 HOH 4 57 57 HOH HOH C . G 2 HOH 5 59 59 HOH HOH C . G 2 HOH 6 60 60 HOH HOH C . G 2 HOH 7 64 64 HOH HOH C . G 2 HOH 8 73 73 HOH HOH C . G 2 HOH 9 83 83 HOH HOH C . G 2 HOH 10 85 85 HOH HOH C . G 2 HOH 11 92 92 HOH HOH C . G 2 HOH 12 93 93 HOH HOH C . G 2 HOH 13 100 100 HOH HOH C . G 2 HOH 14 102 102 HOH HOH C . G 2 HOH 15 112 112 HOH HOH C . G 2 HOH 16 118 118 HOH HOH C . G 2 HOH 17 122 122 HOH HOH C . G 2 HOH 18 123 123 HOH HOH C . G 2 HOH 19 130 130 HOH HOH C . G 2 HOH 20 137 137 HOH HOH C . G 2 HOH 21 138 138 HOH HOH C . G 2 HOH 22 150 150 HOH HOH C . G 2 HOH 23 151 151 HOH HOH C . G 2 HOH 24 156 156 HOH HOH C . H 2 HOH 1 42 42 HOH HOH D . H 2 HOH 2 44 44 HOH HOH D . H 2 HOH 3 45 45 HOH HOH D . H 2 HOH 4 55 55 HOH HOH D . H 2 HOH 5 58 58 HOH HOH D . H 2 HOH 6 61 61 HOH HOH D . H 2 HOH 7 62 62 HOH HOH D . H 2 HOH 8 63 63 HOH HOH D . H 2 HOH 9 72 72 HOH HOH D . H 2 HOH 10 74 74 HOH HOH D . H 2 HOH 11 75 75 HOH HOH D . H 2 HOH 12 78 78 HOH HOH D . H 2 HOH 13 86 86 HOH HOH D . H 2 HOH 14 87 87 HOH HOH D . H 2 HOH 15 88 88 HOH HOH D . H 2 HOH 16 90 90 HOH HOH D . H 2 HOH 17 95 95 HOH HOH D . H 2 HOH 18 103 103 HOH HOH D . H 2 HOH 19 104 104 HOH HOH D . H 2 HOH 20 105 105 HOH HOH D . H 2 HOH 21 106 106 HOH HOH D . H 2 HOH 22 107 107 HOH HOH D . H 2 HOH 23 111 111 HOH HOH D . H 2 HOH 24 135 135 HOH HOH D . H 2 HOH 25 139 139 HOH HOH D . H 2 HOH 26 140 140 HOH HOH D . H 2 HOH 27 142 142 HOH HOH D . H 2 HOH 28 146 146 HOH HOH D . H 2 HOH 29 147 147 HOH HOH D . H 2 HOH 30 148 148 HOH HOH D . H 2 HOH 31 149 149 HOH HOH D . H 2 HOH 32 153 153 HOH HOH D . H 2 HOH 33 154 154 HOH HOH D . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR refinement 3.851 ? 1 MAR 'data reduction' . ? 2 XDS 'data scaling' . ? 3 # _cell.entry_id 414D _cell.length_a 45.504 _cell.length_b 46.084 _cell.length_c 28.465 _cell.angle_alpha 90.00 _cell.angle_beta 100.74 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 414D _symmetry.space_group_name_H-M 'P 1 21 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting monoclinic _symmetry.Int_Tables_number 4 # _exptl.entry_id 414D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.29 _exptl_crystal.density_percent_sol 50.0000 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 293.00 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.50 _exptl_crystal_grow.pdbx_details 'pH 6.50, VAPOR DIFFUSION, HANGING DROP, temperature 293.00K' _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 'SODIUM CACODYLATE' ? ? ? 1 2 1 MGCL2 ? ? ? 1 3 1 SPERMINE ? ? ? 1 4 1 MPD ? ? ? 1 5 2 MPD ? ? ? # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 291.00 ? 1 2 ? ? 1 3 ? ? 1 4 ? ? 1 # loop_ _diffrn_detector.diffrn_id _diffrn_detector.detector _diffrn_detector.type _diffrn_detector.pdbx_collection_date _diffrn_detector.details 1 'IMAGE PLATE' MARRESEARCH 1996-12-15 ? 2 ? ? ? ? 3 ? ? ? ? 