data_249D # _entry.id 249D # _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 249D pdb_0000249d 10.2210/pdb249d/pdb RCSB BDL070 ? ? WWPDB D_1000177649 ? ? # 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 1996-04-19 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2018-04-18 5 'Structure model' 1 4 2024-02-14 # _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 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 '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' diffrn_detector 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 5 5 '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' '_diffrn_detector.detector' 2 5 'Structure model' '_database_2.pdbx_DOI' 3 5 'Structure model' '_database_2.pdbx_database_accession' 4 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 5 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 6 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 249D _pdbx_database_status.recvd_initial_deposition_date 1996-02-22 _pdbx_database_status.deposit_site NDB _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.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Urpi, L.' 1 'Tereshko, V.' 2 'Malinina, L.' 3 'Huynh-Dinh, T.' 4 'Subirana, J.A.' 5 # 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 'Structural comparison between the d(CTAG) sequence in oligonucleotides and trp and met repressor-operator complexes.' Nat.Struct.Biol. 3 325 328 1996 NSBIEW US 1072-8368 2024 ? 8599757 10.1038/nsb0496-325 1 'Structure of the B-DNA Oligomers d(CGCTAGCG) and d(CGCTCTAGAGCG) in New Crystal Forms' Biochemistry 35 11589 11595 1996 BICHAW US 0006-2960 0033 ? ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Urpi, L.' 1 ? primary 'Tereshko, V.' 2 ? primary 'Malinina, L.' 3 ? primary 'Huynh-Dinh, T.' 4 ? primary 'Subirana, J.A.' 5 ? 1 'Tereshko, R.V.' 6 ? 1 'Urpi, L.' 7 ? 1 'Malinina, L.' 8 ? 1 'Huynh-Dinh, T.' 9 ? 1 'Subirana, J.A.' 10 ? # 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*TP*CP*TP*AP*GP*AP*GP*CP*G)-3') ; 3663.392 4 ? ? ? ? 2 non-polymer syn 'CALCIUM ION' 40.078 1 ? ? ? ? 3 water nat water 18.015 47 ? ? ? ? # _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)(DT)(DC)(DT)(DA)(DG)(DA)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCTCTAGAGCG _entity_poly.pdbx_strand_id A,B,C,D _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CALCIUM ION' CA 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DG n 1 3 DC n 1 4 DT n 1 5 DC n 1 6 DT n 1 7 DA n 1 8 DG n 1 9 DA 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 CA non-polymer . 'CALCIUM ION' ? 'Ca 2' 40.078 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 # 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 DT 4 4 4 DT T A . n A 1 5 DC 5 5 5 DC C A . n A 1 6 DT 6 6 6 DT T A . n A 1 7 DA 7 7 7 DA A A . n A 1 8 DG 8 8 8 DG G A . n A 1 9 DA 9 9 9 DA A 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 DT 4 16 16 DT T B . n B 1 5 DC 5 17 17 DC C B . n B 1 6 DT 6 18 18 DT T B . n B 1 7 DA 7 19 19 DA A B . n B 1 8 DG 8 20 20 DG G B . n B 1 9 DA 9 21 21 DA A 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 C 1 1 DC 1 25 ? ? ? C . n C 1 2 DG 2 26 26 DG G C . n C 1 3 DC 3 27 27 DC C C . n C 1 4 DT 4 28 28 DT T C . n C 1 5 DC 5 29 29 DC C C . n C 1 6 DT 6 30 30 DT T C . n C 1 7 DA 7 31 31 DA A C . n C 1 8 DG 8 32 32 DG G C . n C 1 9 DA 9 33 33 DA A C . n C 1 10 DG 10 34 34 DG G C . n C 1 11 DC 11 35 35 DC C C . n C 1 12 DG 12 36 36 DG G C . n D 1 1 DC 1 37 37 DC C D . n D 1 2 DG 2 38 38 DG G D . n D 1 3 DC 3 39 39 DC C D . n D 1 4 DT 4 40 40 DT T D . n D 1 5 DC 5 41 41 DC C D . n D 1 6 DT 6 42 42 DT T D . n D 1 7 DA 7 43 43 DA A D . n D 1 8 DG 8 44 44 DG G D . n D 1 9 DA 9 45 45 DA A D . n D 1 10 DG 10 46 46 DG G D . n D 1 11 DC 11 47 47 DC C D . n D 1 12 DG 12 48 48 DG G D . