Acta Crystallographica Section D
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STRUCTURAL BIOLOGY
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STRUCTURAL
BIOLOGY
Volume 55
|
Part 9
|
September 1999
|
Pages 1516–1523
https://doi.org/10.1107/S0907444999008161
Open
access
ISSN: 2059-7983
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STRUCTURAL
BIOLOGY
Volume 55
|
Part 9
|
September 1999
|
Pages 1516–1523
https://doi.org/10.1107/S0907444999008161
Open
access
ISSN: 2059-7983
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data_1QDA # _entry.id 1QDA # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.386 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 1QDA pdb_00001qda 10.2210/pdb1qda/pdb NDB DD0022 ? ? RCSB RCSB009101 ? ? WWPDB D_1000009101 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 1999-09-15 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2014-03-12 5 'Structure model' 1 4 2017-10-04 6 'Structure model' 1 5 2018-04-04 7 'Structure model' 1 6 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' 'Database references' 4 5 'Structure model' 'Refinement description' 5 6 'Structure model' 'Data collection' 6 7 'Structure model' 'Data collection' 7 7 'Structure model' 'Database references' 8 7 '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 5 'Structure model' software 2 6 'Structure model' diffrn_source 3 7 'Structure model' chem_comp_atom 4 7 'Structure model' chem_comp_bond 5 7 'Structure model' database_2 6 7 'Structure model' struct_conn 7 7 '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 6 'Structure model' '_diffrn_source.type' 2 7 'Structure model' '_database_2.pdbx_DOI' 3 7 'Structure model' '_database_2.pdbx_database_accession' 4 7 'Structure model' '_struct_conn.pdbx_dist_value' 5 7 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 7 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 7 7 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 8 7 'Structure model' '_struct_conn.ptnr1_label_atom_id' 9 7 'Structure model' '_struct_conn.ptnr1_label_comp_id' 10 7 'Structure model' '_struct_conn.ptnr1_label_seq_id' 11 7 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 12 7 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 13 7 'Structure model' '_struct_conn.ptnr2_label_asym_id' 14 7 'Structure model' '_struct_conn.ptnr2_label_atom_id' 15 7 'Structure model' '_struct_conn.ptnr2_label_comp_id' 16 7 'Structure model' '_struct_conn.ptnr2_label_seq_id' 17 7 'Structure model' '_struct_site.pdbx_auth_asym_id' 18 7 'Structure model' '_struct_site.pdbx_auth_comp_id' 19 7 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1QDA _pdbx_database_status.recvd_initial_deposition_date 1999-05-17 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1D33 '1D33 CONTAINS THE SAME DNA COMPLEXED WITH DAUNOMYCIN' unspecified PDB 1D15 '1D15 CONTAINS THE SAME DRUG COMPLEXED WITH D(CGATCG)' unspecified PDB 1D54 '1D54 CONTAINS THE SAME DRUG COMPLEXED WITH D(TGTACA)' unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Podell, E.R.' 1 'Harrington, D.J.' 2 'Taatjes, D.J.' 3 'Koch, T.H.' 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 epidoxorubicin-formaldehyde virtual crosslink of DNA and evidence for its formation in human breast-cancer cells. ; 'Acta Crystallogr.,Sect.D' 55 1516 1523 1999 ABCRE6 DK 0907-4449 0766 ? 10489446 10.1107/S0907444999008161 1 ;A redox pathway leading to the alkylation of nucleic acids by doxorubicin and related anthracyclines: application to the design of antitumor drugs for resistant cancer. ; Curr.Pharm.Des. 4 203 218 1998 CPDEFP NE 1381-6128 2127 ? 10197040 ? 2 'Epidoxoform: A Hydrolytically More Stable Anthracycline-Formaldehyde Conjugate Toxic to Resistant Tumor Cells' J.Med.Chem. 41 2452 2461 1998 JMCMAR US 0022-2623 0151 ? ? 10.1021/jm970739s # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Podell, E.R.' 1 ? primary 'Harrington, D.J.' 2 ? primary 'Taatjes, D.J.' 3 ? primary 'Koch, T.H.' 4 ? 1 'Taatjes, D.J.' 5 ? 1 'Fenick, D.J.' 6 ? 1 'Gaudiano, G.' 7 ? 1 'Koch, T.H.' 8 ? 2 'Taatjes, D.J.' 9 ? 2 'Fenick, D.J.' 10 ? 2 'Koch, T.H.' 11 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;5' -D(CP*GP*CP*(G49)P*CP*GP)-3' ; 1824.232 1 ? ? ? 'DOXORUBICIN COVALENTLY ATTACHED TO N2(G4) VIA METHYLENE BRIDGE' 2 non-polymer syn "4'-EPIDOXORUBICIN" 544.527 1 ? ? ? ? 3 water nat water 18.015 30 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(G49)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGCG _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 "4'-EPIDOXORUBICIN" DM6 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 G49 n 1 5 DC n 1 6 DG n # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight 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 DM6 non-polymer . "4'-EPIDOXORUBICIN" "4'-EPIADRIAMYCIN" 'C27 H30 N O11 1' 544.527 G49 'DNA linking' n "N2-METHYL-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE" ? 