4 ? ? ? ? # loop_ _diffrn_radiation.diffrn_id _diffrn_radiation.wavelength_id _diffrn_radiation.pdbx_monochromatic_or_laue_m_l _diffrn_radiation.monochromator _diffrn_radiation.pdbx_diffrn_protocol _diffrn_radiation.pdbx_scattering_type 1 1 M ? 'SINGLE WAVELENGTH' x-ray 2 2 M ? 'SINGLE WAVELENGTH' x-ray 3 3 M ? 'SINGLE WAVELENGTH' x-ray 4 4 M ? 'SINGLE WAVELENGTH' x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 . 1.0 2 . 1.0 3 . 1.0 4 . 1.0 # loop_ _diffrn_source.diffrn_id _diffrn_source.source _diffrn_source.type _diffrn_source.pdbx_synchrotron_site _diffrn_source.pdbx_synchrotron_beamline _diffrn_source.pdbx_wavelength _diffrn_source.pdbx_wavelength_list 1 'ROTATING ANODE' RIGAKU ? ? ? ? 2 ? ? ? ? ? ? 3 ? ? ? ? ? ? 4 ? ? ? ? ? ? # _reflns.entry_id 414D _reflns.observed_criterion_sigma_I 0.000 _reflns.observed_criterion_sigma_F 0.000 _reflns.d_resolution_low 10.000 _reflns.d_resolution_high 1.800 _reflns.number_obs 10033 _reflns.number_all 10033 _reflns.percent_possible_obs 92.400 _reflns.pdbx_Rmerge_I_obs 0.0620000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 4.100 _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1,2,3,4 _reflns.pdbx_ordinal 1 # _refine.entry_id 414D _refine.ls_number_reflns_obs 3583 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_d_res_low 8.000 _refine.ls_d_res_high 1.900 _refine.ls_percent_reflns_obs 94.000 _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _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 ? _refine.details ? _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 ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_B ? _refine.overall_SU_ML ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.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 0 _refine_hist.number_atoms_solvent 116 _refine_hist.number_atoms_total 924 _refine_hist.d_res_high 1.900 _refine_hist.d_res_low 8.000 # 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 0.005 ? ? ? '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 1.56 ? ? ? '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' ? # _database_PDB_matrix.entry_id 414D _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 414D _struct.title "5'-D(*GP*GP*GP*GP*CP*GP*CP*CP*CP*C)-3'" _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 414D _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'A-DNA, DOUBLE HELIX, 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 2 ? G N N 2 ? H N N 2 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 414D _struct_ref.pdbx_db_accession 414D _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 414D A 1 ? 10 ? 414D 1 ? 10 ? 1 10 2 1 414D B 1 ? 10 ? 414D 11 ? 20 ? 11 20 3 1 414D C 1 ? 10 ? 414D 21 ? 30 ? 21 30 4 1 414D D 1 ? 10 ? 414D 31 ? 40 ? 31 40 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_defined_assembly ? dimeric 2 2 author_defined_assembly ? dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,E,F 2 1 C,D,G,H # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _struct_biol.id 1 2 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DC 10 N3 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DC 10 O2 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DC 10 N4 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 1 N2 ? ? ? 