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code E 2 CA 1 49 49 CA CA A . F 3 HOH 1 50 50 HOH HOH A . F 3 HOH 2 53 53 HOH HOH A . F 3 HOH 3 55 55 HOH HOH A . F 3 HOH 4 63 63 HOH HOH A . F 3 HOH 5 66 66 HOH HOH A . F 3 HOH 6 77 77 HOH HOH A . F 3 HOH 7 78 78 HOH HOH A . F 3 HOH 8 82 82 HOH HOH A . F 3 HOH 9 84 84 HOH HOH A . F 3 HOH 10 85 85 HOH HOH A . F 3 HOH 11 95 95 HOH HOH A . F 3 HOH 12 96 96 HOH HOH A . G 3 HOH 1 51 51 HOH HOH B . G 3 HOH 2 52 52 HOH HOH B . G 3 HOH 3 57 57 HOH HOH B . G 3 HOH 4 67 67 HOH HOH B . G 3 HOH 5 69 69 HOH HOH B . G 3 HOH 6 70 70 HOH HOH B . G 3 HOH 7 75 75 HOH HOH B . G 3 HOH 8 79 79 HOH HOH B . G 3 HOH 9 83 83 HOH HOH B . G 3 HOH 10 86 86 HOH HOH B . H 3 HOH 1 58 58 HOH HOH C . H 3 HOH 2 59 59 HOH HOH C . H 3 HOH 3 60 60 HOH HOH C . H 3 HOH 4 61 61 HOH HOH C . H 3 HOH 5 72 72 HOH HOH C . H 3 HOH 6 73 73 HOH HOH C . H 3 HOH 7 74 74 HOH HOH C . H 3 HOH 8 81 81 HOH HOH C . H 3 HOH 9 87 87 HOH HOH C . H 3 HOH 10 88 88 HOH HOH C . H 3 HOH 11 89 89 HOH HOH C . H 3 HOH 12 90 90 HOH HOH C . H 3 HOH 13 91 91 HOH HOH C . H 3 HOH 14 92 92 HOH HOH C . H 3 HOH 15 94 94 HOH HOH C . I 3 HOH 1 54 54 HOH HOH D . I 3 HOH 2 56 56 HOH HOH D . I 3 HOH 3 62 62 HOH HOH D . I 3 HOH 4 64 64 HOH HOH D . I 3 HOH 5 65 65 HOH HOH D . I 3 HOH 6 68 68 HOH HOH D . I 3 HOH 7 71 71 HOH HOH D . I 3 HOH 8 76 76 HOH HOH D . I 3 HOH 9 80 80 HOH HOH D . I 3 HOH 10 93 93 HOH HOH D . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A DC 1 ? "O5'" ? A DC 1 "O5'" 2 1 Y 1 A DC 1 ? "C5'" ? A DC 1 "C5'" 3 1 Y 1 A DC 1 ? "C4'" ? A DC 1 "C4'" 4 1 Y 1 A DC 1 ? "O4'" ? A DC 1 "O4'" 5 1 Y 1 A DC 1 ? "C2'" ? A DC 1 "C2'" 6 1 Y 1 A DC 1 ? "C1'" ? A DC 1 "C1'" 7 1 Y 1 A DC 1 ? N1 ? A DC 1 N1 8 1 Y 1 A DC 1 ? C2 ? A DC 1 C2 9 1 Y 1 A DC 1 ? O2 ? A DC 1 O2 10 1 Y 1 A DC 1 ? N3 ? A DC 1 N3 11 1 Y 1 A DC 1 ? C4 ? A DC 1 C4 12 1 Y 1 A DC 1 ? N4 ? A DC 1 N4 13 1 Y 1 A DC 1 ? C5 ? A DC 1 C5 14 1 Y 1 A DC 1 ? C6 ? A DC 1 C6 # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR refinement . ? 1 ENRAF-NONIUS 'data reduction' . ? 2 # _cell.entry_id 249D _cell.length_a 35.050 _cell.length_b 68.910 _cell.length_c 26.150 _cell.angle_alpha 90.00 _cell.angle_beta 91.16 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 249D _symmetry.space_group_name_H-M 'P 1 21 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 # _exptl.entry_id 249D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.15 _exptl_crystal.density_percent_sol 42.91 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.00 _exptl_crystal_grow.pdbx_details 'pH 7.00, VAPOR DIFFUSION' _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 CACL2 ? ? ? 1 4 2 WATER ? ? ? 1 5 2 MPD ? ? ? # _diffrn.id 1 _diffrn.crystal_id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'ENRAF-NONIUS CAD4' _diffrn_detector.pdbx_collection_date 1989-04-03 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol ? _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 ? _diffrn_source.type ? _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 249D _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low ? _reflns.d_resolution_high 2.250 _reflns.number_obs 5276 _reflns.number_all ? _reflns.percent_possible_obs 88.900 _reflns.pdbx_Rmerge_I_obs 0.09 _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 249D _refine.ls_number_reflns_obs 4222 _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 8.000 _refine.ls_d_res_high 2.250 _refine.ls_percent_reflns_obs 72.400 _refine.ls_R_factor_obs 0.197 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.197 _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 1048 _refine_hist.pdbx_number_atoms_ligand 1 _refine_hist.number_atoms_solvent 141 _refine_hist.number_atoms_total 1190 _refine_hist.d_res_high 2.250 _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 0.022 ? ? ? '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 4.10 ? ? ? '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 249D _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 249D _struct.title 'STRUCTURAL COMPARISON BETWEEN THE D(CTAG) SEQUENCE IN OLIGONUCLEOTIDES AND TRP AND MET REPRESSOR-OPERATOR COMPLEXES' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 249D _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'B-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 3 ? G N N 3 ? H N N 3 ? I N N 3 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 249D _struct_ref.pdbx_db_accession 249D _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 249D A 1 ? 12 ? 249D 1 ? 12 ? 1 12 2 1 249D B 1 ? 12 ? 249D 13 ? 24 ? 13 24 3 1 249D C 1 ? 12 ? 249D 25 ? 36 ? 25 36 4 1 249D D 1 ? 12 ? 249D 37 ? 48 ? 37 48 # 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,G 2 1 C,D,H,I # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # 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 metalc1 metalc ? ? A DG 2 OP2 ? ? ? 