data_3FQ5 # _entry.id 3FQ5 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.388 _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 3FQ5 pdb_00003fq5 10.2210/pdb3fq5/pdb NDB ZD0027 ? ? RCSB RCSB050903 ? ? WWPDB D_1000050903 ? ? # 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 2009-02-10 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2019-08-28 4 'Structure model' 1 3 2024-03-20 # _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' 'Data collection' 3 3 'Structure model' 'Source and taxonomy' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Database references' 6 4 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' pdbx_entity_src_syn 2 4 'Structure model' chem_comp_atom 3 4 'Structure model' chem_comp_bond 4 4 'Structure model' database_2 5 4 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 4 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 5 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3FQ5 _pdbx_database_status.recvd_initial_deposition_date 2009-01-07 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _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 ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 3FQB _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Venkadesh, S.' 1 'Kannan, R.' 2 'Mandal, P.K.' 3 'Gautham, N.' 4 # _citation.id primary _citation.title 'Crystal Structure of d(CACGCG).d(CGCGTG) with 10mM MnCl2' _citation.journal_abbrev 'To be Published' _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 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Venkadesh, S.' 1 ? primary 'Mandal, P.K.' 2 ? primary 'Gautham, N.' 3 ? # 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*AP*CP*GP*CP*G)-3'" 1794.206 2 ? ? ? ? 2 polymer syn "5'-D(*CP*GP*CP*GP*TP*G)-3'" 1825.216 2 ? ? ? ? 3 non-polymer syn 'MANGANESE (II) ION' 54.938 2 ? ? ? ? 4 water nat water 18.015 12 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no no '(DC)(DA)(DC)(DG)(DC)(DG)' CACGCG A,C ? 2 polydeoxyribonucleotide no no '(DC)(DG)(DC)(DG)(DT)(DG)' CGCGTG B,D ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'MANGANESE (II) ION' MN 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DA n 1 3 DC n 1 4 DG n 1 5 DC n 1 6 DG n 2 1 DC n 2 2 DG n 2 3 DC n 2 4 DG n 2 5 DT n 2 6 DG n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample ? ? 'synthetic construct' ? 32630 ? 2 1 sample ? ? 'synthetic construct' ? 32630 ? # 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 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 MN non-polymer . 'MANGANESE (II) ION' ? 'Mn 2' 54.938 # 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 DC A . n A 1 2 DA 2 2 2 DA DA A . n A 1 3 DC 3 3 3 DC DC A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DC 5 5 5 DC DC A . n A 1 6 DG 6 6 6 DG DG A . n B 2 1 DC 1 7 7 DC DC B . n B 2 2 DG 2 8 8 DG DG B . n B 2 3 DC 3 9 9 DC DC B . n B 2 4 DG 4 10 10 DG DG B . n B 2 5 DT 5 11 11 DT DT B . n B 2 6 DG 6 12 12 DG DG B . n C 1 1 DC 1 1 1 DC DC C . n C 1 2 DA 2 2 2 DA DA C . n C 1 3 DC 3 3 3 DC DC C . n C 1 4 DG 4 4 4 DG DG C . n C 1 5 DC 5 5 5 DC DC C . n C 1 6 DG 6 6 6 DG DG C . n D 2 1 DC 1 7 7 DC DC D . n D 2 2 DG 2 8 8 DG DG D . n D 2 3 DC 3 9 9 DC DC D . n D 2 4 DG 4 10 10 DG DG D . n D 2 5 DT 5 11 11 DT DT D . n D 2 6 DG 6 12 12 DG DG 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 3 MN 1 7 1 MN MN A . F 3 MN 1 8 2 MN MN A . G 4 HOH 1 9 9 HOH HOH A . G 4 HOH 2 10 2 HOH HOH A . G 4 HOH 3 11 11 HOH HOH A . G 4 HOH 4 12 3 HOH HOH A . H 4 HOH 1 6 6 HOH HOH B . H 4 HOH 2 13 8 HOH HOH B . H 4 HOH 3 14 12 HOH HOH B . I 4 HOH 1 7 4 HOH HOH C . I 4 HOH 2 10 10 HOH HOH C . J 4 HOH 1 1 1 HOH HOH D . J 4 HOH 2 5 5 HOH HOH D . J 4 HOH 3 13 7 HOH HOH D . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal MAR345dtb 'data collection' . ? 1 PHASER phasing . ? 2 REFMAC refinement 5.2.0019 ? 3 AUTOMAR 'data reduction' . ? 4 SCALEPACK 'data scaling' . ? 5 # _cell.entry_id 3FQ5 _cell.length_a 24.612 _cell.length_b 31.257 _cell.length_c 31.962 _cell.angle_alpha 90.00 _cell.angle_beta 103.64 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _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 3FQ5 _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 _symmetry.space_group_name_Hall ? # _exptl.entry_id 3FQ5 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews ? _exptl_crystal.density_percent_sol ? _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 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.99 _exptl_crystal_grow.pdbx_details '50mM Sodium Cacodylate buffer, 10mM MnCl2, 1mM Spermine, 50% MPD, pH 6.99, VAPOR DIFFUSION, HANGING DROP, temperature 293K' _exptl_crystal_grow.pdbx_pH_range . # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 'Sodium Cacodylate' ? ? ? 1 2 1 MnCl2 ? ? ? 1 3 1 Spermine ? ? ? 1 4 1 MPD ? ? ? 1 5 2 'Sodium Cacodylate' ? ? ? 1 6 2 MnCl2 ? ? ? 1 7 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 293 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 2007-09-15 _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 Mirror _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 _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.5418 # _reflns.entry_id 3FQ5 _reflns.observed_criterion_sigma_I 1.