'C11 H16 N5 O7 P' 361.248 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 G49 4 4 4 G49 +G A . n A 1 5 DC 5 5 5 DC C A . n A 1 6 DG 6 6 6 DG G A . n # 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 B 2 DM6 1 100 100 DM6 DM2 A . C 3 HOH 1 101 1 HOH WAT A . C 3 HOH 2 102 2 HOH WAT A . C 3 HOH 3 103 3 HOH WAT A . C 3 HOH 4 104 4 HOH WAT A . C 3 HOH 5 105 5 HOH WAT A . C 3 HOH 6 106 6 HOH WAT A . C 3 HOH 7 107 7 HOH WAT A . C 3 HOH 8 108 8 HOH WAT A . C 3 HOH 9 109 9 HOH WAT A . C 3 HOH 10 110 10 HOH WAT A . C 3 HOH 11 111 11 HOH WAT A . C 3 HOH 12 112 12 HOH WAT A . C 3 HOH 13 113 13 HOH WAT A . C 3 HOH 14 114 14 HOH WAT A . C 3 HOH 15 115 15 HOH WAT A . C 3 HOH 16 116 16 HOH WAT A . C 3 HOH 17 117 17 HOH WAT A . C 3 HOH 18 118 18 HOH WAT A . C 3 HOH 19 119 19 HOH WAT A . C 3 HOH 20 120 20 HOH WAT A . C 3 HOH 21 121 21 HOH WAT A . C 3 HOH 22 122 22 HOH WAT A . C 3 HOH 23 123 23 HOH WAT A . C 3 HOH 24 124 24 HOH WAT A . C 3 HOH 25 125 25 HOH WAT A . C 3 HOH 26 126 26 HOH WAT A . C 3 HOH 27 127 27 HOH WAT A . C 3 HOH 28 128 28 HOH WAT A . C 3 HOH 29 129 29 HOH WAT A . C 3 HOH 30 130 30 HOH WAT A . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CNS refinement . ? 1 SCALEPACK 'data scaling' . ? 2 CNS phasing . ? 3 # _cell.entry_id 1QDA _cell.length_a 28.110 _cell.length_b 28.110 _cell.length_c 52.540 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 1QDA _symmetry.space_group_name_H-M 'P 41 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting tetragonal _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? # _exptl.entry_id 1QDA _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 54.82 _exptl_crystal.density_Matthews 2.72 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 296 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_details 'MPD, FORMALDEHYDE, CACODYLATE, SPERMINE, BARIUM CHLORIDE, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 296K' _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 FORMALDEHYDE ? ? ? 1 2 1 'SODIUM CACODYLATE' ? ? ? 1 3 1 SPERMINE ? ? ? 1 4 1 BACL2 ? ? ? 1 5 1 MPD ? ? ? 1 6 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 298.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type 'RIGAKU RAXIS II' _diffrn_detector.pdbx_collection_date 1998-01-23 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'RIGAKU RU200' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.5418 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1QDA _reflns.observed_criterion_sigma_I 0 _reflns.observed_criterion_sigma_F 0 _reflns.d_resolution_low 50.0 _reflns.d_resolution_high 1.6 _reflns.number_obs 3101 _reflns.number_all 3101 _reflns.percent_possible_obs 92.0 _reflns.pdbx_Rmerge_I_obs 0.099 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 6.8 _reflns.B_iso_Wilson_estimate 17.8 _reflns.pdbx_redundancy 12.0 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.6 _reflns_shell.d_res_low 1.66 _reflns_shell.percent_possible_all 82.7 _reflns_shell.Rmerge_I_obs 0.309 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy 9.5 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 1QDA _refine.ls_number_reflns_obs 2612 _refine.ls_number_reflns_all 3091 _refine.pdbx_ls_sigma_I 2.0 _refine.pdbx_ls_sigma_F 2.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 30.0 _refine.ls_d_res_high 1.6 _refine.ls_percent_reflns_obs 84.5 _refine.ls_R_factor_obs 0.2052 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2052 _refine.ls_R_factor_R_free 0.2678 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 17.3 _refine.ls_number_reflns_R_free 529 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'USED ALL THE REFLECTIONS IN THE FINAL SERIES OF REFINEMENT CYCLES' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'G. PARKINSON, J. VOJTECHOVSKY, L. CLOWNEY, A.T. BRUNGER, H.M. BERMAN' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_phase_error ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _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 121 _refine_hist.pdbx_number_atoms_ligand 39 _refine_hist.number_atoms_solvent 30 _refine_hist.number_atoms_total 190 _refine_hist.d_res_high 1.6 _refine_hist.d_res_low 30.0 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function c_bond_d 0.02 ? ? ? 