1_555 E CA . CA ? ? A DG 2 A CA 49 1_555 ? ? ? ? ? ? ? 2.273 ? ? hydrog1 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DT 4 N3 ? ? ? 1_555 B DA 9 N1 ? ? A DT 4 B DA 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DT 4 O4 ? ? ? 1_555 B DA 9 N6 ? ? A DT 4 B DA 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 8 N1 ? ? A DC 5 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 8 O6 ? ? A DC 5 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 8 N2 ? ? A DC 5 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DT 6 N3 ? ? ? 1_555 B DA 7 N1 ? ? A DT 6 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DT 6 O4 ? ? ? 1_555 B DA 7 N6 ? ? A DT 6 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 7 N1 ? ? ? 1_555 B DT 6 N3 ? ? A DA 7 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 7 N6 ? ? ? 1_555 B DT 6 O4 ? ? A DA 7 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 8 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 8 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 8 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 8 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 8 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 8 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DA 9 N1 ? ? ? 1_555 B DT 4 N3 ? ? A DA 9 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DA 9 N6 ? ? ? 1_555 B DT 4 O4 ? ? A DA 9 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 12 O6 ? ? ? 1_555 D DC 1 N4 ? ? A DG 12 D DC 37 1_555 ? ? ? ? ? ? 'DG-DC PAIR' ? ? ? hydrog31 hydrog ? ? B DC 1 N4 ? ? ? 1_555 C DG 12 O6 ? ? B DC 13 C DG 36 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? ? hydrog32 hydrog ? ? C DG 2 N1 ? ? ? 1_555 D DC 11 N3 ? ? C DG 26 D DC 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? C DG 2 N2 ? ? ? 1_555 D DC 11 O2 ? ? C DG 26 D DC 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? C DG 2 O6 ? ? ? 1_555 D DC 11 N4 ? ? C DG 26 D DC 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? C DC 3 N3 ? ? ? 1_555 D DG 10 N1 ? ? C DC 27 D DG 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? C DC 3 N4 ? ? ? 1_555 D DG 10 O6 ? ? C DC 27 D DG 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? C DC 3 O2 ? ? ? 1_555 D DG 10 N2 ? ? C DC 27 D DG 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? C DT 4 N3 ? ? ? 1_555 D DA 9 N1 ? ? C DT 28 D DA 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? C DT 4 O4 ? ? ? 1_555 D DA 9 N6 ? ? C DT 28 D DA 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? C DC 5 N3 ? ? ? 1_555 D DG 8 N1 ? ? C DC 29 D DG 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? C DC 5 N4 ? ? ? 1_555 D DG 8 O6 ? ? C DC 29 D DG 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? C DC 5 O2 ? ? ? 1_555 D DG 8 N2 ? ? C DC 29 D DG 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C DT 6 N3 ? ? ? 1_555 D DA 7 N1 ? ? C DT 30 D DA 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? C DT 6 O4 ? ? ? 1_555 D DA 7 N6 ? ? C DT 30 D DA 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? C DA 7 N1 ? ? ? 1_555 D DT 6 N3 ? ? C DA 31 D DT 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? C DA 7 N6 ? ? ? 1_555 D DT 6 O4 ? ? C DA 31 D DT 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? C DG 8 N1 ? ? ? 1_555 D DC 5 N3 ? ? C DG 32 D DC 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? C DG 8 N2 ? ? ? 1_555 D DC 5 O2 ? ? C DG 32 D DC 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? C DG 8 O6 ? ? ? 1_555 D DC 5 N4 ? ? C DG 32 D DC 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? C DA 9 N1 ? ? ? 1_555 D DT 4 N3 ? ? C DA 33 D DT 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? C DA 9 N6 ? ? ? 1_555 D DT 4 O4 ? ? C DA 33 D DT 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? C DG 10 N1 ? ? ? 1_555 D DC 3 N3 ? ? C DG 34 D DC 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? C DG 10 N2 ? ? ? 1_555 D DC 3 O2 ? ? C DG 34 D DC 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? C DG 10 O6 ? ? ? 1_555 D DC 3 N4 ? ? C DG 34 D DC 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? C DC 11 N3 ? ? ? 1_555 D DG 2 N1 ? ? C DC 35 D DG 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? C DC 11 N4 ? ? ? 