data_1D63 # _entry.id 1D63 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.385 _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 1D63 pdb_00001d63 10.2210/pdb1d63/pdb RCSB GDL016 ? ? WWPDB D_1000172664 ? ? # 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 1993-01-15 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-07 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' pdbx_struct_conn_angle 5 4 'Structure model' struct_conn 6 4 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 11 4 'Structure model' '_pdbx_struct_conn_angle.value' 12 4 'Structure model' '_struct_conn.pdbx_dist_value' 13 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 14 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 15 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 16 4 'Structure model' '_struct_conn.ptnr2_symmetry' 17 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 18 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 19 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1D63 _pdbx_database_status.recvd_initial_deposition_date 1992-03-02 _pdbx_database_status.deposit_site BNL _pdbx_database_status.process_site NDB _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.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Brown, D.G.' 1 'Sanderson, M.R.' 2 'Garman, E.' 3 'Neidle, S.' 4 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary ;Crystal structure of a berenil-d(CGCAAATTTGCG) complex. An example of drug-DNA recognition based on sequence-dependent structural features. ; J.Mol.Biol. 226 481 490 1992 JMOBAK UK 0022-2836 0070 ? 1640462 '10.1016/0022-2836(92)90962-J' 1 'Crystal Structure of a Berenil-Dodecanucleotide Complex: The Role of Water in Sequence-Specific Ligand Binding' 'Embo J.' 9 1329 1334 1990 EMJODG UK 0261-4189 0897 ? ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Brown, D.G.' 1 ? primary 'Sanderson, M.R.' 2 ? primary 'Garman, E.' 3 ? primary 'Neidle, S.' 4 ? 1 'Brown, D.G.' 5 ? 1 'Sanderson, M.R.' 6 ? 1 'Skelly, J.V.' 7 ? 1 'Jenkins, T.C.' 8 ? 1 'Brown, T.' 9 ? 1 'Garman, E.' 10 ? 1 'Stuart, D.I.' 11 ? 1 'Neidle, S.' 12 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*CP*GP*CP*AP*AP*AP*TP*TP*TP*GP*CP*G)-3') ; 3662.404 2 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 3 non-polymer syn BERENIL 281.316 1 ? ? ? ? 4 water nat water 18.015 65 ? ? ? ? # _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)(DA)(DA)(DA)(DT)(DT)(DT)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCAAATTTGCG _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 BERENIL BRN 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 DA n 1 5 DA n 1 6 DA n 1 7 DT n 1 8 DT n 1 9 DT n 1 10 DG n 1 11 DC n 1 12 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 BRN non-polymer . BERENIL ;DIMINAZINE ACETURATE; 1,3-TRIS-(4'AMIDINOPHENYL)TRIAZINE ; 'C14 H15 N7' 281.316 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 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 DA 4 4 4 DA A A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DA 6 6 6 DA A A . n A 1 7 DT 7 7 7 DT T A . n A 1 8 DT 8 8 8 DT T A . n A 1 9 DT 9 9 9 DT T A . n A 1 10 DG 10 10 10 DG G A . n A 1 11 DC 11 11 11 DC C A . n A 1 12 DG 12 12 12 DG G A . n B 1 1 DC 1 13 13 DC C B . n B 1 2 DG 2 14 14 DG G B . n B 1 3 DC 3 15 15 DC C B . n B 1 4 DA 4 16 16 DA A B . n B 1 5 DA 5 17 17 DA A B . n B 1 6 DA 6 18 18 DA A B . n B 1 7 DT 7 19 19 DT T B . n B 1 8 DT 8 20 20 DT T B . n B 1 9 DT 9 21 21 DT T B . n B 1 10 DG 10 22 22 DG G B . n B 1 11 DC 11 23 23 DC C B . n B 1 12 DG 12 24 24 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 26 26 MG MG A . D 3 BRN 1 25 25 BRN BRN B . E 4 HOH 1 28 28 HOH HOH A . E 4 HOH 2 29 29 HOH HOH A . E 4 HOH 3 31 31 HOH HOH A . E 4 HOH 4 35 35 HOH HOH A . E 4 HOH 5 36 36 HOH HOH A . E 4 HOH 6 37 37 HOH HOH A . E 4 HOH 7 41 41 HOH HOH A . E 4 HOH 8 42 42 HOH HOH A . E 4 HOH 9 45 45 HOH HOH A . E 4 HOH 10 47 47 HOH HOH A . E 4 HOH 11 49 49 HOH HOH A . E 4 HOH 12 53 53 HOH HOH A . E 4 HOH 13 54 54 HOH HOH A . E 4 HOH 14 55 55 HOH HOH A . E 4 HOH 15 57 57 HOH HOH A . E 4 HOH 16 58 58 HOH HOH A . E 4 HOH 17 59 59 HOH HOH A . E 4 HOH 18 63 63 HOH HOH A . E 4 HOH 19 64 64 HOH HOH A . E 4 HOH 20 65 65 HOH HOH A . E 4 HOH 21 66 66 HOH HOH A . E 4 HOH 22 68 68 HOH HOH A . E 4 HOH 23 71 71 HOH HOH A . E 4 HOH 24 72 72 HOH HOH A . E 4 HOH 25 75 75 HOH HOH A . E 4 HOH 26 77 77 HOH HOH A . E 4 HOH 27 79 79 HOH HOH A . E 4 HOH 28 80 80 HOH HOH A . E 4 HOH 29 84 84 HOH HOH A . E 4 HOH 30 86 86 HOH HOH A . E 4 HOH 31 87 87 HOH HOH A . E 4 HOH 32 88 88 HOH HOH A . E 4 HOH 33 89 89 HOH HOH A . E 4 HOH 34 91 91 HOH HOH A . F 4 HOH 1 27 27 HOH HOH B . F 4 HOH 2 30 30 HOH HOH B . F 4 HOH 3 32 32 HOH HOH B . F 4 HOH 4 33 33 HOH HOH B . F 4 HOH 5 34 34 HOH HOH B . F 4 HOH 6 38 38 HOH HOH B . F 4 HOH 7 39 39 HOH HOH B . F 4 HOH 8 40 40 HOH HOH B . F 4 HOH 9 43 43 HOH HOH B . F 4 HOH 10 44 44 HOH HOH B . F 4 HOH 11 46 46 HOH HOH B . F 4 HOH 12 48 48 HOH HOH B . F 4 HOH 13 50 50 HOH HOH B . F 4 HOH 14 51 51 HOH HOH B . F 4 HOH 15 52 52 HOH HOH B . F 4 HOH 16 56 56 HOH HOH B . F 4 HOH 17 60 60 HOH HOH B . F 4 HOH 18 61 61 HOH HOH B . F 4 HOH 19 62 62 HOH HOH B . F 4 HOH 20 67 67 HOH HOH B . F 4 HOH 21 69 69 HOH HOH B . F 4 HOH 22 70 70 HOH HOH B . F 4 HOH 23 73 73 HOH HOH B . F 4 HOH 24 74 74 HOH HOH B . F 4 HOH 25 76 76 HOH HOH B . F 4 HOH 26 78 78 HOH HOH B . F 4 HOH 27 81 81 HOH HOH B . F 4 HOH 28 82 82 HOH HOH B . F 4 HOH 29 83 83 HOH HOH B . F 4 HOH 30 85 85 HOH HOH B . F 4 HOH 31 90 90 HOH HOH B . # _software.name NUCLSQ _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 1D63 _cell.length_a 24.640 _cell.length_b 40.610 _cell.length_c 65.070 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1D63 _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 # _exptl.entry_id 1D63 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.22 _exptl_crystal.density_percent_sol 44.65 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details 'ROOM TEMPERATURE' _exptl_crystal_grow.pH 7.00 _exptl_crystal_grow.pdbx_details 'pH 7.00, VAPOR DIFFUSION, HANGING DROP' _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 WATER ? ? ? 1 2 1 MPD ? ? ? 1 3 1 MGCL2 ? ? ? 1 4 1 'NA CACODYLATE' ? ? ? 1 5 1 AZIDE ? ? ? 1 6 2 WATER ? ? ? 1 7 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 291.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'AREA DETECTOR' _diffrn_detector.type XENTRONICS _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 ? _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'RIGAKU RU200' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1D63 _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low ? _reflns.d_resolution_high 2.000 _reflns.number_obs 4067 _reflns.number_all 12415 _reflns.percent_possible_obs ? _reflns.pdbx_Rmerge_I_obs 0.0620000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 1D63 _refine.ls_number_reflns_obs 3106 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 7.000 _refine.ls_d_res_high 2.000 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.1830000 _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.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 486 _refine_hist.pdbx_number_atoms_ligand 22 _refine_hist.number_atoms_solvent 65 _refine_hist.number_atoms_total 573 _refine_hist.d_res_high 2.000 _refine_hist.d_res_low 7.000 # 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 n_bond_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_planar_d ? ? ? ? 