'X-RAY DIFFRACTION' ? c_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 2.1 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? c_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? c_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? c_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 1QDA _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 1QDA _struct.title 'Crystal structure of epidoxorubicin-formaldehyde virtual crosslink of DNA' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1QDA _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'DOUBLE HELIX, DRUG-DNA COMPLEX, 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 2 ? C N N 3 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1QDA _struct_ref.pdbx_db_accession 1QDA _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1QDA _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 6 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 1QDA _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 6 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 6 # _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 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 8_665 -y+1,-x+1,-z+1/2 0.0000000000 -1.0000000000 0.0000000000 28.1100000000 -1.0000000000 0.0000000000 0.0000000000 28.1100000000 0.0000000000 0.0000000000 -1.0000000000 26.2700000000 # _struct_biol.id 1 _struct_biol.pdbx_parent_biol_id ? _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A DC 3 "O3'" ? ? ? 1_555 A G49 4 P ? ? A DC 3 A G49 4 1_555 ? ? ? ? ? ? ? 1.575 ? ? covale2 covale one ? A G49 4 "O3'" ? ? ? 1_555 A DC 5 P ? ? A G49 4 A DC 5 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale3 covale none ? A G49 4 CM2 ? ? ? 1_555 B DM6 . "N3'" ? ? A G49 4 A DM6 100 1_555 ? ? ? ? ? ? ? 1.516 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 A DG 6 N1 ? ? A DC 1 A DG 6 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 A DG 6 O6 ? ? A DC 1 A DG 6 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 A DG 6 N2 ? ? A DC 1 A DG 6 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DC 5 N3 ? ? A DG 2 A DC 5 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DC 5 O2 ? ? A DG 2 A DC 5 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DC 5 N4 ? ? A DG 2 A DC 5 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 A G49 4 N1 ? ? A DC 3 A G49 4 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 A G49 4 O6 ? ? A DC 3 A G49 4 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 A G49 4 N2 ? ? A DC 3 A G49 4 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G49 4 N1 ? ? ? 1_555 A DC 3 N3 ? ? A G49 4 A DC 3 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G49 4 N2 ? ? ? 1_555 A DC 3 O2 ? ? A G49 4 A DC 3 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G49 4 O6 ? ? ? 1_555 A DC 3 N4 ? ? A G49 4 A DC 3 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 N3 ? ? ? 1_555 A DG 2 N1 ? ? A DC 5 A DG 2 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 5 N4 ? ? ? 1_555 A DG 2 O6 ? ? A DC 5 A DG 2 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 5 O2 ? ? ? 1_555 A DG 2 N2 ? ? A DC 5 A DG 2 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 N1 ? ? ? 1_555 A DC 1 N3 ? ? A DG 6 A DC 1 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 6 N2 ? ? ? 1_555 A DC 1 O2 ? ? A DG 6 A DC 1 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 6 O6 ? ? ? 1_555 A DC 1 N4 ? ? A DG 6 A DC 1 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A DM6 100 ? 10 'BINDING SITE FOR RESIDUE DM6 A 100' 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 10 DC A 1 ? DC A 1 . ? 8_665 ? 2 AC1 10 DG A 2 ? DG A 2 . ? 8_665 ? 3 AC1 10 DC A 3 ? DC A 3 . ? 8_665 ? 4 AC1 10 G49 A 4 ? G49 A 4 . ? 1_555 ? 5 AC1 10 DC A 5 ? DC A 5 . ? 1_555 ? 6 AC1 10 DG A 6 ? DG A 6 . ? 1_555 ? 7 AC1 10 HOH C . ? HOH A 101 . ? 1_555 ? 8 AC1 10 HOH C . ? HOH A 106 . ? 1_555 ? 9 AC1 10 HOH C . ? HOH A 124 . ? 1_555 ? 10 AC1 10 HOH C . ? HOH A 125 . ? 1_555 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O A HOH 105 ? ? O A HOH 121 ? ? 1.97 2 1 OP1 A DG 6 ? ? O A HOH 123 ? ? 2.08 # 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 N1 A DC 5 ? ? C2 A DC 5 ? ? 1.333 1.397 -0.064 0.010 N 2 1 "O3'" A DG 6 ? ? "C3'" A DG 6 ? ? 1.377 1.419 -0.042 0.006 N # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 "O4'" _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 DG _pdbx_validate_rmsd_angle.auth_seq_id_1 2 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 "C1'" _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 DG _pdbx_validate_rmsd_angle.auth_seq_id_2 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 N9 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 DG _pdbx_validate_rmsd_angle.auth_seq_id_3 2 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 110.28 _pdbx_validate_rmsd_angle.angle_target_value 108.30 _pdbx_validate_rmsd_angle.angle_deviation 1.98 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.30 _pdbx_validate_rmsd_angle.linker_flag N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DC _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 5 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.071 _pdbx_validate_planes.type 'SIDE CHAIN' # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id G49 _pdbx_struct_mod_residue.label_seq_id 4 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id G49 _pdbx_struct_mod_residue.auth_seq_id 4 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DG _pdbx_struct_mod_residue.details ? # _struct_site_keywords.site_id 1 _struct_site_keywords.text 'INTERCALATION, COVALENT' # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal DC OP3 O N N 1 DC P P N N 2 DC OP1 O N N 3 