1_555 D DG 2 O6 ? ? C DC 35 D DG 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? C DC 11 O2 ? ? ? 1_555 D DG 2 N2 ? ? C DC 35 D DG 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? C DG 12 N1 ? ? ? 1_555 D DC 1 N3 ? ? C DG 36 D DC 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? C DG 12 N2 ? ? ? 1_555 D DC 1 O2 ? ? C DG 36 D DC 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? C DG 12 O6 ? ? ? 1_555 D DC 1 N4 ? ? C DG 36 D DC 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id CA _struct_site.pdbx_auth_seq_id 49 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 2 _struct_site.details 'BINDING SITE FOR RESIDUE CA A 49' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 2 DG A 2 ? DG A 2 . ? 1_555 ? 2 AC1 2 DG D 12 ? DG D 48 . ? 1_645 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O4 C DT 28 ? ? H62 D DA 45 ? ? 1.45 2 1 H42 A DC 11 ? ? O6 B DG 14 ? ? 1.47 3 1 O2 A DC 3 ? ? H22 B DG 22 ? ? 1.47 4 1 H62 C DA 33 ? ? O4 D DT 40 ? ? 1.47 5 1 O2 C DC 27 ? ? H22 D DG 46 ? ? 1.48 6 1 H22 A DG 2 ? ? O2 B DC 23 ? ? 1.50 7 1 N3 A DC 3 ? ? H1 B DG 22 ? ? 1.55 8 1 N1 C DA 31 ? ? H3 D DT 42 ? ? 1.55 9 1 H42 C DC 35 ? ? O6 D DG 38 ? ? 1.56 10 1 N1 A DA 7 ? ? H3 B DT 18 ? ? 1.58 11 1 H22 A DG 12 ? ? O2 B DC 13 ? ? 1.58 # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 "HO3'" _pdbx_validate_symm_contact.auth_asym_id_1 A _pdbx_validate_symm_contact.auth_comp_id_1 DG _pdbx_validate_symm_contact.auth_seq_id_1 12 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 H21 _pdbx_validate_symm_contact.auth_asym_id_2 B _pdbx_validate_symm_contact.auth_comp_id_2 DG _pdbx_validate_symm_contact.auth_seq_id_2 22 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 2_655 _pdbx_validate_symm_contact.dist 1.32 # 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 N3 A DT 6 ? ? C4 A DT 6 ? ? 1.328 1.382 -0.054 0.008 N 2 1 "C5'" B DC 13 ? ? "C4'" B DC 13 ? ? 1.561 1.512 0.049 0.007 N 3 1 "C3'" B DC 17 ? ? "C2'" B DC 17 ? ? 1.465 1.516 -0.051 0.008 N 4 1 "C4'" B DT 18 ? ? "C3'" B DT 18 ? ? 1.454 1.521 -0.067 0.010 N 5 1 P B DA 19 ? ? "O5'" B DA 19 ? ? 1.660 1.593 0.067 0.010 N 6 1 "C5'" B DG 20 ? ? "C4'" B DG 20 ? ? 1.559 1.512 0.047 0.007 N 7 1 C5 B DG 22 ? ? C6 B DG 22 ? ? 1.352 1.419 -0.067 0.010 N 8 1 C6 B DG 22 ? ? N1 B DG 22 ? ? 1.342 1.391 -0.049 0.007 N 9 1 "C3'" B DC 23 ? ? "C2'" B DC 23 ? ? 1.457 1.516 -0.059 0.008 N 10 1 "C2'" C DC 27 ? ? "C1'" C DC 27 ? ? 1.454 1.518 -0.064 0.010 N 11 1 C5 C DT 28 ? ? C6 C DT 28 ? ? 1.293 1.339 -0.046 0.007 N 12 1 "O3'" C DC 29 ? ? "C3'" C DC 29 ? ? 1.382 1.419 -0.037 0.006 N 13 1 "C5'" C DT 30 ? ? "C4'" C DT 30 ? ? 1.559 1.512 0.047 0.007 N 14 1 "O3'" C DG 34 ? ? "C3'" C DG 34 ? ? 1.383 1.419 -0.036 0.006 N 15 1 "C5'" C DG 36 ? ? "C4'" C DG 36 ? ? 1.562 1.512 0.050 0.007 N 16 1 "C5'" D DC 37 ? ? "C4'" D DC 37 ? ? 1.556 1.512 0.044 0.007 N 17 1 "C4'" D DC 39 ? ? "C3'" D DC 39 ? ? 1.449 1.521 -0.072 0.010 N 18 1 "C2'" D DC 39 ? ? "C1'" D DC 39 ? ? 1.457 1.518 -0.061 0.010 N 19 1 "C3'" D DT 42 ? ? "C2'" D DT 42 ? ? 1.462 1.516 -0.054 0.008 N 20 1 P D DG 44 ? ? "O5'" D DG 44 ? ? 1.660 1.593 0.067 0.010 N 21 1 N3 D DC 47 ? ? C4 D DC 47 ? ? 1.280 1.335 -0.055 0.007 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DG 2 ? ? "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? 100.90 104.50 -3.60 0.40 N 2 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 111.57 108.30 3.27 0.30 N 3 1 N1 A DC 3 ? ? C2 A DC 3 ? ? O2 A DC 3 ? ? 123.99 118.90 5.09 0.60 N 4 1 N3 A DC 3 ? ? C2 A DC 3 ? ? O2 A DC 3 ? ? 116.49 121.90 -5.41 0.70 N 5 1 C6 A DT 4 ? ? C5 A DT 4 ? ? C7 A DT 4 ? ? 118.54 122.90 -4.36 0.60 N 6 1 "O5'" A DC 5 ? ? "C5'" A DC 5 ? ? "C4'" A DC 5 ? ? 104.57 109.40 -4.83 0.80 N 7 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? "C2'" A DC 5 ? ? 98.20 105.90 -7.70 0.80 N 8 1 "C3'" A DC 5 ? ? "O3'" A DC 5 ? ? P A DT 6 ? ? 128.36 119.70 8.66 1.20 Y 9 1 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? "C2'" A DT 6 ? ? 99.67 105.90 -6.23 0.80 N 10 1 "O4'" A DT 6 ? ? "C1'" A DT 6 ? ? N1 A DT 6 ? ? 111.95 108.30 3.65 0.30 N 11 1 C4 A DT 6 ? ? C5 A DT 6 ? ? C6 A DT 6 ? ? 122.68 118.00 4.68 0.60 N 12 1 C4 A DT 6 ? ? C5 A DT 6 ? ? C7 A DT 6 ? ? 115.15 119.00 -3.85 0.60 N 13 1 "O4'" A DA 7 ? ? "C1'" A DA 7 ? ? N9 A DA 7 ? ? 