'X-RAY DIFFRACTION' ? n_hb_or_metal_coord ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_angle_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_phos_angle_it ? ? ? ? 'X-RAY DIFFRACTION' ? n_bond_angle_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_dihedral_angle_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_impr_tor ? ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_d 0.011 ? ? ? 'X-RAY DIFFRACTION' ? n_sugar_bond_angle_d 0.026 ? ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_d 0.032 ? ? ? 'X-RAY DIFFRACTION' ? n_phos_bond_angle_d 0.032 ? ? ? 'X-RAY DIFFRACTION' ? n_plane_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_chiral_restr ? ? ? ? 'X-RAY DIFFRACTION' ? n_singtor_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? n_multtor_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? n_xhyhbond_nbd ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 1D63 _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 1D63 _struct.title ;CRYSTAL STRUCTURE OF A BERENIL-D(CGCAAATTTGCG) COMPLEX; AN EXAMPLE OF DRUG-DNA RECOGNITION BASED ON SEQUENCE-DEPENDENT STRUCTURAL FEATURES ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1D63 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'B-DNA, DOUBLE HELIX, COMPLEXED WITH DRUG, 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 4 ? F N N 4 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1D63 _struct_ref.pdbx_db_accession 1D63 _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 1D63 A 1 ? 12 ? 1D63 1 ? 12 ? 1 12 2 1 1D63 B 1 ? 12 ? 1D63 13 ? 24 ? 13 24 # _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 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 26 A HOH 41 3_657 ? ? ? ? ? ? ? 1.984 ? ? metalc2 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 26 A HOH 54 1_555 ? ? ? ? ? ? ? 1.906 ? ? metalc3 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 26 A HOH 55 1_555 ? ? ? ? ? ? ? 1.985 ? ? metalc4 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 26 A HOH 66 3_657 ? ? ? ? ? ? ? 2.290 ? ? metalc5 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 26 B HOH 83 1_555 ? ? ? ? ? ? ? 2.330 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 4 N1 ? ? ? 1_555 B DT 9 N3 ? ? A DA 4 B DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 4 N6 ? ? ? 1_555 B DT 9 O4 ? ? A DA 4 B DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 9 N3 ? ? ? 1_555 B DA 4 N1 ? ? A DT 9 B DA 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DT 9 O4 ? ? ? 1_555 B DA 4 N6 ? ? A DT 9 B DA 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 13 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 O ? E HOH . ? A HOH 41 ? 3_657 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 54 ? 1_555 69.3 ? 2 O ? E HOH . ? A HOH 41 ? 3_657 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 55 ? 1_555 170.6 ? 3 O ? E HOH . ? A HOH 54 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 55 ? 1_555 117.4 ? 4 O ? E HOH . ? A HOH 41 ? 3_657 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 66 ? 3_657 78.4 ? 5 O ? E HOH . ? A HOH 54 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 66 ? 3_657 81.6 ? 6 O ? E HOH . ? A HOH 55 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? E HOH . ? A HOH 66 ? 3_657 95.6 ? 7 O ? E HOH . ? A HOH 41 ? 3_657 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 83 ? 1_555 81.1 ? 8 O ? E HOH . ? A HOH 54 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 83 ? 1_555 147.7 ? 9 O ? E HOH . ? A HOH 55 ? 1_555 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 83 ? 