DC OP2 O N N 4 DC "O5'" O N N 5 DC "C5'" C N N 6 DC "C4'" C N R 7 DC "O4'" O N N 8 DC "C3'" C N S 9 DC "O3'" O N N 10 DC "C2'" C N N 11 DC "C1'" C N R 12 DC N1 N N N 13 DC C2 C N N 14 DC O2 O N N 15 DC N3 N N N 16 DC C4 C N N 17 DC N4 N N N 18 DC C5 C N N 19 DC C6 C N N 20 DC HOP3 H N N 21 DC HOP2 H N N 22 DC "H5'" H N N 23 DC "H5''" H N N 24 DC "H4'" H N N 25 DC "H3'" H N N 26 DC "HO3'" H N N 27 DC "H2'" H N N 28 DC "H2''" H N N 29 DC "H1'" H N N 30 DC H41 H N N 31 DC H42 H N N 32 DC H5 H N N 33 DC H6 H N N 34 DG OP3 O N N 35 DG P P N N 36 DG OP1 O N N 37 DG OP2 O N N 38 DG "O5'" O N N 39 DG "C5'" C N N 40 DG "C4'" C N R 41 DG "O4'" O N N 42 DG "C3'" C N S 43 DG "O3'" O N N 44 DG "C2'" C N N 45 DG "C1'" C N R 46 DG N9 N Y N 47 DG C8 C Y N 48 DG N7 N Y N 49 DG C5 C Y N 50 DG C6 C N N 51 DG O6 O N N 52 DG N1 N N N 53 DG C2 C N N 54 DG N2 N N N 55 DG N3 N N N 56 DG C4 C Y N 57 DG HOP3 H N N 58 DG HOP2 H N N 59 DG "H5'" H N N 60 DG "H5''" H N N 61 DG "H4'" H N N 62 DG "H3'" H N N 63 DG "HO3'" H N N 64 DG "H2'" H N N 65 DG "H2''" H N N 66 DG "H1'" H N N 67 DG H8 H N N 68 DG H1 H N N 69 DG H21 H N N 70 DG H22 H N N 71 DM6 C1 C Y N 72 DM6 C2 C Y N 73 DM6 C3 C Y N 74 DM6 C4 C Y N 75 DM6 C5 C N N 76 DM6 C6 C Y N 77 DM6 C7 C N S 78 DM6 C8 C N N 79 DM6 C9 C N S 80 DM6 C10 C N N 81 DM6 C11 C Y N 82 DM6 C12 C N N 83 DM6 C13 C N N 84 DM6 C14 C N N 85 DM6 C15 C Y N 86 DM6 C16 C Y N 87 DM6 C17 C Y N 88 DM6 C18 C Y N 89 DM6 C19 C Y N 90 DM6 C20 C Y N 91 DM6 C21 C N N 92 DM6 O4 O N N 93 DM6 O5 O N N 94 DM6 O6 O N N 95 DM6 O7 O N N 96 DM6 O9 O N N 97 DM6 O11 O N N 98 DM6 O12 O N N 99 DM6 O13 O N N 100 DM6 O14 O N N 101 DM6 "C1'" C N R 102 DM6 "C2'" C N N 103 DM6 "C3'" C N S 104 DM6 "C4'" C N R 105 DM6 "C5'" C N S 106 DM6 "C6'" C N N 107 DM6 "O4'" O N N 108 DM6 "O5'" O N N 109 DM6 "N3'" N N N 110 DM6 H1 H N N 111 DM6 H2 H N N 112 DM6 H3 H N N 113 DM6 H7 H N N 114 DM6 H81 H N N 115 DM6 H82 H N N 116 DM6 H101 H N N 117 DM6 H102 H N N 118 DM6 H141 H N N 119 DM6 H142 H N N 120 DM6 H211 H N N 121 DM6 H212 H N N 122 DM6 H213 H N N 123 DM6 HO6 H N N 124 DM6 HO9 H N N 125 DM6 HO11 H N N 126 DM6 HO14 H N N 127 DM6 "H1'" H N N 128 DM6 "H2'1" H N N 129 DM6 "H2'2" H N N 130 DM6 "H3'" H N N 131 DM6 "H4'" H N N 132 DM6 "H5'" H N N 133 DM6 "H6'1" H N N 134 DM6 "H6'2" H N N 135 DM6 "H6'3" H N N 136 DM6 "HO'4" H N N 137 DM6 "HN'1" H N N 138 DM6 "HN'2" H N N 139 DM6 "HN'3" H N N 140 G49 P P N N 141 G49 O1P O N N 142 G49 O2P O N N 143 G49 O3P O N N 144 G49 "O5'" O N N 145 G49 "C5'" C N N 146 G49 "C4'" C N R 147 G49 "O4'" O N N 148 G49 "C3'" C N S 149 G49 "O3'" O N N 150 G49 "C2'" C N N 151 G49 "C1'" C N R 152 G49 N9 N Y N 153 G49 C8 C Y N 154 G49 N7 N Y N 155 G49 C5 C Y N 156 G49 C6 C N N 157 G49 O6 O N N 158 G49 N1 N N N 159 G49 C2 C N N 160 G49 N2 N N N 161 G49 CM2 C N N 162 G49 N3 N N N 163 G49 C4 C Y N 164 G49 H2P H N N 165 G49 H3P H N N 166 G49 "H5'1" H N N 167 G49 "H5'2" H N N 168 G49 "H4'" H N N 169 G49 "H3'" H N N 170 G49 HA H N N 171 G49 "H2'1" H N N 172 G49 "H2'2" H N N 173 G49 "H1'" H N N 174 G49 H8 H N N 175 G49 H1 H N N 176 G49 H2 H N N 177 G49 HM21 H N N 178 G49 HM22 H N N 179 G49 HM23 H N N 180 HOH O O N N 181 HOH H1 H N N 182 HOH H2 H 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 DC OP3 P sing N N 1 DC OP3 HOP3 sing N N 2 DC P OP1 doub N N 3 DC P OP2 sing N N 4 DC P "O5'" sing N N 5 DC OP2 HOP2 sing N N 6 DC "O5'" "C5'" sing N N 7 DC "C5'" "C4'" sing N N 8 DC "C5'" "H5'" sing N N 9 DC "C5'" "H5''" sing N N 10 DC "C4'" "O4'" sing N N 11 DC "C4'" "C3'" sing N N 12 DC "C4'" "H4'" sing N N 13 DC "O4'" "C1'" sing N N 14 DC "C3'" "O3'" sing N N 15 DC "C3'" "C2'" sing N N 16 DC "C3'" "H3'" sing N N 17 DC "O3'" "HO3'" sing N N 18 DC "C2'" "C1'" sing N N 19 DC "C2'" "H2'" sing N N 20 DC "C2'" "H2''" sing N N 21 DC "C1'" N1 sing N N 22 DC "C1'" "H1'" sing N N 23 DC N1 C2 sing N N 24 DC N1 C6 sing N N 25 DC C2 O2 doub N N 26 DC C2 N3 sing N N 27 DC N3 C4 doub N N 28 DC C4 N4 sing N N 29 DC C4 C5 sing N N 30 DC N4 H41 sing N N 31 DC N4 H42 sing N N 32 DC C5 C6 doub N N 33 DC C5 H5 sing N N 34 DC C6 H6 sing N N 35 DG OP3 P sing N N 36 DG OP3 HOP3 sing N N 37 DG P OP1 doub N N 38 DG P OP2 sing N N 39 DG P "O5'" sing N N 40 DG OP2 HOP2 sing N N 41 DG "O5'" "C5'" sing N N 42 DG "C5'" "C4'" sing N N 43 DG "C5'" "H5'" sing N N 44 DG "C5'" "H5''" sing N N 45 DG "C4'" "O4'" sing N N 46 DG "C4'" "C3'" sing N N 47 DG "C4'" "H4'" sing N N 48 DG "O4'" "C1'" sing N N 49 DG "C3'" "O3'" sing N N 50 DG "C3'" "C2'" sing N N 51 DG "C3'" "H3'" sing N N 52 DG "O3'" "HO3'" sing N N 53 DG "C2'" "C1'" sing N N 54 DG "C2'" "H2'" sing N N 55 DG "C2'" "H2''" sing N N 56 DG "C1'" N9 sing N N 57 DG "C1'" "H1'" sing N N 58 DG N9 C8 sing Y N 59 DG N9 C4 sing Y N 60 DG C8 N7 doub Y N 61 DG C8 H8 sing N N 62 DG N7 C5 sing Y N 63 DG C5 C6 sing N N 64 DG C5 C4 doub Y N 65 DG C6 O6 doub N N 66 DG C6 N1 sing N N 67 DG N1 C2 sing N N 68 DG N1 H1 sing N N 69 DG C2 N2 sing N N 70 DG C2 N3 doub N N 71 DG N2 H21 