111.53 108.30 3.23 0.30 N 14 1 "O4'" A DG 8 ? ? "C1'" A DG 8 ? ? N9 A DG 8 ? ? 114.92 108.30 6.62 0.30 N 15 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 110.43 108.30 2.13 0.30 N 16 1 "O4'" A DG 12 ? ? "C4'" A DG 12 ? ? "C3'" A DG 12 ? ? 102.08 104.50 -2.42 0.40 N 17 1 N1 B DC 13 ? ? C2 B DC 13 ? ? O2 B DC 13 ? ? 122.53 118.90 3.63 0.60 N 18 1 "C5'" B DG 14 ? ? "C4'" B DG 14 ? ? "O4'" B DG 14 ? ? 117.60 109.80 7.80 1.10 N 19 1 "O4'" B DG 14 ? ? "C1'" B DG 14 ? ? N9 B DG 14 ? ? 114.87 108.30 6.57 0.30 N 20 1 N1 B DG 14 ? ? C6 B DG 14 ? ? O6 B DG 14 ? ? 115.22 119.90 -4.68 0.60 N 21 1 C5 B DG 14 ? ? C6 B DG 14 ? ? O6 B DG 14 ? ? 132.28 128.60 3.68 0.60 N 22 1 "O4'" B DC 15 ? ? "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? 101.41 104.50 -3.09 0.40 N 23 1 "C5'" B DC 15 ? ? "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? 102.51 114.10 -11.59 1.80 N 24 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? "C2'" B DC 15 ? ? 109.94 106.80 3.14 0.50 N 25 1 "O4'" B DT 16 ? ? "C1'" B DT 16 ? ? N1 B DT 16 ? ? 110.34 108.30 2.04 0.30 N 26 1 C4 B DT 16 ? ? C5 B DT 16 ? ? C6 B DT 16 ? ? 122.04 118.00 4.04 0.60 N 27 1 C6 B DT 16 ? ? C5 B DT 16 ? ? C7 B DT 16 ? ? 116.87 122.90 -6.03 0.60 N 28 1 "O4'" B DC 17 ? ? "C4'" B DC 17 ? ? "C3'" B DC 17 ? ? 109.82 106.00 3.82 0.60 N 29 1 "O4'" B DC 17 ? ? "C1'" B DC 17 ? ? "C2'" B DC 17 ? ? 100.42 105.90 -5.48 0.80 N 30 1 "O4'" B DC 17 ? ? "C1'" B DC 17 ? ? N1 B DC 17 ? ? 116.41 108.30 8.11 0.30 N 31 1 N1 B DC 17 ? ? C2 B DC 17 ? ? O2 B DC 17 ? ? 123.36 118.90 4.46 0.60 N 32 1 "O4'" B DT 18 ? ? "C4'" B DT 18 ? ? "C3'" B DT 18 ? ? 99.43 104.50 -5.07 0.40 N 33 1 "C5'" B DT 18 ? ? "C4'" B DT 18 ? ? "O4'" B DT 18 ? ? 117.55 109.80 7.75 1.10 N 34 1 "C4'" B DT 18 ? ? "C3'" B DT 18 ? ? "O3'" B DT 18 ? ? 93.95 109.70 -15.75 2.50 N 35 1 "O4'" B DT 18 ? ? "C1'" B DT 18 ? ? "C2'" B DT 18 ? ? 99.40 105.90 -6.50 0.80 N 36 1 C6 B DT 18 ? ? C5 B DT 18 ? ? C7 B DT 18 ? ? 118.59 122.90 -4.31 0.60 N 37 1 "O4'" B DA 19 ? ? "C1'" B DA 19 ? ? N9 B DA 19 ? ? 111.99 108.30 3.69 0.30 N 38 1 "C3'" B DA 19 ? ? "O3'" B DA 19 ? ? P B DG 20 ? ? 132.32 119.70 12.62 1.20 Y 39 1 "O4'" B DG 20 ? ? "C1'" B DG 20 ? ? N9 B DG 20 ? ? 121.89 108.30 13.59 0.30 N 40 1 "C3'" B DG 20 ? ? "O3'" B DG 20 ? ? P B DA 21 ? ? 136.53 119.70 16.83 1.20 Y 41 1 "O4'" B DA 21 ? ? "C1'" B DA 21 ? ? N9 B DA 21 ? ? 113.86 108.30 5.56 0.30 N 42 1 "C3'" B DA 21 ? ? "O3'" B DA 21 ? ? P B DG 22 ? ? 129.52 119.70 9.82 1.20 Y 43 1 "O4'" B DG 22 ? ? "C1'" B DG 22 ? ? "C2'" B DG 22 ? ? 98.90 105.90 -7.00 0.80 N 44 1 C6 B DC 23 ? ? N1 B DC 23 ? ? C2 B DC 23 ? ? 122.78 120.30 2.48 0.40 N 45 1 N3 B DC 23 ? ? C4 B DC 23 ? ? C5 B DC 23 ? ? 124.79 121.90 2.89 0.40 N 46 1 N1 B DC 23 ? ? C2 B DC 23 ? ? O2 B DC 23 ? ? 124.74 118.90 5.84 0.60 N 47 1 "O4'" C DG 26 ? ? "C4'" C DG 26 ? ? "C3'" C DG 26 ? ? 99.79 104.50 -4.71 0.40 N 48 1 N9 C DG 26 ? ? "C1'" C DG 26 ? ? "C2'" C DG 26 ? ? 124.90 114.30 10.60 1.40 N 49 1 N1 C DC 27 ? ? "C1'" C DC 27 ? ? "C2'" C DC 27 ? ? 122.74 114.30 8.44 1.40 N 50 1 "O4'" C DC 27 ? ? "C1'" C DC 27 ? ? N1 C DC 27 ? ? 111.65 108.30 3.35 0.30 N 51 1 N1 C DC 27 ? ? C2 C DC 27 ? ? O2 C DC 27 ? ? 122.85 118.90 3.95 0.60 N 52 1 C4 C DT 28 ? ? C5 C DT 28 ? ? C6 C DT 28 ? ? 122.97 118.00 4.97 0.60 N 53 1 C6 C DT 28 ? ? C5 C DT 28 ? ? C7 C DT 28 ? ? 118.85 122.90 -4.05 0.60 N 54 1 "O4'" C DC 29 ? ? "C4'" C DC 29 ? ? "C3'" C DC 29 ? ? 109.61 106.00 3.61 0.60 N 55 1 N1 C DC 29 ? ? C2 C DC 29 ? ? O2 C DC 29 ? ? 123.45 118.90 4.55 0.60 N 56 1 "C5'" C DT 30 ? ? "C4'" C DT 30 ? ? "O4'" C DT 30 ? ? 117.20 109.80 7.40 1.10 N 57 1 "C5'" C DA 31 ? ? "C4'" C DA 31 ? ? "O4'" C DA 31 ? ? 117.30 109.80 7.50 1.10 N 58 1 C2 C DA 31 ? ? N3 C DA 31 ? ? C4 C DA 31 ? ? 107.38 110.60 -3.22 0.50 N 59 1 N1 C DA 31 ? ? C6 C DA 31 ? ? N6 C DA 31 ? ? 123.13 118.60 4.53 0.60 N 60 1 "O4'" C DG 32 ? ? "C1'" C DG 32 ? ? "C2'" C DG 32 ? ? 99.42 105.90 -6.48 0.80 N 61 1 "O4'" C DG 32 ? ? "C1'" C DG 32 ? ? N9 C DG 32 ? ? 116.30 108.30 8.00 0.30 N 62 1 C4 C DG 32 ? ? C5 C DG 32 ? ? N7 C DG 32 ? ? 108.10 110.80 -2.70 0.40 N 63 1 N9 C DG 32 ? ? C4 C DG 32 ? ? C5 C DG 32 ? ? 107.89 105.40 2.49 0.40 N 64 1 C5 C DG 32 ? ? C6 C DG 32 ? ? O6 C DG 32 ? ? 132.39 128.60 3.79 0.60 N 65 1 "O4'" C DA 33 ? ? "C1'" C DA 33 ? ? "C2'" C DA 33 ? ? 