1_555 90.8 ? 10 O ? E HOH . ? A HOH 66 ? 3_657 MG ? C MG . ? A MG 26 ? 1_555 O ? F HOH . ? B HOH 83 ? 1_555 80.2 ? # 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 B BRN 25 ? 9 'BINDING SITE FOR RESIDUE BRN B 25' AC2 Software A MG 26 ? 5 'BINDING SITE FOR RESIDUE MG A 26' 1 ? ? ? ? ? ? ? # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 9 DA A 6 ? DA A 6 . ? 1_555 ? 2 AC1 9 DT A 7 ? DT A 7 . ? 1_555 ? 3 AC1 9 DT A 8 ? DT A 8 . ? 1_555 ? 4 AC1 9 DT A 9 ? DT A 9 . ? 1_555 ? 5 AC1 9 DA B 6 ? DA B 18 . ? 1_555 ? 6 AC1 9 DT B 7 ? DT B 19 . ? 1_555 ? 7 AC1 9 DT B 8 ? DT B 20 . ? 1_555 ? 8 AC1 9 DT B 9 ? DT B 21 . ? 1_555 ? 9 AC1 9 HOH F . ? HOH B 67 . ? 1_555 ? 10 AC2 5 HOH E . ? HOH A 41 . ? 3_657 ? 11 AC2 5 HOH E . ? HOH A 54 . ? 1_555 ? 12 AC2 5 HOH E . ? HOH A 55 . ? 1_555 ? 13 AC2 5 HOH E . ? HOH A 66 . ? 3_657 ? 14 AC2 5 HOH F . ? HOH B 83 . ? 1_555 ? # 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 OP2 B DG 24 ? ? 1_555 O B HOH 61 ? ? 2_665 1.66 2 1 "C5'" A DC 1 ? ? 1_555 O A HOH 64 ? ? 3_657 1.93 3 1 O A HOH 86 ? ? 1_555 O A HOH 91 ? ? 2_664 1.97 4 1 O A HOH 45 ? ? 1_555 O B HOH 70 ? ? 2_564 2.04 5 1 O A HOH 57 ? ? 1_555 O B HOH 46 ? ? 2_665 2.09 # 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 "O3'" A DA 6 ? ? P A DT 7 ? ? 1.524 1.607 -0.083 0.012 Y 2 1 "O4'" A DT 8 ? ? "C1'" A DT 8 ? ? 1.490 1.420 0.070 0.011 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 N3 A DC 1 ? ? C4 A DC 1 ? ? C5 A DC 1 ? ? 119.40 121.90 -2.50 0.40 N 2 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 112.17 108.30 3.87 0.30 N 3 1 "C3'" A DG 2 ? ? "O3'" A DG 2 ? ? P A DC 3 ? ? 131.69 119.70 11.99 1.20 Y 4 1 "O4'" A DA 4 ? ? "C1'" A DA 4 ? ? N9 A DA 4 ? ? 110.79 108.30 2.49 0.30 N 5 1 C6 A DA 4 ? ? N1 A DA 4 ? ? C2 A DA 4 ? ? 123.39 118.60 4.79 0.60 N 6 1 N1 A DA 4 ? ? C2 A DA 4 ? ? N3 A DA 4 ? ? 125.32 129.30 -3.98 0.50 N 7 1 C5 A DA 4 ? ? C6 A DA 4 ? ? N1 A DA 4 ? ? 113.83 117.70 -3.87 0.50 N 8 1 "O5'" A DA 5 ? ? "C5'" A DA 5 ? ? "C4'" A DA 5 ? ? 101.44 109.40 -7.96 0.80 N 9 1 P A DA 5 ? ? "O5'" A DA 5 ? ? "C5'" A DA 5 ? ? 110.91 120.90 -9.99 1.60 N 10 1 C6 A DA 5 ? ? N1 A DA 5 ? ? C2 A DA 5 ? ? 122.40 118.60 3.80 0.60 N 11 1 N1 A DA 5 ? ? C2 A DA 5 ? ? N3 A DA 5 ? ? 124.38 129.30 -4.92 0.50 N 12 1 "C3'" A DA 5 ? ? "O3'" A DA 5 ? ? P A DA 6 ? ? 131.54 119.70 11.84 1.20 Y 13 1 "O5'" A DA 6 ? ? "C5'" A DA 6 ? ? "C4'" A DA 6 ? ? 102.82 109.40 -6.58 0.80 N 14 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? N9 A DA 6 ? ? 110.22 108.30 1.92 0.30 N 15 1 C6 A DA 6 ? ? N1 A DA 6 ? ? C2 A DA 6 ? ? 122.97 118.60 4.37 0.60 N 16 1 N1 A DA 6 ? ? C2 A DA 6 ? ? N3 A DA 6 ? ? 125.14 129.30 -4.16 0.50 N 17 1 C5 A DA 6 ? ? C6 A DA 6 ? ? N1 A DA 6 ? ? 114.23 117.70 -3.47 0.50 N 18 1 C5 A DA 6 ? ? C6 A DA 6 ? ? N6 A DA 6 ? ? 128.62 123.70 4.92 0.80 N 19 1 "C3'" A DA 6 ? ? "O3'" A DA 6 ? ? P A DT 7 ? ? 132.70 119.70 13.00 1.20 Y 20 1 "C3'" A DT 7 ? ? "O3'" A DT 7 ? ? P A DT 8 ? ? 130.70 119.70 11.00 1.20 Y 21 1 "O5'" A DT 8 ? ? "C5'" A DT 8 ? ? "C4'" A DT 8 ? ? 103.65 109.40 -5.75 0.80 N 22 1 C2 A DT 8 ? ? N3 A DT 8 ? ? C4 A DT 8 ? ? 123.49 127.20 -3.71 0.60 N 23 1 "O5'" A DT 9 ? ? "C5'" A DT 9 ? ? "C4'" A DT 9 ? ? 101.69 109.40 -7.71 0.80 N 24 1 C2 A DT 9 ? ? N3 A DT 9 ? ? C4 A DT 9 ? ? 122.00 127.20 -5.20 0.60 N 25 1 N3 A DT 9 ? ? C4 A DT 9 ? ? C5 A DT 9 ? ? 119.66 115.20 4.46 0.60 N 26 1 "C3'" A DT 9 ? ? "O3'" A DT 9 ? ? P A DG 10 ? ? 131.31 119.70 11.61 1.20 Y 27 1 "O5'" A DG 10 ? ? "C5'" A DG 10 ? ? "C4'" A DG 10 ? ? 103.55 109.40 -5.85 0.80 N 28 1 "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? "C1'" A DG 10 ? ? 94.08 102.40 -8.32 0.80 N 29 1 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 110.68 108.30 2.38 0.30 N 30 1 C6 A DG 10 ? ? N1 A DG 10 ? ? C2 A DG 10 ? ? 