sing N N 72 DG N2 H22 sing N N 73 DG N3 C4 sing N N 74 DM6 C1 C2 doub Y N 75 DM6 C1 C15 sing Y N 76 DM6 C1 H1 sing N N 77 DM6 C2 C3 sing Y N 78 DM6 C2 H2 sing N N 79 DM6 C3 C4 doub Y N 80 DM6 C3 H3 sing N N 81 DM6 C4 C16 sing Y N 82 DM6 C4 O4 sing N N 83 DM6 C5 C16 sing N N 84 DM6 C5 C17 sing N N 85 DM6 C5 O5 doub N N 86 DM6 C6 C17 doub Y N 87 DM6 C6 C20 sing Y N 88 DM6 C6 O6 sing N N 89 DM6 C7 C8 sing N N 90 DM6 C7 C20 sing N N 91 DM6 C7 O7 sing N N 92 DM6 C7 H7 sing N N 93 DM6 C8 C9 sing N N 94 DM6 C8 H81 sing N N 95 DM6 C8 H82 sing N N 96 DM6 C9 C10 sing N N 97 DM6 C9 C13 sing N N 98 DM6 C9 O9 sing N N 99 DM6 C10 C19 sing N N 100 DM6 C10 H101 sing N N 101 DM6 C10 H102 sing N N 102 DM6 C11 C18 doub Y N 103 DM6 C11 C19 sing Y N 104 DM6 C11 O11 sing N N 105 DM6 C12 C15 sing N N 106 DM6 C12 C18 sing N N 107 DM6 C12 O12 doub N N 108 DM6 C13 C14 sing N N 109 DM6 C13 O13 doub N N 110 DM6 C14 O14 sing N N 111 DM6 C14 H141 sing N N 112 DM6 C14 H142 sing N N 113 DM6 C15 C16 doub Y N 114 DM6 C17 C18 sing Y N 115 DM6 C19 C20 doub Y N 116 DM6 C21 O4 sing N N 117 DM6 C21 H211 sing N N 118 DM6 C21 H212 sing N N 119 DM6 C21 H213 sing N N 120 DM6 O6 HO6 sing N N 121 DM6 O7 "C1'" sing N N 122 DM6 O9 HO9 sing N N 123 DM6 O11 HO11 sing N N 124 DM6 O14 HO14 sing N N 125 DM6 "C1'" "C2'" sing N N 126 DM6 "C1'" "O5'" sing N N 127 DM6 "C1'" "H1'" sing N N 128 DM6 "C2'" "C3'" sing N N 129 DM6 "C2'" "H2'1" sing N N 130 DM6 "C2'" "H2'2" sing N N 131 DM6 "C3'" "C4'" sing N N 132 DM6 "C3'" "N3'" sing N N 133 DM6 "C3'" "H3'" sing N N 134 DM6 "C4'" "C5'" sing N N 135 DM6 "C4'" "O4'" sing N N 136 DM6 "C4'" "H4'" sing N N 137 DM6 "C5'" "C6'" sing N N 138 DM6 "C5'" "O5'" sing N N 139 DM6 "C5'" "H5'" sing N N 140 DM6 "C6'" "H6'1" sing N N 141 DM6 "C6'" "H6'2" sing N N 142 DM6 "C6'" "H6'3" sing N N 143 DM6 "O4'" "HO'4" sing N N 144 DM6 "N3'" "HN'1" sing N N 145 DM6 "N3'" "HN'2" sing N N 146 DM6 "N3'" "HN'3" sing N N 147 G49 P O1P doub N N 148 G49 P O2P sing N N 149 G49 P O3P sing N N 150 G49 P "O5'" sing N N 151 G49 O2P H2P sing N N 152 G49 O3P H3P sing N N 153 G49 "O5'" "C5'" sing N N 154 G49 "C5'" "C4'" sing N N 155 G49 "C5'" "H5'1" sing N N 156 G49 "C5'" "H5'2" sing N N 157 G49 "C4'" "O4'" sing N N 158 G49 "C4'" "C3'" sing N N 159 G49 "C4'" "H4'" sing N N 160 G49 "O4'" "C1'" sing N N 161 G49 "C3'" "O3'" sing N N 162 G49 "C3'" "C2'" sing N N 163 G49 "C3'" "H3'" sing N N 164 G49 "O3'" HA sing N N 165 G49 "C2'" "C1'" sing N N 166 G49 "C2'" "H2'1" sing N N 167 G49 "C2'" "H2'2" sing N N 168 G49 "C1'" N9 sing N N 169 G49 "C1'" "H1'" sing N N 170 G49 N9 C8 sing Y N 171 G49 N9 C4 sing Y N 172 G49 C8 N7 doub Y N 173 G49 C8 H8 sing N N 174 G49 N7 C5 sing Y N 175 G49 C5 C6 sing N N 176 G49 C5 C4 doub Y N 177 G49 C6 O6 doub N N 178 G49 C6 N1 sing N N 179 G49 N1 C2 sing N N 180 G49 N1 H1 sing N N 181 G49 C2 N2 sing N N 182 G49 C2 N3 doub N N 183 G49 N2 CM2 sing N N 184 G49 N2 H2 sing N N 185 G49 CM2 HM21 sing N N 186 G49 CM2 HM22 sing N N 187 G49 CM2 HM23 sing N N 188 G49 N3 C4 sing N N 189 HOH O H1 sing N N 190 HOH O H2 sing N N 191 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1QDA 'double helix' 1QDA '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 A DG 6 8_665 0.272 -0.045 0.136 9.609 -0.009 -0.948 1 A_DC1:DG6_A A 1 ? A 6 ? 19 1 1 A DG 2 1_555 A DC 5 8_665 -0.280 -0.079 -0.499 -18.277 4.002 1.666 2 A_DG2:DC5_A A 2 ? A 5 ? 19 1 1 A DC 3 1_555 A G49 4 8_665 0.149 0.082 0.189 -9.900 -9.738 0.627 3 A_DC3:G494_A A 3 ? A 4 ? 19 1 1 A G49 4 1_555 A DC 3 8_665 -0.149 0.082 0.189 9.900 -9.738 0.627 4 A_G494:DC3_A A 4 ? A 3 ? 19 1 1 A DC 5 1_555 A DG 2 8_665 0.280 -0.079 -0.499 18.277 4.002 1.666 5 A_DC5:DG2_A A 5 ? A 2 ? 19 1 1 A DG 6 1_555 A DC 1 8_665 -0.272 -0.045 0.136 -9.609 -0.009 -0.948 6 A_DG6:DC1_A A 6 ? A 1 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DC 1 1_555 A DG 6 8_665 A DG 2 1_555 A DC 5 8_665 1.308 1.202 7.142 4.466 -4.757 31.854 3.968 -0.629 7.008 -8.555 -8.032 32.499 1 AA_DC1DG2:DC5DG6_AA A 1 ? A 6 ? A 2 ? A 5 ? 1 A DG 2 1_555 A DC 5 8_665 A DC 3 1_555 A G49 4 8_665 -1.165 0.241 3.167 -4.465 -2.006 34.027 0.719 1.281 3.270 -3.405 7.581 34.367 2 AA_DG2DC3:G494DC5_AA A 2 ? A 5 ? A 3 ? A 4 ? 1 A DC 3 1_555 A G49 4 8_665 A G49 4 1_555 A DC 3 8_665 0.000 0.225 2.941 0.000 14.868 31.060 -1.756 0.000 2.761 25.982 0.000 34.356 3 AA_DC3G494:DC3G494_AA A 3 ? A 4 ? A 4 ? A 3 ? 1 A G49 4 1_555 A DC 3 8_665 A DC 5 1_555 A DG 2 8_665 1.165 0.241 3.167 4.465 -2.006 34.027 0.719 -1.281 3.270 -3.405 -7.581 34.367 4 AA_G494DC5:DG2DC3_AA A 4 ? A 3 ? A 5 ? A 2 ? 1 A DC 5 1_555 A DG 2 8_665 A DG 6 1_555 A DC 1 8_665 -1.308 1.202 7.142 -4.466 -4.757 31.854 3.968 0.629 7.008 -8.555 8.032 32.499 5 AA_DC5DG6:DC1DG2_AA A 5 ? A 2 ? A 6 ? A 1 ? # _atom_sites.entry_id 1QDA _atom_sites.fract_transf_matrix[1][1] 0.035575 _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] 0.035575 _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] 0.019033 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_alt_id _atom_site.label_comp_id _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.label_seq_id _atom_site.pdbx_PDB_ins_code _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_seq_id _atom_site.auth_comp_id _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.pdbx_PDB_model_num ATOM 1 O "O5'" . DC A 1 1 ? 