97.93 105.90 -7.97 0.80 N 66 1 "O4'" C DA 33 ? ? "C1'" C DA 33 ? ? N9 C DA 33 ? ? 98.13 108.00 -9.87 0.70 N 67 1 "O4'" C DG 34 ? ? "C1'" C DG 34 ? ? N9 C DG 34 ? ? 113.23 108.30 4.93 0.30 N 68 1 N1 C DG 34 ? ? C2 C DG 34 ? ? N2 C DG 34 ? ? 122.67 116.20 6.47 0.90 N 69 1 N3 C DG 34 ? ? C2 C DG 34 ? ? N2 C DG 34 ? ? 114.75 119.90 -5.15 0.70 N 70 1 N1 C DG 34 ? ? C6 C DG 34 ? ? O6 C DG 34 ? ? 123.51 119.90 3.61 0.60 N 71 1 "O4'" C DC 35 ? ? "C1'" C DC 35 ? ? "C2'" C DC 35 ? ? 98.07 105.90 -7.83 0.80 N 72 1 N1 C DC 35 ? ? C2 C DC 35 ? ? O2 C DC 35 ? ? 125.73 118.90 6.83 0.60 N 73 1 N3 C DC 35 ? ? C2 C DC 35 ? ? O2 C DC 35 ? ? 117.27 121.90 -4.63 0.70 N 74 1 "O4'" C DG 36 ? ? "C4'" C DG 36 ? ? "C3'" C DG 36 ? ? 101.33 104.50 -3.17 0.40 N 75 1 N1 D DC 37 ? ? "C1'" D DC 37 ? ? "C2'" D DC 37 ? ? 125.28 114.30 10.98 1.40 N 76 1 N1 D DC 37 ? ? C2 D DC 37 ? ? O2 D DC 37 ? ? 122.75 118.90 3.85 0.60 N 77 1 "C3'" D DC 37 ? ? "O3'" D DC 37 ? ? P D DG 38 ? ? 126.93 119.70 7.23 1.20 Y 78 1 "O4'" D DG 38 ? ? "C1'" D DG 38 ? ? N9 D DG 38 ? ? 110.78 108.30 2.48 0.30 N 79 1 "O4'" D DC 39 ? ? "C4'" D DC 39 ? ? "C3'" D DC 39 ? ? 101.36 104.50 -3.14 0.40 N 80 1 "C5'" D DC 39 ? ? "C4'" D DC 39 ? ? "C3'" D DC 39 ? ? 96.68 114.10 -17.42 1.80 N 81 1 N1 D DC 39 ? ? C2 D DC 39 ? ? O2 D DC 39 ? ? 122.87 118.90 3.97 0.60 N 82 1 C4 D DT 40 ? ? C5 D DT 40 ? ? C6 D DT 40 ? ? 121.73 118.00 3.73 0.60 N 83 1 "O4'" D DC 41 ? ? "C1'" D DC 41 ? ? "C2'" D DC 41 ? ? 97.58 105.90 -8.32 0.80 N 84 1 "O4'" D DC 41 ? ? "C1'" D DC 41 ? ? N1 D DC 41 ? ? 110.76 108.30 2.46 0.30 N 85 1 N1 D DC 41 ? ? C2 D DC 41 ? ? O2 D DC 41 ? ? 123.97 118.90 5.07 0.60 N 86 1 "O4'" D DT 42 ? ? "C1'" D DT 42 ? ? N1 D DT 42 ? ? 112.02 108.30 3.72 0.30 N 87 1 C4 D DT 42 ? ? C5 D DT 42 ? ? C7 D DT 42 ? ? 122.92 119.00 3.92 0.60 N 88 1 C6 D DT 42 ? ? C5 D DT 42 ? ? C7 D DT 42 ? ? 115.77 122.90 -7.13 0.60 N 89 1 "O4'" D DA 43 ? ? "C4'" D DA 43 ? ? "C3'" D DA 43 ? ? 100.35 104.50 -4.15 0.40 N 90 1 "O4'" D DA 43 ? ? "C1'" D DA 43 ? ? "C2'" D DA 43 ? ? 99.43 105.90 -6.47 0.80 N 91 1 "O4'" D DA 43 ? ? "C1'" D DA 43 ? ? N9 D DA 43 ? ? 114.99 108.30 6.69 0.30 N 92 1 "C4'" D DG 44 ? ? "C3'" D DG 44 ? ? "C2'" D DG 44 ? ? 96.46 102.20 -5.74 0.70 N 93 1 "O4'" D DG 44 ? ? "C1'" D DG 44 ? ? N9 D DG 44 ? ? 121.98 108.30 13.68 0.30 N 94 1 "C3'" D DG 44 ? ? "O3'" D DG 44 ? ? P D DA 45 ? ? 135.24 119.70 15.54 1.20 Y 95 1 "O4'" D DA 45 ? ? "C1'" D DA 45 ? ? N9 D DA 45 ? ? 118.04 108.30 9.74 0.30 N 96 1 "C3'" D DA 45 ? ? "O3'" D DA 45 ? ? P D DG 46 ? ? 133.00 119.70 13.30 1.20 Y 97 1 "C1'" D DG 48 ? ? "O4'" D DG 48 ? ? "C4'" D DG 48 ? ? 102.18 110.10 -7.92 1.00 N # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DC B 15 ? ? 0.090 'SIDE CHAIN' 2 1 DT B 18 ? ? 0.085 'SIDE CHAIN' 3 1 DG C 26 ? ? 0.065 'SIDE CHAIN' 4 1 DC C 27 ? ? 0.079 'SIDE CHAIN' 5 1 DC D 37 ? ? 0.083 'SIDE CHAIN' # 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' # loop_ _refine_occupancy.class _refine_occupancy.treatment _refine_occupancy.pdbx_refine_id 'ALL ATOMS' fix 'X-RAY DIFFRACTION' 'ALL WATERS' fix 'X-RAY DIFFRACTION' # _pdbx_unobs_or_zero_occ_residues.id 1 _pdbx_unobs_or_zero_occ_residues.PDB_model_num 1 _pdbx_unobs_or_zero_occ_residues.polymer_flag Y _pdbx_unobs_or_zero_occ_residues.occupancy_flag 1 _pdbx_unobs_or_zero_occ_residues.auth_asym_id C _pdbx_unobs_or_zero_occ_residues.auth_comp_id DC _pdbx_unobs_or_zero_occ_residues.auth_seq_id 25 _pdbx_unobs_or_zero_occ_residues.PDB_ins_code ? _pdbx_unobs_or_zero_occ_residues.label_asym_id C _pdbx_unobs_or_zero_occ_residues.label_comp_id DC _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 # 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 CA CA CA N N 1 DA OP3 O N N 2 DA P P N N 3 DA OP1 O N N 4 DA OP2 O N N 5 DA "O5'" O N N 6 DA "C5'" C N N 7 DA "C4'" C N R 8 DA "O4'" O N N 9 DA "C3'" C N S 10 DA "O3'" O N N 11 DA "C2'" C N N 12 DA "C1'" C N R 13 DA N9 N Y N 14 DA C8 C Y N 15 DA N7 N Y N 16 DA C5 C Y N 17 DA C6 C Y N 18 DA N6 N N N 19 DA N1 N Y N 20 DA C2 C Y N 21 DA N3 N Y N 22 DA C4 C Y N 23 DA HOP3 H N N 24 DA HOP2 H N N 25 DA "H5'" H N N 26 DA "H5''" H N N 27 DA "H4'" H N N 28 DA "H3'" H N N 29 DA "HO3'" H N N 30 DA "H2'" H N N 31 DA "H2''" H N N 32 DA "H1'" H N N 33 DA H8 H N N 34 DA H61 H N N 35 DA H62 H N N 36 DA H2 H N N 37 DC