120.96 125.10 -4.14 0.60 N 31 1 C5 A DG 10 ? ? C6 A DG 10 ? ? N1 A DG 10 ? ? 115.43 111.50 3.93 0.50 N 32 1 "O5'" A DC 11 ? ? "C5'" A DC 11 ? ? "C4'" A DC 11 ? ? 104.50 109.40 -4.90 0.80 N 33 1 "C3'" B DC 13 ? ? "C2'" B DC 13 ? ? "C1'" B DC 13 ? ? 96.97 102.40 -5.43 0.80 N 34 1 "O5'" B DA 16 ? ? "C5'" B DA 16 ? ? "C4'" B DA 16 ? ? 104.27 109.40 -5.13 0.80 N 35 1 "O5'" B DA 17 ? ? "C5'" B DA 17 ? ? "C4'" B DA 17 ? ? 103.84 109.40 -5.56 0.80 N 36 1 P B DA 17 ? ? "O5'" B DA 17 ? ? "C5'" B DA 17 ? ? 110.56 120.90 -10.34 1.60 N 37 1 "O4'" B DA 17 ? ? "C1'" B DA 17 ? ? N9 B DA 17 ? ? 110.81 108.30 2.51 0.30 N 38 1 C6 B DA 17 ? ? N1 B DA 17 ? ? C2 B DA 17 ? ? 122.36 118.60 3.76 0.60 N 39 1 N1 B DA 17 ? ? C2 B DA 17 ? ? N3 B DA 17 ? ? 125.75 129.30 -3.55 0.50 N 40 1 "O5'" B DA 18 ? ? "C5'" B DA 18 ? ? "C4'" B DA 18 ? ? 103.97 109.40 -5.43 0.80 N 41 1 "O4'" B DA 18 ? ? "C1'" B DA 18 ? ? N9 B DA 18 ? ? 111.40 108.30 3.10 0.30 N 42 1 C6 B DA 18 ? ? N1 B DA 18 ? ? C2 B DA 18 ? ? 123.61 118.60 5.01 0.60 N 43 1 N1 B DA 18 ? ? C2 B DA 18 ? ? N3 B DA 18 ? ? 125.29 129.30 -4.01 0.50 N 44 1 C5 B DA 18 ? ? C6 B DA 18 ? ? N1 B DA 18 ? ? 113.80 117.70 -3.90 0.50 N 45 1 "C3'" B DA 18 ? ? "O3'" B DA 18 ? ? P B DT 19 ? ? 128.13 119.70 8.43 1.20 Y 46 1 "O5'" B DT 19 ? ? "C5'" B DT 19 ? ? "C4'" B DT 19 ? ? 102.01 109.40 -7.39 0.80 N 47 1 P B DT 19 ? ? "O5'" B DT 19 ? ? "C5'" B DT 19 ? ? 108.90 120.90 -12.00 1.60 N 48 1 "O4'" B DT 19 ? ? "C1'" B DT 19 ? ? N1 B DT 19 ? ? 110.13 108.30 1.83 0.30 N 49 1 "C3'" B DT 19 ? ? "O3'" B DT 19 ? ? P B DT 20 ? ? 131.36 119.70 11.66 1.20 Y 50 1 "C3'" B DT 20 ? ? "O3'" B DT 20 ? ? P B DT 21 ? ? 128.44 119.70 8.74 1.20 Y 51 1 "O5'" B DT 21 ? ? "C5'" B DT 21 ? ? "C4'" B DT 21 ? ? 102.03 109.40 -7.37 0.80 N 52 1 "O4'" B DT 21 ? ? "C1'" B DT 21 ? ? N1 B DT 21 ? ? 102.51 108.00 -5.49 0.70 N 53 1 C2 B DT 21 ? ? N3 B DT 21 ? ? C4 B DT 21 ? ? 121.90 127.20 -5.30 0.60 N 54 1 N3 B DT 21 ? ? C4 B DT 21 ? ? C5 B DT 21 ? ? 119.36 115.20 4.16 0.60 N 55 1 "C3'" B DG 22 ? ? "C2'" B DG 22 ? ? "C1'" B DG 22 ? ? 96.58 102.40 -5.82 0.80 N 56 1 "O4'" B DG 22 ? ? "C1'" B DG 22 ? ? N9 B DG 22 ? ? 113.56 108.30 5.26 0.30 N 57 1 "O5'" B DC 23 ? ? "C5'" B DC 23 ? ? "C4'" B DC 23 ? ? 103.48 109.40 -5.92 0.80 N 58 1 "O5'" B DG 24 ? ? "C5'" B DG 24 ? ? "C4'" B DG 24 ? ? 104.40 109.40 -5.00 0.80 N 59 1 "O4'" B DG 24 ? ? "C1'" B DG 24 ? ? N9 B DG 24 ? ? 110.38 108.30 2.08 0.30 N 60 1 C5 B DG 24 ? ? C6 B DG 24 ? ? N1 B DG 24 ? ? 114.53 111.50 3.03 0.50 N # _struct_site_keywords.site_id 1 _struct_site_keywords.text 'MINOR GROOVE BINDER' # loop_ _refine_B_iso.class _refine_B_iso.details _refine_B_iso.treatment _refine_B_iso.pdbx_refine_id 'ALL ATOMS' TR isotropic 'X-RAY DIFFRACTION' 'ALL WATERS' TR isotropic 'X-RAY DIFFRACTION' 'ALL DRUG ATOMS' TR isotropic 'X-RAY DIFFRACTION' # loop_ _refine_occupancy.class _refine_occupancy.treatment _refine_occupancy.pdbx_refine_id 'ALL ATOMS' fix 'X-RAY DIFFRACTION' 'ALL WATERS' fix 'X-RAY DIFFRACTION' 'ALL DRUG ATOMS' fix 'X-RAY DIFFRACTION' # 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 BRN C1 C Y N 1 BRN C2 C Y N 2 BRN C3 C Y N 3 BRN C4 C Y N 4 BRN C5 C Y N 5 BRN C6 C Y N 6 BRN C7 C N N 7 BRN NA N N N 8 BRN NB N N N 9 BRN N1 N N N 10 BRN N N N N 11 BRN "N1'" N N N 12 BRN "C1'" C Y N 13 BRN "C2'" C Y N 14 BRN "C3'" C Y N 15 BRN "C4'" C Y N 16 BRN "C5'" C Y N 17 BRN "C6'" C Y N 18 BRN "C7'" C N N 19 BRN "NA'" N N N 20 BRN "NB'" N N N 21 BRN H2 H N N 22 BRN H3 H N N 23 BRN H5 H N N 24 BRN H6 H N N 25 BRN HA H N N 26 BRN HB1 H N N 27 BRN HB2 H N N 28 BRN HN1 H N N 29 BRN "H2'" H N N 30 BRN "H3'" H N N 31 BRN "H5'" H