1_555 D DC 5 O2 ? ? A DG 1 D DC 35 1_555 ? ? ? ? ? ? 'DG-DC PAIR' ? ? ? hydrog5 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 9 N3 ? ? A DG 2 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 9 O2 ? ? A DG 2 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 9 N4 ? ? A DG 2 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 8 N3 ? ? A DG 3 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 8 O2 ? ? A DG 3 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 8 N4 ? ? A DG 3 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 7 N3 ? ? A DG 4 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 7 O2 ? ? A DG 4 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 7 N4 ? ? A DG 4 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 6 N1 ? ? A DC 5 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 6 O6 ? ? A DC 5 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 6 N2 ? ? A DC 5 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 7 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 7 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 7 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 7 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 7 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 7 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 9 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 9 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 9 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 10 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DC 10 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DC 10 O2 ? ? ? 1_555 B DG 1 N2 ? ? A DC 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? B DC 10 O2 ? ? ? 1_555 D DG 4 N2 ? ? B DC 20 D DG 34 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog33 hydrog ? ? C DG 1 N1 ? ? ? 1_555 D DC 10 N3 ? ? C DG 21 D DC 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? C DG 1 N2 ? ? ? 1_555 D DC 10 O2 ? ? C DG 21 D DC 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? C DG 1 O6 ? ? ? 1_555 D DC 10 N4 ? ? C DG 21 D DC 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? C DG 2 N1 ? ? ? 1_555 D DC 9 N3 ? ? C DG 22 D DC 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? C DG 2 N2 ? ? ? 1_555 D DC 9 O2 ? ? C DG 22 D DC 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? C DG 2 O6 ? ? ? 1_555 D DC 9 N4 ? ? C DG 22 D DC 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? C DG 3 N1 ? ? ? 1_555 D DC 8 N3 ? ? C DG 23 D DC 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? C DG 3 N2 ? ? ? 1_555 D DC 8 O2 ? ? C DG 23 D DC 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? C DG 3 O6 ? ? ? 1_555 D DC 8 N4 ? ? C DG 23 D DC 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? C DG 4 N1 ? ? ? 