OP3 O N N 38 DC P P N N 39 DC OP1 O N N 40 DC OP2 O N N 41 DC "O5'" O N N 42 DC "C5'" C N N 43 DC "C4'" C N R 44 DC "O4'" O N N 45 DC "C3'" C N S 46 DC "O3'" O N N 47 DC "C2'" C N N 48 DC "C1'" C N R 49 DC N1 N N N 50 DC C2 C N N 51 DC O2 O N N 52 DC N3 N N N 53 DC C4 C N N 54 DC N4 N N N 55 DC C5 C N N 56 DC C6 C N N 57 DC HOP3 H N N 58 DC HOP2 H N N 59 DC "H5'" H N N 60 DC "H5''" H N N 61 DC "H4'" H N N 62 DC "H3'" H N N 63 DC "HO3'" H N N 64 DC "H2'" H N N 65 DC "H2''" H N N 66 DC "H1'" H N N 67 DC H41 H N N 68 DC H42 H N N 69 DC H5 H N N 70 DC H6 H N N 71 DG OP3 O N N 72 DG P P N N 73 DG OP1 O N N 74 DG OP2 O N N 75 DG "O5'" O N N 76 DG "C5'" C N N 77 DG "C4'" C N R 78 DG "O4'" O N N 79 DG "C3'" C N S 80 DG "O3'" O N N 81 DG "C2'" C N N 82 DG "C1'" C N R 83 DG N9 N Y N 84 DG C8 C Y N 85 DG N7 N Y N 86 DG C5 C Y N 87 DG C6 C N N 88 DG O6 O N N 89 DG N1 N N N 90 DG C2 C N N 91 DG N2 N N N 92 DG N3 N N N 93 DG C4 C Y N 94 DG HOP3 H N N 95 DG HOP2 H N N 96 DG "H5'" H N N 97 DG "H5''" H N N 98 DG "H4'" H N N 99 DG "H3'" H N N 100 DG "HO3'" H N N 101 DG "H2'" H N N 102 DG "H2''" H N N 103 DG "H1'" H N N 104 DG H8 H N N 105 DG H1 H N N 106 DG H21 H N N 107 DG H22 H N N 108 DT OP3 O N N 109 DT P P N N 110 DT OP1 O N N 111 DT OP2 O N N 112 DT "O5'" O N N 113 DT "C5'" C N N 114 DT "C4'" C N R 115 DT "O4'" O N N 116 DT "C3'" C N S 117 DT "O3'" O N N 118 DT "C2'" C N N 119 DT "C1'" C N R 120 DT N1 N N N 121 DT C2 C N N 122 DT O2 O N N 123 DT N3 N N N 124 DT C4 C N N 125 DT O4 O N N 126 DT C5 C N N 127 DT C7 C N N 128 DT C6 C N N 129 DT HOP3 H N N 130 DT HOP2 H N N 131 DT "H5'" H N N 132 DT "H5''" H N N 133 DT "H4'" H N N 134 DT "H3'" H N N 135 DT "HO3'" H N N 136 DT "H2'" H N N 137 DT "H2''" H N N 138 DT "H1'" H N N 139 DT H3 H N N 140 DT H71 H N N 141 DT H72 H N N 142 DT H73 H N N 143 DT H6 H N N 144 HOH O O N N 145 HOH H1 H N N 146 HOH H2 H N N 147 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 249D 'double helix' 249D '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 DG 2 1_555 B DC 11 1_555 -0.639 -0.394 0.056 -12.215 -12.551 -1.748 1 A_DG2:DC23_B A 2 ? B 23 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.124 -0.553 0.558 -14.360 -13.161 -1.983 2 A_DC3:DG22_B A 3 ? B 22 ? 19 1 1 A DT 4 1_555 B DA 9 1_555 0.176 -0.284 -0.031 -5.625 -7.822 -7.245 3 A_DT4:DA21_B A 4 ? B 21 ? 20 1 1 A DC 5 1_555 B DG 8 1_555 0.721 -0.492 -0.172 -1.205 -4.948 -7.040 4 A_DC5:DG20_B A 5 ? B 20 ? 19 1 1 A DT 6 1_555 B DA 7 1_555 -0.493 -0.356 -0.082 0.891 -6.025 -3.051 5 A_DT6:DA19_B A 6 ? B 19 ? 20 1 1 A DA 7 1_555 B DT 6 1_555 -0.126 -0.457 0.558 6.945 -18.699 3.508 6 A_DA7:DT18_B A 7 ? B 18 ? 20 1 1 A DG 8 1_555 B DC 5 1_555 -0.767 -0.628 -0.094 10.766 -11.134 -5.846 7 A_DG8:DC17_B A 8 ? B 17 ? 19 1 1 A DA 9 1_555 B DT 4 1_555 0.010 -0.301 -0.116 0.588 -17.147 -0.254 8 A_DA9:DT16_B A 9 ? B 16 ? 20 1 1 A DG 10 1_555 B DC 3 1_555 -0.213 -0.249 0.450 4.998 -15.948 1.653 9 A_DG10:DC15_B A 10 ? B 15 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.001 -0.272 0.043 -0.224 -12.335 -7.970 10 A_DC11:DG14_B A 11 ? B 14 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.860 -0.603 0.736 9.110 -23.753 -1.651 11 A_DG12:DC13_B A 12 ? B 13 ? 19 1 1 D DC 1 1_555 C DG 12 1_555 1.312 -0.562 0.198 3.619 -27.821 5.561 12 D_DC37:DG36_C D 37 ? C 36 ? 19 1 1 D DG 2 1_555 C DC 11 1_555 -0.470 -0.558 0.315 1.402 -14.473 -9.593 13 D_DG38:DC35_C D 38 ? C 35 ? 19 1 1 D DC 3 1_555 C DG 10 1_555 0.001 -0.382 0.604 -11.490 -18.315 2.035 14 D_DC39:DG34_C D 39 ? C 34 ? 19 1 1 D DT 4 1_555 C DA 9 1_555 -0.189 -0.327 0.113 -0.477 -12.776 -7.045 15 D_DT40:DA33_C D 40 ? C 33 ? 20 1 1 D DC 5 1_555 C DG 8 1_555 0.561 -0.429 0.152 0.370 -13.576 -3.195 16 D_DC41:DG32_C D 41 ? C 32 ? 19 1 1 D DT 6 1_555 C DA 7 1_555 -0.462 -0.392 0.085 -3.090 -16.628 4.351 17 D_DT42:DA31_C D 42 ? C 31 ? 20 1 1 D DA 7 1_555 C DT 6 1_555 -0.055 -0.286 -0.037 3.726 -7.965 -0.786 18 D_DA43:DT30_C D 43 ? C 30 ? 20 1 1 D DG 8 1_555 C DC 5 1_555 -0.430 -0.440 -0.028 3.561 -6.664 -2.576 19 D_DG44:DC29_C D 44 ? C 29 ? 19 1 1 D DA 9 1_555 C DT 4 1_555 0.081 -0.428 -0.170 -0.977 -8.792 -9.874 20 D_DA45:DT28_C D 45 ? C 28 ? 20 1 1 D DG 10 1_555 C DC 3 1_555 -0.255 -0.389 0.194 11.601 -11.030 1.344 21 D_DG46:DC27_C D 46 ? C 27 ? 