N N 32 BRN "H6'" H N N 33 BRN "HA'" H N N 34 BRN "HB'1" H N N 35 BRN "HB'2" H N N 36 DA OP3 O N N 37 DA P P N N 38 DA OP1 O N N 39 DA OP2 O N N 40 DA "O5'" O N N 41 DA "C5'" C N N 42 DA "C4'" C N R 43 DA "O4'" O N N 44 DA "C3'" C N S 45 DA "O3'" O N N 46 DA "C2'" C N N 47 DA "C1'" C N R 48 DA N9 N Y N 49 DA C8 C Y N 50 DA N7 N Y N 51 DA C5 C Y N 52 DA C6 C Y N 53 DA N6 N N N 54 DA N1 N Y N 55 DA C2 C Y N 56 DA N3 N Y N 57 DA C4 C Y N 58 DA HOP3 H N N 59 DA HOP2 H N N 60 DA "H5'" H N N 61 DA "H5''" H N N 62 DA "H4'" H N N 63 DA "H3'" H N N 64 DA "HO3'" H N N 65 DA "H2'" H N N 66 DA "H2''" H N N 67 DA "H1'" H N N 68 DA H8 H N N 69 DA H61 H N N 70 DA H62 H N N 71 DA H2 H N N 72 DC OP3 O N N 73 DC P P N N 74 DC OP1 O N N 75 DC OP2 O N N 76 DC "O5'" O N N 77 DC "C5'" C N N 78 DC "C4'" C N R 79 DC "O4'" O N N 80 DC "C3'" C N S 81 DC "O3'" O N N 82 DC "C2'" C N N 83 DC "C1'" C N R 84 DC N1 N N N 85 DC C2 C N N 86 DC O2 O N N 87 DC N3 N N N 88 DC C4 C N N 89 DC N4 N N N 90 DC C5 C N N 91 DC C6 C N N 92 DC HOP3 H N N 93 DC HOP2 H N N 94 DC "H5'" H N N 95 DC "H5''" H N N 96 DC "H4'" H N N 97 DC "H3'" H N N 98 DC "HO3'" H N N 99 DC "H2'" H N N 100 DC "H2''" H N N 101 DC "H1'" H N N 102 DC H41 H N N 103 DC H42 H N N 104 DC H5 H N N 105 DC H6 H N N 106 DG OP3 O N N 107 DG P P N N 108 DG OP1 O N N 109 DG OP2 O N N 110 DG "O5'" O N N 111 DG "C5'" C N N 112 DG "C4'" C N R 113 DG "O4'" O N N 114 DG "C3'" C N S 115 DG "O3'" O N N 116 DG "C2'" C N N 117 DG "C1'" C N R 118 DG N9 N Y N 119 DG C8 C Y N 120 DG N7 N Y N 121 DG C5 C Y N 122 DG C6 C N N 123 DG O6 O N N 124 DG N1 N N N 125 DG C2 C N N 126 DG N2 N N N 127 DG N3 N N N 128 DG C4 C Y N 129 DG HOP3 H N N 130 DG HOP2 H N N 131 DG "H5'" H N N 132 DG "H5''" H N N 133 DG "H4'" H N N 134 DG "H3'" H N N 135 DG "HO3'" H N N 136 DG "H2'" H N N 137 DG "H2''" H N N 138 DG "H1'" H N N 139 DG H8 H N N 140 DG H1 H N N 141 DG H21 H N N 142 DG H22 H N N 143 DT OP3 O N N 144 DT P P N N 145 DT OP1 O N N 146 DT OP2 O N N 147 DT "O5'" O N N 148 DT "C5'" C N N 149 DT "C4'" C N R 150 DT "O4'" O N N 151 DT "C3'" C N S 152 DT "O3'" O N N 153 DT "C2'" C N N 154 DT "C1'" C N R 155 DT N1 N N N 156 DT C2 C N N 157 DT O2 O N N 158 DT N3 N N N 159 DT C4 C N N 160 DT O4 O N N 161 DT C5 C N N 162 DT C7 C N N 163 DT C6 C N N 164 DT HOP3 H N N 165 DT HOP2 H N N 166 DT "H5'" H N N 167 DT "H5''" H N N 168 DT "H4'" H N N 169 DT "H3'" H N N 170 DT "HO3'" H N N 171 DT "H2'" H N N 172 DT "H2''" H N N 173 DT "H1'" H N N 174 DT H3 H N N 175 DT H71 H N N 176 DT H72 H N N 177 DT H73 H N N 178 DT H6 H N N 179 HOH O O N N 180 HOH H1 H N N 181 HOH H2 H N N 182 MG MG MG N N 183 # 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 BRN C1 C2 doub Y N 1 BRN C1 C6 sing Y N 2 BRN C1 N1 sing N N 3 BRN C2 C3 sing Y N 4 BRN C2 H2 sing N N 5 BRN C3 C4 doub Y N 6 BRN C3 H3 sing N N 7 BRN C4 C5 sing Y N 8 BRN C4 C7 sing N N 9 BRN C5 C6 doub Y N 10 BRN C5 H5 sing N N 11 BRN C6 H6 sing N N 12 BRN C7 NA doub N N 13 BRN C7 NB sing N N 14 BRN NA HA sing N N 15 BRN NB HB1 sing N N 16 BRN NB HB2 sing N N 17 BRN N1 N sing N N 18 BRN N1 HN1 sing N N 19 BRN N "N1'" doub N E 20 BRN "N1'" "C1'" sing N N 21 BRN "C1'" "C2'" doub Y N 22 BRN "C1'" "C6'" sing Y N 23 BRN "C2'" "C3'" sing Y N 24 BRN "C2'" "H2'" sing N N 25 BRN "C3'" "C4'" doub Y N 26 BRN "C3'" "H3'" sing N N 27 BRN "C4'" "C5'" sing Y N 28 BRN "C4'" "C7'" sing N N 29 BRN "C5'" "C6'" doub Y N 30 BRN "C5'" "H5'" sing N N 31 BRN "C6'" "H6'" sing N N 32 BRN "C7'" "NA'" doub N N 33 BRN "C7'" "NB'" sing N N 34 BRN "NA'" "HA'" sing N N 35 BRN "NB'" "HB'1" sing N N 36 BRN "NB'" "HB'2" sing N N 37 DA OP3 P sing N N 38 DA OP3 HOP3 sing N N 39 DA P OP1 doub N N 40 DA P OP2 sing N N 41 DA P "O5'" sing N N 42 DA OP2 HOP2 sing N N 43 DA "O5'" "C5'" sing N N 44 DA "C5'" "C4'" sing N N 45 DA "C5'" "H5'" sing N N 46 DA "C5'" "H5''" sing N N 47 DA "C4'" "O4'" sing N N 48 DA "C4'" "C3'" sing N N 49 DA "C4'" "H4'" sing N N 50 DA "O4'" "C1'" sing N N 51 DA "C3'" "O3'" sing N N 52 DA "C3'" "C2'" sing N N 53 DA "C3'" "H3'" sing N N 54 DA "O3'" "HO3'" sing N N 55 DA "C2'" "C1'" sing N N 56 DA "C2'" "H2'" sing N N 57 DA "C2'" "H2''" sing N N 58 DA "C1'" N9 sing N N 59 DA "C1'" "H1'" sing N N 60 DA N9 C8 sing Y N 61 DA N9 C4 sing Y N 62 DA C8 N7 doub Y N 63 DA C8 H8 sing N N 64 DA N7 C5 sing Y N 65 DA C5 C6 sing Y N 66 DA C5 C4 doub Y N 67 DA C6 N6 sing N N 68 DA C6 N1 doub Y N 69 DA N6 H61 sing N N 70 DA N6 H62 sing N N 71 DA N1 C2 sing Y N 72 DA C2 N3 doub Y N 73 DA C2 H2 sing N N 74 DA N3 C4 sing Y N 75 DC OP3 P sing N N 76 DC OP3 HOP3 sing N N 77 DC P OP1 doub N N 78 DC P OP2 sing N N 79 DC P "O5'" sing N N 80 DC OP2 HOP2 sing N N 81 DC "O5'" "C5'" sing N N 82 DC "C5'" "C4'" sing N N 83 DC "C5'" "H5'" sing N N 84 DC "C5'" "H5''" sing N N 85 DC "C4'" "O4'" sing N N 86 DC "C4'" "C3'" sing N N 87 DC "C4'" "H4'" sing N N 88 DC "O4'" "C1'" sing N N 89 DC "C3'" "O3'" sing N N 90 DC "C3'" "C2'" sing N N 91 DC "C3'" "H3'" sing N N 92 DC "O3'" "HO3'" sing N N 93 DC "C2'" "C1'" sing N N 94 DC "C2'" "H2'" sing N N 95 DC "C2'" "H2''" sing N N 96 DC "C1'" N1 sing N N 97 DC "C1'" "H1'" sing N N 98 DC N1 C2 sing N N 99 DC N1 C6 sing N N 100 DC C2 O2 doub N N 101 DC C2 N3 sing N N 102 DC N3 C4 doub N N 103 DC C4 N4 sing N N 104 DC C4 C5 sing N N 105 DC N4 H41 sing N N 106 DC N4 H42 sing N N 107 DC C5 C6 doub N N 108 DC C5 H5 sing N N 109 DC C6 H6 sing N N 110 DG OP3 P sing N N 111 DG OP3 HOP3 sing N N 112 DG P OP1 doub N N 113 DG P OP2 sing N N 114 DG P "O5'" sing N N 115 DG OP2 HOP2 sing N N 116 DG "O5'" "C5'" sing N N 117 DG "C5'" "C4'" sing N N 118 DG "C5'" "H5'" sing N N 119 DG "C5'" "H5''" sing N N 120 DG "C4'" "O4'" sing N N 121 DG "C4'" "C3'" sing N N 122 DG "C4'" "H4'" sing N N 123 DG "O4'" "C1'" sing N N 124 DG "C3'" "O3'" sing N N 125 DG "C3'" "C2'" sing N N 126 DG "C3'" "H3'" sing N N 127 DG "O3'" "HO3'" sing N N 128 DG "C2'" "C1'" sing N N 129 DG "C2'" "H2'" sing N N 130 DG "C2'" "H2''" sing N N 131 DG "C1'" N9 sing N N 132 DG "C1'" "H1'" sing N N 133 DG N9 C8 sing Y N 134 DG N9 C4 sing Y N 135 DG C8 N7 doub Y N 136 DG C8 H8 sing N N 137 DG N7 C5 sing Y N 138 DG C5 C6 sing N N 139 DG C5 C4 doub Y N 140 DG C6 O6 doub N N 141 DG C6 N1 sing N N 142 DG N1 C2 sing N N 143 DG N1 H1 sing N N 144 DG C2 N2 sing N N 145 DG C2 N3 doub N N 146 DG N2 H21 sing N N 147 DG N2 H22 sing N N 148 DG N3 C4 sing N N 149 DT OP3 P sing N N 150 DT OP3 HOP3 sing N N 151 DT P OP1 doub N N 152 DT P OP2 sing N N 153 DT P "O5'" sing N N 154 DT OP2 HOP2 sing N N 155 DT "O5'" "C5'" sing N N 156 DT "C5'" "C4'" sing N N 157 DT "C5'" "H5'" sing N N 158 DT "C5'" "H5''" sing N N 159 DT "C4'" "O4'" sing N N 160 DT "C4'" "C3'" sing N N 161 DT "C4'" "H4'" sing N N 162 DT "O4'" "C1'" sing N N 163 DT "C3'" "O3'" sing N N 164 DT "C3'" "C2'" sing N N 165 DT "C3'" "H3'" sing N N 166 DT "O3'" "HO3'" sing N N 167 DT "C2'" "C1'" sing N N 168 DT "C2'" "H2'" sing N N 169 DT "C2'" "H2''" sing N N 170 DT "C1'" N1 sing N N 171 DT "C1'" "H1'" sing N N 172 DT N1 C2 sing N N 173 DT N1 C6 sing N N 174 DT C2 O2 doub N N 175 DT C2 N3 sing N N 176 DT N3 C4 sing N N 177 DT N3 H3 sing N N 178 DT C4 O4 doub N N 179 DT C4 C5 sing N N 180 DT C5 C7 sing N N 181 DT C5 C6 doub N N 182 DT C7 H71 sing N N 183 DT C7 H72 sing N N 184 DT C7 H73 sing N N 185 DT C6 H6 sing N N 186 HOH O H1 sing N N 187 HOH O H2 sing N N 188 # _ndb_struct_conf_na.entry_id 1D63 _ndb_struct_conf_na.feature 'b-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 12 1_555 0.138 -0.127 -0.142 6.727 -12.201 -0.903 1 A_DC1:DG24_B A 1 ? B 24 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.223 -0.196 0.248 0.535 -12.462 -3.691 2 A_DG2:DC23_B A 2 ? B 23 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 -0.215 -0.059 0.279 -5.475 -7.477 0.505 3 A_DC3:DG22_B A 3 ? B 22 ? 