9.207 19.870 22.526 1.00 22.29 ? 1 DC A "O5'" 1 ATOM 2 C "C5'" . DC A 1 1 ? 9.604 20.909 23.407 1.00 20.43 ? 1 DC A "C5'" 1 ATOM 3 C "C4'" . DC A 1 1 ? 11.062 20.809 23.764 1.00 19.79 ? 1 DC A "C4'" 1 ATOM 4 O "O4'" . DC A 1 1 ? 11.271 19.648 24.606 1.00 19.14 ? 1 DC A "O4'" 1 ATOM 5 C "C3'" . DC A 1 1 ? 12.012 20.645 22.565 1.00 20.43 ? 1 DC A "C3'" 1 ATOM 6 O "O3'" . DC A 1 1 ? 13.149 21.392 22.896 1.00 22.49 ? 1 DC A "O3'" 1 ATOM 7 C "C2'" . DC A 1 1 ? 12.400 19.176 22.572 1.00 18.13 ? 1 DC A "C2'" 1 ATOM 8 C "C1'" . DC A 1 1 ? 12.265 18.799 24.037 1.00 17.02 ? 1 DC A "C1'" 1 ATOM 9 N N1 . DC A 1 1 ? 11.789 17.424 24.193 1.00 15.20 ? 1 DC A N1 1 ATOM 10 C C2 . DC A 1 1 ? 12.769 16.424 24.390 1.00 14.62 ? 1 DC A C2 1 ATOM 11 O O2 . DC A 1 1 ? 13.967 16.781 24.515 1.00 14.10 ? 1 DC A O2 1 ATOM 12 N N3 . DC A 1 1 ? 12.355 15.122 24.437 1.00 14.64 ? 1 DC A N3 1 ATOM 13 C C4 . DC A 1 1 ? 11.038 14.813 24.348 1.00 12.75 ? 1 DC A C4 1 ATOM 14 N N4 . DC A 1 1 ? 10.674 13.516 24.403 1.00 12.44 ? 1 DC A N4 1 ATOM 15 C C5 . DC A 1 1 ? 10.032 15.837 24.189 1.00 12.93 ? 1 DC A C5 1 ATOM 16 C C6 . DC A 1 1 ? 10.458 17.095 24.121 1.00 11.54 ? 1 DC A C6 1 ATOM 17 P P . DG A 1 2 ? 13.620 22.567 21.941 1.00 22.52 ? 2 DG A P 1 ATOM 18 O OP1 . DG A 1 2 ? 14.586 23.236 22.810 1.00 25.96 ? 2 DG A OP1 1 ATOM 19 O OP2 . DG A 1 2 ? 12.505 23.309 21.405 1.00 24.07 ? 2 DG A OP2 1 ATOM 20 O "O5'" . DG A 1 2 ? 14.358 21.737 20.795 1.00 22.11 ? 2 DG A "O5'" 1 ATOM 21 C "C5'" . DG A 1 2 ? 15.575 21.074 21.089 1.00 18.24 ? 2 DG A "C5'" 1 ATOM 22 C "C4'" . DG A 1 2 ? 15.997 20.254 19.903 1.00 16.95 ? 2 DG A "C4'" 1 ATOM 23 O "O4'" . DG A 1 2 ? 15.177 19.087 19.801 1.00 14.51 ? 2 DG A "O4'" 1 ATOM 24 C "C3'" . DG A 1 2 ? 15.870 21.000 18.566 1.00 18.84 ? 2 DG A "C3'" 1 ATOM 25 O "O3'" . DG A 1 2 ? 16.935 20.567 17.708 1.00 23.93 ? 2 DG A "O3'" 1 ATOM 26 C "C2'" . DG A 1 2 ? 14.613 20.435 17.963 1.00 18.14 ? 2 DG A "C2'" 1 ATOM 27 C "C1'" . DG A 1 2 ? 14.787 18.984 18.428 1.00 16.68 ? 2 DG A "C1'" 1 ATOM 28 N N9 . DG A 1 2 ? 13.619 18.109 18.296 1.00 16.34 ? 2 DG A N9 1 ATOM 29 C C8 . DG A 1 2 ? 12.268 18.451 18.241 1.00 15.78 ? 2 DG A C8 1 ATOM 30 N N7 . DG A 1 2 ? 11.481 17.427 18.064 1.00 15.57 ? 2 DG A N7 1 ATOM 31 C C5 . DG A 1 2 ? 12.361 16.337 18.003 1.00 15.30 ? 2 DG A C5 1 ATOM 32 C C6 . DG A 1 2 ? 12.095 14.950 17.845 1.00 14.44 ? 2 DG A C6 1 ATOM 33 O O6 . DG A 1 2 ? 11.028 14.383 17.714 1.00 15.91 ? 2 DG A O6 1 ATOM 34 N N1 . DG A 1 2 ? 13.246 14.216 17.881 1.00 14.23 ? 2 DG A N1 1 ATOM 35 C C2 . DG A 1 2 ? 14.521 14.739 18.105 1.00 13.23 ? 2 DG A C2 1 ATOM 36 N N2 . DG A 1 2 ? 15.487 13.822 18.247 1.00 11.57 ? 2 DG A N2 1 ATOM 37 N N3 . DG A 1 2 ? 14.789 16.020 18.225 1.00 10.96 ? 2 DG A N3 1 ATOM 38 C C4 . DG A 1 2 ? 13.678 16.749 18.169 1.00 14.60 ? 2 DG A C4 1 ATOM 39 P P . DC A 1 3 ? 17.785 21.638 16.854 1.00 26.92 ? 3 DC A P 1 ATOM 40 O OP1 . DC A 1 3 ? 18.421 22.573 17.784 1.00 25.63 ? 3 DC A OP1 1 ATOM 41 O OP2 . DC A 1 3 ? 16.906 22.116 15.726 1.00 27.24 ? 3 DC A OP2 1 ATOM 42 O "O5'" . DC A 1 3 ? 18.929 20.728 16.221 1.00 25.20 ? 3 DC A "O5'" 1 ATOM 43 C "C5'" . DC A 1 3 ? 19.832 20.128 17.060 1.00 19.55 ? 3 DC A "C5'" 1 ATOM 44 C "C4'" . DC A 1 3 ? 19.990 18.691 16.659 1.00 17.58 ? 3 DC A "C4'" 1 ATOM 45 O "O4'" . DC A 1 3 ? 18.746 18.030 16.920 1.00 16.81 ? 3 DC A "O4'" 1 ATOM 46 C "C3'" . DC A 1 3 ? 20.284 18.400 15.193 1.00 16.96 ? 3 DC A "C3'" 1 ATOM 47 O "O3'" . DC A 1 3 ? 21.661 18.149 15.046 1.00 17.06 ? 3 DC A "O3'" 1 ATOM 48 C "C2'" . DC A 1 3 ? 19.596 17.068 14.970 1.00 16.42 ? 3 DC A "C2'" 1 ATOM 49 C "C1'" . DC A 1 3 ? 18.713 16.857 16.173 1.00 15.73 ? 3 DC A "C1'" 1 ATOM 50 N N1 . DC A 1 3 ? 17.363 16.750 15.667 1.00 14.43 ? 3 DC A N1 1 ATOM 51 C C2 . DC A 1 3 ? 16.905 15.496 15.410 1.00 13.94 ? 3 DC A C2 1 ATOM 52 O O2 . DC A 1 3 ? 17.710 14.511 15.557 1.00 13.64 ? 3 DC A O2 1 ATOM 53 N N3 . DC A 1 3 ? 15.631 15.343 15.017 1.00 13.70 ? 3 DC A N3 1 ATOM 54 C C4 . DC A 1 3 ? 14.842 16.402 14.849 1.00 14.35 ? 3 DC A C4 1 ATOM 55 N N4 . DC A 1 3 ? 13.540 16.161 14.580 1.00 13.94 ? 3 DC A N4 1 ATOM 56 C C5 . DC A 1 3 ? 15.344 17.755 15.000 1.00 13.76 ? 3 DC A C5 1 ATOM 57 C C6 . DC A 1 3 ? 16.588 17.855 15.446 1.00 13.76 ? 3 DC A C6 1 HETATM 58 P P . G49 A 1 4 ? 22.342 18.310 13.635 1.00 17.29 ? 4 G49 A P 1 HETATM 59 O O1P . G49 A 1 4 ? 23.737 18.637 13.970 1.00 19.57 ? 4 G49 A O1P 1 HETATM 60 O O2P . G49 A 1 4 ? 21.554 19.108 12.706 1.00 17.87 ? 4 G49 A O2P 1 HETATM 61 O "O5'" . G49 A 1 4 ? 22.216 16.879 12.976 1.00 16.84 ? 4 G49 A "O5'" 1 HETATM 62 C "C5'" . G49 A 1 4 ? 22.783 15.757 13.596 1.00 15.26 ? 