1_555 D DC 7 N3 ? ? C DG 24 D DC 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C DG 4 N2 ? ? ? 1_555 D DC 7 O2 ? ? C DG 24 D DC 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? C DG 4 O6 ? ? ? 1_555 D DC 7 N4 ? ? C DG 24 D DC 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? C DC 5 N3 ? ? ? 1_555 D DG 6 N1 ? ? C DC 25 D DG 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? C DC 5 N4 ? ? ? 1_555 D DG 6 O6 ? ? C DC 25 D DG 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? C DC 5 O2 ? ? ? 1_555 D DG 6 N2 ? ? C DC 25 D DG 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? C DG 6 N1 ? ? ? 1_555 D DC 5 N3 ? ? C DG 26 D DC 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? C DG 6 N2 ? ? ? 1_555 D DC 5 O2 ? ? C DG 26 D DC 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? C DG 6 O6 ? ? ? 1_555 D DC 5 N4 ? ? C DG 26 D DC 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? C DC 7 N3 ? ? ? 1_555 D DG 4 N1 ? ? C DC 27 D DG 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? C DC 7 N4 ? ? ? 1_555 D DG 4 O6 ? ? C DC 27 D DG 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? C DC 7 O2 ? ? ? 1_555 D DG 4 N2 ? ? C DC 27 D DG 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? C DC 8 N3 ? ? ? 1_555 D DG 3 N1 ? ? C DC 28 D DG 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? C DC 8 N4 ? ? ? 1_555 D DG 3 O6 ? ? C DC 28 D DG 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? C DC 8 O2 ? ? ? 1_555 D DG 3 N2 ? ? C DC 28 D DG 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? C DC 9 N3 ? ? ? 1_555 D DG 2 N1 ? ? C DC 29 D DG 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? C DC 9 N4 ? ? ? 1_555 D DG 2 O6 ? ? C DC 29 D DG 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? C DC 9 O2 ? ? ? 1_555 D DG 2 N2 ? ? C DC 29 D DG 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? C DC 10 N3 ? ? ? 1_555 D DG 1 N1 ? ? C DC 30 D DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? C DC 10 N4 ? ? ? 1_555 D DG 1 O6 ? ? C DC 30 D DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? C DC 10 O2 ? ? ? 1_555 D DG 1 N2 ? ? C DC 30 D DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 "O4'" _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 DC _pdbx_validate_rmsd_angle.auth_seq_id_1 9 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 "C1'" _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 DC _pdbx_validate_rmsd_angle.auth_seq_id_2 9 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 N1 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 DC _pdbx_validate_rmsd_angle.auth_seq_id_3 9 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 110.66 _pdbx_validate_rmsd_angle.angle_target_value 108.30 _pdbx_validate_rmsd_angle.angle_deviation 2.36 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.30 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal DC OP3 O N N 1 DC P P N N 2 DC OP1 O N N 3 DC OP2 O N N 4 DC "O5'" O N N 5 DC "C5'" C N N 6 DC "C4'" C N R 7 DC "O4'" O N N 8 DC "C3'" C