19 1 1 D DC 11 1_555 C DG 2 1_555 0.443 -0.222 -0.125 6.026 -6.534 -4.373 22 D_DC47:DG26_C D 47 ? C 26 ? 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 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.411 -0.735 3.535 0.801 1.231 38.683 -1.271 -0.515 3.518 1.858 -1.208 38.710 1 AA_DG2DC3:DG22DC23_BB A 2 ? B 23 ? A 3 ? B 22 ? 1 A DC 3 1_555 B DG 10 1_555 A DT 4 1_555 B DA 9 1_555 -0.821 -0.318 3.079 6.006 6.500 33.869 -1.424 2.192 2.791 10.927 -10.096 34.974 2 AA_DC3DT4:DA21DG22_BB A 3 ? B 22 ? A 4 ? B 21 ? 1 A DT 4 1_555 B DA 9 1_555 A DC 5 1_555 B DG 8 1_555 0.407 -0.322 3.360 2.809 3.759 36.327 -1.042 -0.251 3.332 5.999 -4.483 36.619 3 AA_DT4DC5:DG20DA21_BB A 4 ? B 21 ? A 5 ? B 20 ? 1 A DC 5 1_555 B DG 8 1_555 A DT 6 1_555 B DA 7 1_555 -0.196 0.275 3.403 -0.268 3.450 21.783 -0.664 0.405 3.406 9.055 0.702 22.053 4 AA_DC5DT6:DA19DG20_BB A 5 ? B 20 ? A 6 ? B 19 ? 1 A DT 6 1_555 B DA 7 1_555 A DA 7 1_555 B DT 6 1_555 0.062 1.907 3.260 -4.746 -4.160 46.980 2.701 -0.451 3.070 -5.191 5.922 47.378 5 AA_DT6DA7:DT18DA19_BB A 6 ? B 19 ? A 7 ? B 18 ? 1 A DA 7 1_555 B DT 6 1_555 A DG 8 1_555 B DC 5 1_555 -0.121 0.406 3.417 3.999 1.534 28.687 0.458 1.164 3.386 3.074 -8.014 28.998 6 AA_DA7DG8:DC17DT18_BB A 7 ? B 18 ? A 8 ? B 17 ? 1 A DG 8 1_555 B DC 5 1_555 A DA 9 1_555 B DT 4 1_555 -0.640 0.465 3.553 -4.811 6.190 40.050 -0.090 0.330 3.632 8.934 6.944 40.779 7 AA_DG8DA9:DT16DC17_BB A 8 ? B 17 ? A 9 ? B 16 ? 1 A DA 9 1_555 B DT 4 1_555 A DG 10 1_555 B DC 3 1_555 0.548 0.236 3.248 -4.865 6.732 35.142 -0.562 -1.566 3.137 10.961 7.921 36.080 8 AA_DA9DG10:DC15DT16_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 -1.590 0.790 3.521 -0.312 -4.551 41.091 1.640 2.217 3.429 -6.459 0.443 41.332 9 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 1.192 0.662 3.268 -3.139 2.572 31.698 0.742 -2.728 3.180 4.685 5.717 31.950 10 AA_DC11DG12:DC13DG14_BB A 11 ? B 14 ? A 12 ? B 13 ? 1 A DG 12 1_555 B DC 1 1_555 D DC 1 1_555 C DG 12 1_555 -0.001 -5.034 2.526 5.572 19.387 104.078 -3.343 0.052 1.848 12.219 -3.512 105.453 11 AD_DG12DC37:DG36DC13_CB A 12 ? B 13 ? D 37 ? C 36 ? 1 D DC 1 1_555 C DG 12 1_555 D DG 2 1_555 C DC 11 1_555 -1.602 0.954 3.496 -4.935 4.278 29.825 0.851 1.936 3.803 8.189 9.445 30.516 12 DD_DC37DG38:DC35DG36_CC D 37 ? C 36 ? D 38 ? C 35 ? 1 D DG 2 1_555 C DC 11 1_555 D DC 3 1_555 C DG 10 1_555 1.552 0.342 3.826 2.745 -4.485 43.620 0.958 -1.769 3.860 -6.010 -3.678 43.921 13 DD_DG38DC39:DG34DC35_CC D 38 ? C 35 ? D 39 ? C 34 ? 1 D DC 3 1_555 C DG 10 1_555 D DT 4 1_555 C DA 9 1_555 -0.956 0.310 3.096 1.571 14.299 27.847 -2.038 2.059 2.855 27.510 -3.022 31.277 14 DD_DC39DT40:DA33DG34_CC D 39 ? C 34 ? D 40 ? C 33 ? 1 D DT 4 1_555 C DA 9 1_555 D DC 5 1_555 C DG 8 1_555 0.760 0.382 3.355 1.705 -0.735 43.818 0.583 -0.851 3.374 -0.985 -2.284 43.856 15 DD_DT40DC41:DG32DA33_CC D 40 ? C 33 ? D 41 ? C 32 ? 1 D DC 5 1_555 C DG 8 1_555 D DT 6 1_555 C DA 7 1_555 0.170 0.312 3.469 3.789 5.243 24.161 -0.957 0.821 3.444 12.247 -8.851 24.999 16 DD_DC41DT42:DA31DG32_CC D 41 ? C 32 ? D 42 ? C 31 ? 1 D DT 6 1_555 C DA 7 1_555 D DA 7 1_555 C DT 6 1_555 -0.222 1.483 3.215 1.547 1.089 45.588 1.818 0.420 3.239 1.405 -1.996 45.625 17 DD_DT42DA43:DT30DA31_CC D 42 ? C 31 ? D 43 ? C 30 ? 1 D DA 7 1_555 C DT 6 1_555 D DG 8 1_555 C DC 5 1_555 0.285 0.293 3.436 -1.100 1.632 26.669 0.189 -0.916 3.433 3.531 2.381 26.740 18 DD_DA43DG44:DC29DT30_CC D 43 ? C 30 ? D 44 ? C 29 ? 1 D DG 8 1_555 C DC 5 1_555 D DA 9 1_555 C DT 4 1_555 -0.433 -0.001 3.626 -2.445 1.903 42.254 -0.218 0.322 3.641 2.636 3.387 42.362 19 DD_DG44DA45:DT28DC29_CC D 44 ? C 29 ? D 45 ? C 28 ? 1 D DA 9 1_555 C DT 4 1_555 D DG 10 1_555 C DC 3 1_555 0.887 -0.203 3.086 -3.283 4.545 31.592 -1.125 -2.153 2.924 8.267 5.971 32.073 20 DD_DA45DG46:DC27DT28_CC D 45 ? C 28 ? D 46 ? C 27 ? 1 D DG 10 1_555 C DC 3 1_555 D DC 11 1_555 C DG 2 1_555 -0.699 -0.567 3.674 0.533 -0.488 37.870 -0.803 1.153 3.671 -0.751 -0.821 37.876 21 DD_DG46DC47:DG26DC27_CC D 46 ? C 27 ? D 47 ? C 26 ? # _atom_sites.entry_id 249D _atom_sites.fract_transf_matrix[1][1] 0.028531 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000578 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.014512 _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] 0.038249 _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 CA H N O P # loop_