4 G49 A "C5'" 1 HETATM 63 C "C4'" . G49 A 1 4 ? 22.495 14.516 12.777 1.00 15.84 ? 4 G49 A "C4'" 1 HETATM 64 O "O4'" . G49 A 1 4 ? 21.072 14.236 12.768 1.00 15.87 ? 4 G49 A "O4'" 1 HETATM 65 C "C3'" . G49 A 1 4 ? 22.901 14.594 11.303 1.00 15.20 ? 4 G49 A "C3'" 1 HETATM 66 O "O3'" . G49 A 1 4 ? 23.417 13.287 10.942 1.00 17.60 ? 4 G49 A "O3'" 1 HETATM 67 C "C2'" . G49 A 1 4 ? 21.618 15.015 10.593 1.00 13.23 ? 4 G49 A "C2'" 1 HETATM 68 C "C1'" . G49 A 1 4 ? 20.565 14.329 11.437 1.00 14.10 ? 4 G49 A "C1'" 1 HETATM 69 N N9 . G49 A 1 4 ? 19.299 15.019 11.557 1.00 13.35 ? 4 G49 A N9 1 HETATM 70 C C8 . G49 A 1 4 ? 19.039 16.359 11.675 1.00 13.16 ? 4 G49 A C8 1 HETATM 71 N N7 . G49 A 1 4 ? 17.760 16.625 11.753 1.00 12.77 ? 4 G49 A N7 1 HETATM 72 C C5 . G49 A 1 4 ? 17.164 15.366 11.690 1.00 13.03 ? 4 G49 A C5 1 HETATM 73 C C6 . G49 A 1 4 ? 15.809 14.980 11.644 1.00 12.38 ? 4 G49 A C6 1 HETATM 74 O O6 . G49 A 1 4 ? 14.812 15.698 11.655 1.00 11.72 ? 4 G49 A O6 1 HETATM 75 N N1 . G49 A 1 4 ? 15.673 13.576 11.537 1.00 12.49 ? 4 G49 A N1 1 HETATM 76 C C2 . G49 A 1 4 ? 16.679 12.669 11.448 1.00 12.84 ? 4 G49 A C2 1 HETATM 77 N N2 . G49 A 1 4 ? 16.293 11.367 11.338 1.00 14.60 ? 4 G49 A N2 1 HETATM 78 C CM2 . G49 A 1 4 ? 17.342 10.385 11.075 1.00 15.04 ? 4 G49 A CM2 1 HETATM 79 N N3 . G49 A 1 4 ? 17.942 13.008 11.470 1.00 13.68 ? 4 G49 A N3 1 HETATM 80 C C4 . G49 A 1 4 ? 18.112 14.374 11.594 1.00 13.46 ? 4 G49 A C4 1 ATOM 81 P P . DC A 1 5 ? 24.134 13.069 9.518 1.00 18.68 ? 5 DC A P 1 ATOM 82 O OP1 . DC A 1 5 ? 24.998 11.877 9.598 1.00 20.78 ? 5 DC A OP1 1 ATOM 83 O OP2 . DC A 1 5 ? 24.647 14.373 8.994 1.00 18.75 ? 5 DC A OP2 1 ATOM 84 O "O5'" . DC A 1 5 ? 22.929 12.707 8.537 1.00 18.44 ? 5 DC A "O5'" 1 ATOM 85 C "C5'" . DC A 1 5 ? 22.217 11.520 8.736 1.00 18.22 ? 5 DC A "C5'" 1 ATOM 86 C "C4'" . DC A 1 5 ? 21.008 11.514 7.847 1.00 16.33 ? 5 DC A "C4'" 1 ATOM 87 O "O4'" . DC A 1 5 ? 20.029 12.405 8.405 1.00 14.17 ? 5 DC A "O4'" 1 ATOM 88 C "C3'" . DC A 1 5 ? 21.334 12.036 6.444 1.00 16.87 ? 5 DC A "C3'" 1 ATOM 89 O "O3'" . DC A 1 5 ? 20.669 11.226 5.476 1.00 18.12 ? 5 DC A "O3'" 1 ATOM 90 C "C2'" . DC A 1 5 ? 20.662 13.381 6.425 1.00 15.63 ? 5 DC A "C2'" 1 ATOM 91 C "C1'" . DC A 1 5 ? 19.488 13.075 7.309 1.00 13.94 ? 5 DC A "C1'" 1 ATOM 92 N N1 . DC A 1 5 ? 18.818 14.247 7.793 1.00 13.49 ? 5 DC A N1 1 ATOM 93 C C2 . DC A 1 5 ? 17.525 14.123 8.094 1.00 13.17 ? 5 DC A C2 1 ATOM 94 O O2 . DC A 1 5 ? 17.014 12.993 8.025 1.00 12.36 ? 5 DC A O2 1 ATOM 95 N N3 . DC A 1 5 ? 16.820 15.210 8.458 1.00 14.28 ? 5 DC A N3 1 ATOM 96 C C4 . DC A 1 5 ? 17.414 16.399 8.509 1.00 14.64 ? 5 DC A C4 1 ATOM 97 N N4 . DC A 1 5 ? 16.630 17.498 8.723 1.00 15.37 ? 5 DC A N4 1 ATOM 98 C C5 . DC A 1 5 ? 18.800 16.535 8.280 1.00 15.15 ? 5 DC A C5 1 ATOM 99 C C6 . DC A 1 5 ? 19.459 15.448 7.911 1.00 13.67 ? 5 DC A C6 1 ATOM 100 P P . DG A 1 6 ? 21.494 10.133 4.640 1.00 18.64 ? 6 DG A P 1 ATOM 101 O OP1 . DG A 1 6 ? 22.078 9.099 5.531 1.00 18.80 ? 6 DG A OP1 1 ATOM 102 O OP2 . DG A 1 6 ? 22.368 10.935 3.804 1.00 18.87 ? 6 DG A OP2 1 ATOM 103 O "O5'" . DG A 1 6 ? 20.326 9.458 3.826 1.00 17.71 ? 6 DG A "O5'" 1 ATOM 104 C "C5'" . DG A 1 6 ? 19.395 8.596 4.470 1.00 17.75 ? 6 DG A "C5'" 1 ATOM 105 C "C4'" . DG A 1 6 ? 18.411 8.050 3.454 1.00 17.49 ? 6 DG A "C4'" 1 ATOM 106 O "O4'" . DG A 1 6 ? 17.495 9.092 3.022 1.00 16.33 ? 6 DG A "O4'" 1 ATOM 107 C "C3'" . DG A 1 6 ? 19.062 7.526 2.168 1.00 16.97 ? 6 DG A "C3'" 1 ATOM 108 O "O3'" . DG A 1 6 ? 18.217 6.556 1.677 1.00 17.80 ? 6 DG A "O3'" 1 ATOM 109 C "C2'" . DG A 1 6 ? 19.008 8.715 1.227 1.00 15.50 ? 6 DG A "C2'" 1 ATOM 110 C "C1'" . DG A 1 6 ? 17.754 9.435 1.676 1.00 15.04 ? 6 DG A "C1'" 1 ATOM 111 N N9 . DG A 1 6 ? 17.860 10.879 1.648 1.00 14.26 ? 6 DG A N9 1 ATOM 112 C C8 . DG A 1 6 ? 18.970 11.698 1.709 1.00 14.37 ? 6 DG A C8 1 ATOM 113 N N7 . DG A 1 6 ? 18.680 12.958 1.629 1.00 14.88 ? 6 DG A N7 1 ATOM 114 C C5 . DG A 1 6 ? 17.279 12.961 1.546 1.00 14.70 ? 6 DG A C5 1 ATOM 115 C C6 . DG A 1 6 ? 16.349 14.033 1.524 1.00 13.68 ? 6 DG A C6 1 ATOM 116 O O6 . DG A 1 6 ? 16.589 15.259 1.573 1.00 14.46 ? 6 DG A O6 1 ATOM 117 N N1 . DG A 1 6 ? 15.027 13.566 1.465 1.00 13.60 ? 6 DG A N1 1 ATOM 118 C C2 . DG A 1 6 ? 14.629 12.254 1.430 1.00 13.53 ? 6 DG A C2 1 ATOM 119 N N2 . DG A 1 6 ? 13.336 12.041 1.368 1.00 13.71 ? 6 DG A N2 1 ATOM 120 N N3 . DG A 1 6 ? 15.466 11.248 1.477 1.00 13.98 ? 6 DG A N3 1 ATOM 121 C C4 . DG A 1 6 ? 16.779 11.680 1.542 1.00 14.73 ? 6 DG A C4 1 HETATM 122 C C1 . DM6 B 2 . ? 15.768 18.679 5.125 1.00 16.61 ? 100 DM6 A C1 1 HETATM 123 C C2 . DM6 B 2 . ? 17.034 19.342 5.145 1.00 17.69 ? 100 DM6 A C2 1 HETATM 124 C C3 . DM6 B 2 . ? 18.206 18.732 5.073 1.00 17.14 ? 100 DM6 A C3 1 HETATM 125 C C4 . DM6 B 2 . ? 18.274 17.326 4.970 1.00 15.98 ? 100 DM6 A C4 1 HETATM 126 C C5 . DM6 B 2 . ? 16.994 15.059 4.873 1.00 14.15 ? 100 DM6 A C5 1 HETATM 127 C C6 . DM6 B 2 . ? 15.723 13.014 4.852 1.00 13.56 ? 100 DM6 A C6 1 HETATM 128 C C7 . DM6 B 2 . ? 