N S 9 DC "O3'" O N N 10 DC "C2'" C N N 11 DC "C1'" C N R 12 DC N1 N N N 13 DC C2 C N N 14 DC O2 O N N 15 DC N3 N N N 16 DC C4 C N N 17 DC N4 N N N 18 DC C5 C N N 19 DC C6 C N N 20 DC HOP3 H N N 21 DC HOP2 H N N 22 DC "H5'" H N N 23 DC "H5''" H N N 24 DC "H4'" H N N 25 DC "H3'" H N N 26 DC "HO3'" H N N 27 DC "H2'" H N N 28 DC "H2''" H N N 29 DC "H1'" H N N 30 DC H41 H N N 31 DC H42 H N N 32 DC H5 H N N 33 DC H6 H N N 34 DG OP3 O N N 35 DG P P N N 36 DG OP1 O N N 37 DG OP2 O N N 38 DG "O5'" O N N 39 DG "C5'" C N N 40 DG "C4'" C N R 41 DG "O4'" O N N 42 DG "C3'" C N S 43 DG "O3'" O N N 44 DG "C2'" C N N 45 DG "C1'" C N R 46 DG N9 N Y N 47 DG C8 C Y N 48 DG N7 N Y N 49 DG C5 C Y N 50 DG C6 C N N 51 DG O6 O N N 52 DG N1 N N N 53 DG C2 C N N 54 DG N2 N N N 55 DG N3 N N N 56 DG C4 C Y N 57 DG HOP3 H N N 58 DG HOP2 H N N 59 DG "H5'" H N N 60 DG "H5''" H N N 61 DG "H4'" H N N 62 DG "H3'" H N N 63 DG "HO3'" H N N 64 DG "H2'" H N N 65 DG "H2''" H N N 66 DG "H1'" H N N 67 DG H8 H N N 68 DG H1 H N N 69 DG H21 H N N 70 DG H22 H N N 71 HOH O O N N 72 HOH H1 H N N 73 HOH H2 H N N 74 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal DC OP3 P sing N N 1 DC OP3 HOP3 sing N N 2 DC P OP1 doub N N 3 DC P OP2 sing N N 4 DC P "O5'" sing N N 5 DC OP2 HOP2 sing N N 6 DC "O5'" "C5'" sing N N 7 DC "C5'" "C4'" sing N N 8 DC "C5'" "H5'" sing N N 9 DC "C5'" "H5''" sing N N 10 DC "C4'" "O4'" sing N N 11 DC "C4'" "C3'" sing N N 12 DC "C4'" "H4'" sing N N 13 DC "O4'" "C1'" sing N N 14 DC "C3'" "O3'" sing N N 15 DC "C3'" "C2'" sing N N 16 DC "C3'" "H3'" sing N N 17 DC "O3'" "HO3'" sing N N 18 DC "C2'" "C1'" sing N N 19 DC "C2'" "H2'" sing N N 20 DC "C2'" "H2''" sing N N 21 DC "C1'" N1 sing N N 22 DC "C1'" "H1'" sing N N 23 DC N1 C2 sing N N 24 DC N1 C6 sing N N 25 DC C2 O2 doub N N 26 DC C2 N3 sing N N 27 DC N3 C4 doub N N 28 DC C4 N4 sing N N 29 DC C4 C5 sing N N 30 DC N4 H41 sing N N 31 DC N4 H42 sing N N 32 DC C5 C6 doub N N 33 DC C5 H5 sing N N 34 DC C6 H6 sing N N 35 DG OP3 P sing N N 36 DG OP3 HOP3 sing N N 37 DG P OP1 doub N N 38 DG P OP2 sing N N 39 DG P "O5'" sing N N 40 DG OP2 HOP2 sing N N 41 DG "O5'" "C5'" sing N N 42 DG "C5'" "C4'" sing N N 43 DG "C5'" "H5'" sing N N 44 DG "C5'" "H5''" sing N N 45 DG "C4'" "O4'" sing N N 46 DG "C4'" "C3'" sing N N 47 DG "C4'" "H4'" sing N N 48 DG "O4'" "C1'" sing N N 49 DG "C3'" "O3'" sing N N 50 DG "C3'" "C2'" sing N N 51 DG "C3'" "H3'" sing N N 52 DG "O3'" "HO3'" sing N N 53 DG "C2'" "C1'" sing N N 54 DG "C2'" "H2'" sing N N 55 DG "C2'" "H2''" sing N N 56 DG "C1'" N9 sing N N 57 DG "C1'" "H1'" sing N N 58 DG N9 C8 sing Y N 59 DG N9 C4 sing Y N 60 DG C8 N7 doub Y N 61 DG C8 H8 sing N N 62 DG N7 C5 sing Y N 63 DG C5 C6 sing N N 64 DG C5 C4 doub Y N 65 DG C6 O6 doub N N 66 DG C6 N1 sing N N 67 DG N1 C2 sing N N 68 DG N1 H1 sing N N 69 DG C2 N2 sing N N 70 DG C2 N3 doub N N 71 DG N2 H21 sing N N 72 DG N2 H22 sing N N 73 DG N3 C4 sing N N 74 HOH O H1 sing N N 75 HOH O H2 sing N N 76 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 414D 'double helix' 414D 'a-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 DG 1 1_555 B DC 10 1_555 -0.161 -0.091 -0.408 -8.829 2.854 0.085 1 A_DG1:DC20_B A 1 ? B 20 ? 