19 1 1 A DA 4 1_555 B DT 9 1_555 -0.245 -0.130 -0.139 10.114 -12.592 0.377 4 A_DA4:DT21_B A 4 ? B 21 ? 20 1 1 A DA 5 1_555 B DT 8 1_555 0.167 -0.095 -0.096 11.099 -22.653 0.709 5 A_DA5:DT20_B A 5 ? B 20 ? 20 1 1 A DA 6 1_555 B DT 7 1_555 0.116 -0.137 0.328 5.412 -18.310 2.006 6 A_DA6:DT19_B A 6 ? B 19 ? 20 1 1 A DT 7 1_555 B DA 6 1_555 -0.098 -0.096 0.147 -0.972 -18.450 0.360 7 A_DT7:DA18_B A 7 ? B 18 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 -0.166 -0.088 0.177 -8.982 -18.084 -3.099 8 A_DT8:DA17_B A 8 ? B 17 ? 20 1 1 A DT 9 1_555 B DA 4 1_555 -0.103 -0.038 0.044 -9.769 -12.111 -3.461 9 A_DT9:DA16_B A 9 ? B 16 ? 20 1 1 A DG 10 1_555 B DC 3 1_555 -0.081 -0.076 0.018 8.007 -5.137 0.345 10 A_DG10:DC15_B A 10 ? B 15 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.005 -0.181 0.420 3.967 -21.588 -4.154 11 A_DC11:DG14_B A 11 ? B 14 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.146 -0.152 -0.048 7.707 11.556 -3.391 12 A_DG12:DC13_B A 12 ? B 13 ? 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 12 1_555 A DG 2 1_555 B DC 11 1_555 0.041 0.315 3.531 -1.564 3.832 36.380 -0.070 -0.298 3.540 6.114 2.495 36.607 1 AA_DC1DG2:DC23DG24_BB A 1 ? B 24 ? A 2 ? B 23 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.597 0.152 3.518 1.856 -3.950 38.433 0.752 -0.655 3.510 -5.977 -2.809 38.671 2 AA_DG2DC3:DG22DC23_BB A 2 ? B 23 ? A 3 ? B 22 ? 1 A DC 3 1_555 B DG 10 1_555 A DA 4 1_555 B DT 9 1_555 -0.146 0.660 3.083 4.525 5.797 28.079 0.092 1.248 3.094 11.696 -9.130 29.007 3 AA_DC3DA4:DT21DG22_BB A 3 ? B 22 ? A 4 ? B 21 ? 1 A DA 4 1_555 B DT 9 1_555 A DA 5 1_555 B DT 8 1_555 0.011 0.223 3.316 0.499 2.259 37.539 0.047 0.048 3.323 3.507 -0.775 37.608 4 AA_DA4DA5:DT20DT21_BB A 4 ? B 21 ? A 5 ? B 20 ? 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B DT 7 1_555 0.239 -0.361 3.252 -4.708 3.655 37.838 -1.002 -0.947 3.153 5.593 7.206 38.287 5 AA_DA5DA6:DT19DT20_BB A 5 ? B 20 ? A 6 ? B 19 ? 1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 -0.163 -0.902 3.452 1.547 2.006 30.060 -2.161 0.642 3.374 3.859 -2.975 30.164 6 AA_DA6DT7:DA18DT19_BB A 6 ? B 19 ? A 7 ? B 18 ? 1 A DT 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 -0.333 -0.200 3.426 0.134 1.576 38.464 -0.508 0.523 3.415 2.391 -0.203 38.495 7 AA_DT7DT8:DA17DA18_BB A 7 ? B 18 ? A 8 ? B 17 ? 1 A DT 8 1_555 B DA 5 1_555 A DT 9 1_555 B DA 4 1_555 -0.005 0.050 3.299 2.191 -4.091 35.679 0.668 0.323 3.267 -6.643 -3.557 35.970 8 AA_DT8DT9:DA16DA17_BB A 8 ? B 17 ? A 9 ? B 16 ? 1 A DT 9 1_555 B DA 4 1_555 A DG 10 1_555 B DC 3 1_555 0.658 1.391 3.106 0.730 0.808 32.761 2.332 -1.046 3.152 1.433 -1.294 32.778 9 AA_DT9DG10:DC15DA16_BB A 9 ? B 16 ? A 10 ? B 15 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -0.981 0.624 3.491 -4.399 -8.548 40.966 1.814 0.882 3.384 -12.014 6.183 42.031 10 AA_DG10DC11:DG14DC15_BB A 10 ? B 15 ? A 11 ? B 14 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 0.709 0.602 3.451 4.280 -6.350 38.191 1.715 -0.517 3.369 -9.588 -6.462 38.923 11 AA_DC11DG12:DC13DG14_BB A 11 ? B 14 ? A 12 ? B 13 ? # _atom_sites.entry_id 1D63 _atom_sites.fract_transf_matrix[1][1] 0.040584 _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] 0.024625 _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] 0.015368 _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_