14.485 10.810 4.861 1.00 14.53 ? 100 DM6 A C7 1 HETATM 129 C C8 . DM6 B 2 . ? 13.140 10.136 4.548 1.00 14.33 ? 100 DM6 A C8 1 HETATM 130 C C9 . DM6 B 2 . ? 11.942 10.790 5.332 1.00 16.18 ? 100 DM6 A C9 1 HETATM 131 C C10 . DM6 B 2 . ? 11.825 12.291 4.920 1.00 14.85 ? 100 DM6 A C10 1 HETATM 132 C C11 . DM6 B 2 . ? 13.194 14.439 4.943 1.00 13.30 ? 100 DM6 A C11 1 HETATM 133 C C12 . DM6 B 2 . ? 14.465 16.583 5.025 1.00 14.86 ? 100 DM6 A C12 1 HETATM 134 C C13 . DM6 B 2 . ? 10.637 9.998 4.945 1.00 18.26 ? 100 DM6 A C13 1 HETATM 135 C C14 . DM6 B 2 . ? 9.993 9.209 6.132 1.00 20.01 ? 100 DM6 A C14 1 HETATM 136 C C15 . DM6 B 2 . ? 15.800 17.272 5.034 1.00 15.23 ? 100 DM6 A C15 1 HETATM 137 C C16 . DM6 B 2 . ? 17.013 16.567 4.959 1.00 15.73 ? 100 DM6 A C16 1 HETATM 138 C C17 . DM6 B 2 . ? 15.722 14.422 4.892 1.00 13.47 ? 100 DM6 A C17 1 HETATM 139 C C18 . DM6 B 2 . ? 14.465 15.141 4.952 1.00 13.50 ? 100 DM6 A C18 1 HETATM 140 C C19 . DM6 B 2 . ? 13.192 13.004 4.915 1.00 14.42 ? 100 DM6 A C19 1 HETATM 141 C C20 . DM6 B 2 . ? 14.411 12.304 4.879 1.00 13.69 ? 100 DM6 A C20 1 HETATM 142 C C21 . DM6 B 2 . ? 20.724 17.259 4.915 1.00 17.74 ? 100 DM6 A C21 1 HETATM 143 O O4 . DM6 B 2 . ? 19.386 16.622 4.890 1.00 18.64 ? 100 DM6 A O4 1 HETATM 144 O O5 . DM6 B 2 . ? 17.997 14.405 4.790 1.00 15.68 ? 100 DM6 A O5 1 HETATM 145 O O6 . DM6 B 2 . ? 16.867 12.239 4.787 1.00 13.27 ? 100 DM6 A O6 1 HETATM 146 O O7 . DM6 B 2 . ? 15.069 10.538 6.213 1.00 14.74 ? 100 DM6 A O7 1 HETATM 147 O O9 . DM6 B 2 . ? 12.150 10.758 6.721 1.00 15.07 ? 100 DM6 A O9 1 HETATM 148 O O11 . DM6 B 2 . ? 11.977 15.039 4.959 1.00 14.76 ? 100 DM6 A O11 1 HETATM 149 O O12 . DM6 B 2 . ? 13.380 17.205 5.095 1.00 16.24 ? 100 DM6 A O12 1 HETATM 150 O O13 . DM6 B 2 . ? 10.234 10.338 3.860 1.00 20.18 ? 100 DM6 A O13 1 HETATM 151 O O14 . DM6 B 2 . ? 8.807 8.523 5.616 1.00 21.82 ? 100 DM6 A O14 1 HETATM 152 C "C1'" . DM6 B 2 . ? 16.065 9.511 6.206 1.00 14.67 ? 100 DM6 A "C1'" 1 HETATM 153 C "C2'" . DM6 B 2 . ? 17.088 9.853 7.240 1.00 15.10 ? 100 DM6 A "C2'" 1 HETATM 154 C "C3'" . DM6 B 2 . ? 16.468 9.793 8.658 1.00 15.44 ? 100 DM6 A "C3'" 1 HETATM 155 C "C4'" . DM6 B 2 . ? 15.854 8.434 8.886 1.00 15.67 ? 100 DM6 A "C4'" 1 HETATM 156 C "C5'" . DM6 B 2 . ? 14.791 8.202 7.818 1.00 15.07 ? 100 DM6 A "C5'" 1 HETATM 157 C "C6'" . DM6 B 2 . ? 14.100 6.824 7.922 1.00 16.84 ? 100 DM6 A "C6'" 1 HETATM 158 O "O4'" . DM6 B 2 . ? 15.280 8.358 10.190 1.00 17.73 ? 100 DM6 A "O4'" 1 HETATM 159 O "O5'" . DM6 B 2 . ? 15.393 8.265 6.496 1.00 15.30 ? 100 DM6 A "O5'" 1 HETATM 160 N "N3'" . DM6 B 2 . ? 17.585 10.119 9.602 1.00 15.54 ? 100 DM6 A "N3'" 1 HETATM 161 O O . HOH C 3 . ? 20.026 15.051 2.655 1.00 17.68 ? 101 HOH A O 1 HETATM 162 O O . HOH C 3 . ? 13.632 18.347 11.758 1.00 32.26 ? 102 HOH A O 1 HETATM 163 O O . HOH C 3 . ? 22.999 15.910 7.412 1.00 20.95 ? 103 HOH A O 1 HETATM 164 O O . HOH C 3 . ? 17.036 18.975 12.004 1.00 21.58 ? 104 HOH A O 1 HETATM 165 O O . HOH C 3 . ? 8.754 15.722 16.514 1.00 25.74 ? 105 HOH A O 1 HETATM 166 O O . HOH C 3 . ? 9.420 12.047 1.676 1.00 23.41 ? 106 HOH A O 1 HETATM 167 O O . HOH C 3 . ? 14.221 8.658 1.466 1.00 21.50 ? 107 HOH A O 1 HETATM 168 O O . HOH C 3 . ? 14.275 6.674 3.971 1.00 29.76 ? 108 HOH A O 1 HETATM 169 O O . HOH C 3 . ? 6.843 17.936 23.467 1.00 43.99 ? 109 HOH A O 1 HETATM 170 O O . HOH C 3 . ? 20.970 18.775 10.036 1.00 32.44 ? 110 HOH A O 1 HETATM 171 O O . HOH C 3 . ? 18.171 17.006 0.997 1.00 37.00 ? 111 HOH A O 1 HETATM 172 O O . HOH C 3 . ? 21.163 16.445 0.937 1.00 44.93 ? 112 HOH A O 1 HETATM 173 O O . HOH C 3 . ? 22.735 18.559 8.470 1.00 65.40 ? 113 HOH A O 1 HETATM 174 O O . HOH C 3 . ? 12.544 20.901 4.246 1.00 34.50 ? 114 HOH A O 1 HETATM 175 O O . HOH C 3 . ? 19.543 21.717 12.896 1.00 33.94 ? 115 HOH A O 1 HETATM 176 O O . HOH C 3 . ? 11.503 21.785 19.210 1.00 31.92 ? 116 HOH A O 1 HETATM 177 O O . HOH C 3 . ? 15.439 6.498 1.672 1.00 54.63 ? 117 HOH A O 1 HETATM 178 O O . HOH C 3 . ? 26.774 15.805 9.730 1.00 51.48 ? 118 HOH A O 1 HETATM 179 O O . HOH C 3 . ? 19.121 19.855 8.312 1.00 36.22 ? 119 HOH A O 1 HETATM 180 O O . HOH C 3 . ? 21.570 13.318 -0.200 1.00 39.96 ? 120 HOH A O 1 HETATM 181 O O . HOH C 3 . ? 8.455 17.336 17.600 1.00 40.73 ? 121 HOH A O 1 HETATM 182 O O . HOH C 3 . ? 25.168 8.703 6.410 1.00 39.07 ? 122 HOH A O 1 HETATM 183 O O . HOH C 3 . ? 21.758 7.817 7.136 1.00 44.67 ? 123 HOH A O 1 HETATM 184 O O . HOH C 3 . ? 19.387 8.197 9.707 1.00 30.55 ? 124 HOH A O 1 HETATM 185 O O . HOH C 3 . ? 11.494 18.977 6.404 1.00 43.47 ? 125 HOH A O 1 HETATM 186 O O . HOH C 3 . ? 7.965 12.874 24.516 1.00 31.50 ? 126 HOH A O 1 HETATM 187 O O . HOH C 3 . ? 11.634 9.537 0.700 1.00 30.44 ? 127 HOH A O 1 HETATM 188 O O . HOH C 3 . ? 14.164 22.009 25.353 1.00 52.92 ? 128 HOH A O 1 HETATM 189 O O . HOH C 3 . ? 9.610 7.801 1.944 1.00 41.43 ? 129 HOH A O 1 HETATM 190 O O . HOH C 3 . ? 16.014 20.711 25.816 1.00 39.00 ? 130 HOH A O 1 #
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