19 1 1 A DG 2 1_555 B DC 9 1_555 -0.239 -0.066 -0.244 1.636 -3.731 1.720 2 A_DG2:DC19_B A 2 ? B 19 ? 19 1 1 A DG 3 1_555 B DC 8 1_555 -0.129 -0.086 -0.330 -3.763 -10.100 3.927 3 A_DG3:DC18_B A 3 ? B 18 ? 19 1 1 A DG 4 1_555 B DC 7 1_555 -0.259 -0.056 -0.512 -14.303 -14.131 4.242 4 A_DG4:DC17_B A 4 ? B 17 ? 19 1 1 A DC 5 1_555 B DG 6 1_555 0.114 -0.104 -0.167 -3.885 -13.773 2.507 5 A_DC5:DG16_B A 5 ? B 16 ? 19 1 1 A DG 6 1_555 B DC 5 1_555 -0.068 -0.071 0.257 5.006 -1.552 0.803 6 A_DG6:DC15_B A 6 ? B 15 ? 19 1 1 A DC 7 1_555 B DG 4 1_555 0.300 -0.231 -0.879 11.386 -13.248 5.068 7 A_DC7:DG14_B A 7 ? B 14 ? 19 1 1 A DC 8 1_555 B DG 3 1_555 0.242 -0.165 -0.714 8.269 -9.292 3.441 8 A_DC8:DG13_B A 8 ? B 13 ? 19 1 1 A DC 9 1_555 B DG 2 1_555 0.345 0.006 -0.005 -0.051 1.876 3.360 9 A_DC9:DG12_B A 9 ? B 12 ? 19 1 1 A DC 10 1_555 B DG 1 1_555 0.278 -0.125 -0.302 -1.126 7.274 -1.226 10 A_DC10:DG11_B A 10 ? B 11 ? 19 1 1 C DG 1 1_555 D DC 10 1_555 -0.182 -0.090 -0.038 -6.154 -2.697 -2.128 11 C_DG21:DC40_D C 21 ? D 40 ? 19 1 1 C DG 2 1_555 D DC 9 1_555 -0.243 -0.083 -0.173 -1.695 -5.558 2.790 12 C_DG22:DC39_D C 22 ? D 39 ? 19 1 1 C DG 3 1_555 D DC 8 1_555 -0.188 -0.178 -0.891 -10.931 -10.343 4.138 13 C_DG23:DC38_D C 23 ? D 38 ? 19 1 1 C DG 4 1_555 D DC 7 1_555 -0.228 -0.140 -0.632 -13.649 -11.530 2.850 14 C_DG24:DC37_D C 24 ? D 37 ? 19 1 1 C DC 5 1_555 D DG 6 1_555 0.236 -0.147 -0.663 8.744 -6.704 3.093 15 C_DC25:DG36_D C 25 ? D 36 ? 19 1 1 C DG 6 1_555 D DC 5 1_555 -0.188 -0.137 0.148 10.862 -5.837 -0.462 16 C_DG26:DC35_D C 26 ? D 35 ? 19 1 1 C DC 7 1_555 D DG 4 1_555 0.341 -0.140 -1.027 21.459 -12.563 5.026 17 C_DC27:DG34_D C 27 ? D 34 ? 19 1 1 C DC 8 1_555 D DG 3 1_555 0.179 -0.046 -0.611 12.207 -4.953 2.353 18 C_DC28:DG33_D C 28 ? D 33 ? 19 1 1 C DC 9 1_555 D DG 2 1_555 0.214 -0.095 0.018 -2.660 -2.304 2.020 19 C_DC29:DG32_D C 29 ? D 32 ? 19 1 1 C DC 10 1_555 D DG 1 1_555 0.095 -0.072 -0.707 16.075 14.981 -1.064 20 C_DC30:DG31_D C 30 ? D 31 ? 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 DG 1 1_555 B DC 10 1_555 A DG 2 1_555 B DC 9 1_555 -0.506 -1.376 3.245 -4.138 1.796 29.555 -3.038 0.131 3.197 3.495 8.053 29.889 1 AA_DG1DG2:DC19DC20_BB A 1 ? B 20 ? A 2 ? B 19 ? 1 A DG 2 1_555 B DC 9 1_555 A DG 3 1_555 B DC 8 1_555 0.587 -1.750 3.484 0.178 8.328 32.095 -4.472 -1.000 2.952 14.755 -0.314 33.131 2 AA_DG2DG3:DC18DC19_BB A 2 ? B 19 ? A 3 ? B 18 ? 1 A DG 3 1_555 B DC 8 1_555 A DG 4 1_555 B DC 7 1_555 -0.156 -1.370 3.819 0.986 0.654 30.620 -2.743 0.522 3.783 1.237 -1.866 30.642 3 AA_DG3DG4:DC17DC18_BB A 3 ? B 18 ? A 4 ? B 17 ? 1 A DG 4 1_555 B DC 7 1_555 A DC 5 1_555 B DG 6 1_555 -0.883 -0.916 3.006 -1.832 7.112 37.132 -2.237 1.150 2.828 11.036 2.842 37.826 4 AA_DG4DC5:DG16DC17_BB A 4 ? B 17 ? A 5 ? B 16 ? 1 A DC 5 1_555 B DG 6 1_555 A DG 6 1_555 B DC 5 1_555 1.082 -1.588 3.005 -0.541 10.969 23.343 -6.051 -2.550 2.038 25.386 1.251 25.765 5 AA_DC5DG6:DC15DG16_BB A 5 ? B 16 ? A 6 ? B 15 ? 1 A DG 6 1_555 B DC 5 1_555 A DC 7 1_555 B DG 4 1_555 0.516 -1.325 3.123 11.238 6.754 34.469 -2.967 0.627 2.848 10.921 -18.170 36.808 6 AA_DG6DC7:DG14DC15_BB A 6 ? B 15 ? A 7 ? B 14 ? 1 A DC 7 1_555 B DG 4 1_555 A DC 8 1_555 B DG 3 1_555 0.727 -1.791 3.603 1.933 7.657 32.363 -4.463 -0.932 3.145 13.488 -3.404 33.288 7 AA_DC7DC8:DG13DG14_BB A 7 ? B 14 ? A 8 ? B 13 ? 1 A DC 8 1_555 B DG 3 1_555 A DC 9 1_555 B DG 2 1_555 -0.238 -2.024 3.640 -3.482 6.760 25.373 -6.283 -0.439 3.014 14.968 7.708 26.470 8 AA_DC8DC9:DG12DG13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A DC 9 1_555 B DG 2 1_555 A DC 10 1_555 B DG 1 1_555 -0.258 -1.724 3.549 2.306 1.013 29.927 -3.551 1.006 3.461 1.957 -4.455 30.030 9 AA_DC9DC10:DG11DG12_BB A 9 ? B 12 ? A 10 ? B 11 ? 1 C DG 1 1_555 D DC 10 1_555 C DG 2 1_555 D DC 9 1_555 0.556 -1.906 3.518 4.412 -1.015 30.057 -3.412 -0.089 3.621 -1.944 -8.446 30.388 10 CC_DG21DG22:DC39DC40_DD C 21 ? D 40 ? C 22 ? D 39 ? 1 C DG 2 1_555 D DC 9 1_555 C DG 3 1_555 D DC 8 1_555 -0.053 -2.075 3.853 2.306 7.068 29.730 -5.471 0.604 3.271 13.510 -4.407 30.625 11 CC_DG22DG23:DC38DC39_DD C 22 ? D 39 ? C 23 ? D 38 ? 1 C DG 3 1_555 D DC 8 1_555 C DG 4 1_555 D DC 7 1_555 -1.341 -1.031 3.523 -5.003 4.257 31.268 -2.715 1.449 3.523 7.790 9.156 31.933 12 CC_DG23DG24:DC37DC38_DD C 23 ? D 38 ? C 24 ? D 37 ? 1 C DG 4 1_555 D DC 7 1_555 C DC 5 1_555 D DG 6 1_555 0.558 -1.085 2.819 1.511 13.796 29.963 -3.788 -0.779 2.151 25.062 -2.745 32.955 13 CC_DG24DC25:DG36DC37_DD C 24 ? D 37 ? C 25 ? D 36 ? 1 C DC 5 1_555 D DG 6 1_555 C DG 6 1_555 D DC 5 1_555 -0.925 -1.629 3.436 -9.945 17.164 23.230 -6.372 -0.135 2.026 35.453 20.542 30.459 14 CC_DC25DG26:DC35DG36_DD C 25 ? D 36 ? C 26 ? D 35 ? 1 C DG 6 1_555 D DC 5 1_555 C DC 7 1_555 D DG 4 1_555 1.143 -0.987 3.045 11.070 4.830 34.933 -2.191 -0.359 3.095 7.765 -17.796 36.900 15 CC_DG26DC27:DG34DC35_DD C 26 ? D 35 ? C 27 ? D 34 ? 1 C DC 7 1_555 D DG 4 1_555 C DC 8 1_555 D DG 3 1_555 0.352 -1.543 3.757 -2.396 5.031 32.764 -3.635 -1.062 3.455 8.839 4.209 33.221 16 CC_DC27DC28:DG33DG34_DD C 27 ? D 34 ? C 28 ? D 33 ? 1 C DC 8 1_555 D DG 3 1_555 C DC 9 1_555 D DG 2 1_555 -0.674 -1.884 3.778 -2.389 8.318 28.430 -5.573 0.771 3.157 16.460 4.728 29.692 17 CC_DC28DC29:DG32DG33_DD C 28 ? D 33 ? C 29 ? D 32 ? 1 C DC 9 1_555 D DG 2 1_555 C DC 10 1_555 D DG 1 1_555 -0.094 -1.743 3.155 3.756 2.264 26.437 -4.312 1.116 2.956 4.908 -8.141 26.792 18 CC_DC29DC30:DG31DG32_DD C 29 ? D 32 ? C 30 ? D 31 ? # _atom_sites.entry_id 414D _atom_sites.fract_transf_matrix[1][1] 0.021976 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.004168 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.021700 _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] 0.035757 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P # loop_