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 15.0 _reflns.d_resolution_high 2.8 _reflns.number_obs 1179 _reflns.number_all 1241 _reflns.percent_possible_obs 95 _reflns.pdbx_Rmerge_I_obs 0.042 _reflns.pdbx_Rsym_value 0.042 _reflns.pdbx_netI_over_sigmaI 8.0 _reflns.B_iso_Wilson_estimate 42.5 _reflns.pdbx_redundancy 2.88 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.80 _reflns_shell.d_res_low 2.87 _reflns_shell.percent_possible_all 94.8 _reflns_shell.Rmerge_I_obs 0.129 _reflns_shell.pdbx_Rsym_value 0.1149 _reflns_shell.meanI_over_sigI_obs 3.3 _reflns_shell.pdbx_redundancy 3.25 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 72 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 3FQ5 _refine.ls_number_reflns_obs 1108 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 14.71 _refine.ls_d_res_high 2.80 _refine.ls_percent_reflns_obs 97.01 _refine.ls_R_factor_obs 0.16692 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.16485 _refine.ls_R_factor_R_free 0.20162 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.2 _refine.ls_number_reflns_R_free 61 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.974 _refine.correlation_coeff_Fo_to_Fc_free 0.939 _refine.B_iso_mean 12.018 _refine.aniso_B[1][1] 0.17 _refine.aniso_B[2][2] -0.15 _refine.aniso_B[3][3] -0.03 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] -0.01 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model Isotropic _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _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 0.388 _refine.overall_SU_ML 0.248 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 12.551 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_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_analyze.entry_id 3FQ5 _refine_analyze.Luzzati_coordinate_error_obs 0.327 _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_Luzzati_d_res_high_obs ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _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 480 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 12 _refine_hist.number_atoms_total 494 _refine_hist.d_res_high 2.80 _refine_hist.d_res_low 14.71 # 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 r_bond_refined_d 0.031 0.021 ? 536 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 4.456 3.000 ? 820 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_chiral_restr 0.152 0.200 ? 92 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.023 0.020 ? 252 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined 0.235 0.200 ? 196 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.341 0.200 ? 279 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.115 0.200 ? 14 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.294 0.200 ? 22 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.021 0.200 ? 1 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it 4.122 3.000 ? 793 'X-RAY DIFFRACTION' ? r_scangle_it 4.896 4.500 ? 820 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.800 _refine_ls_shell.d_res_low 2.870 _refine_ls_shell.number_reflns_R_work 77 _refine_ls_shell.R_factor_R_work 0.295 _refine_ls_shell.percent_reflns_obs 95.12 _refine_ls_shell.R_factor_R_free 0.202 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 1 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs 72 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 3FQ5 _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 3FQ5 _struct.title 'Crystal Structure of d(CACGCG).d(CGCGTG) with 10mM MnCl2' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag N _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3FQ5 _struct_keywords.pdbx_keywords DNA _struct_keywords.text '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 2 ? C N N 1 ? D N N 2 ? E N N 3 ? F N N 3 ? G N N 4 ? H N N 4 ? I N N 4 ? J N N 4 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 PDB 3FQ5 3FQ5 1 ? ? ? 2 PDB 3FQ5 3FQ5 2 ? ? ? # 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 3FQ5 A 1 ? 6 ? 3FQ5 1 ? 6 ? 1 6 2 1 3FQ5 C 1 ? 6 ? 3FQ5 1 ? 6 ? 1 6 3 2 3FQ5 B 1 ? 6 ? 3FQ5 7 ? 12 ? 7 12 4 2 3FQ5 D 1 ? 6 ? 3FQ5 7 ? 12 ? 7 12 # 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_and_software_defined_assembly PISA dimeric 2 2 author_and_software_defined_assembly PISA dimeric 2 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 650 ? 1 MORE -6 ? 1 'SSA (A^2)' 2320 ? 2 'ABSA (A^2)' 610 ? 2 MORE -5 ? 2 'SSA (A^2)' 2410 ? # 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,H 2 1 C,D,I,J # _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_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 ? ? F MN . MN ? ? ? 1_555 G HOH . O ? ? A MN 8 A HOH 10 1_555 ? ? ? ? ? ? ? 2.229 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 6 N1 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 6 O6 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 6 N2 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DA 2 N1 ? ? ? 1_555 B DT 5 N3 ? ? A DA 2 B DT 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DA 2 N6 ? ? ? 1_555 B DT 5 O4 ? ? A DA 2 B DT 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 4 B DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 5 B DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 6 B DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? C DC 1 N3 ? ? ? 1_555 D DG 6 N1 ? ? C DC 1 D DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? C DC 1 N4 ? ? ? 1_555 D DG 6 O6 ? ? C DC 1 D DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? C DC 1 O2 ? ? ? 1_555 D DG 6 N2 ? ? C DC 1 D DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? C DA 2 N1 ? ? ? 1_555 D DT 5 N3 ? ? C DA 2 D DT 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? C DA 2 N6 ? ? ? 1_555 D DT 5 O4 ? ? C DA 2 D DT 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? C DC 3 N3 ? ? ? 1_555 D DG 4 N1 ? ? C DC 3 D DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? C DC 3 N4 ? ? ? 1_555 D DG 4 O6 ? ? C DC 3 D DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? C DC 3 O2 ? ? ? 1_555 D DG 4 N2 ? ? C DC 3 D DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? C DG 4 N1 ? ? ? 1_555 D DC 3 N3 ? ? C DG 4 D DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C DG 4 N2 ? ? ? 1_555 D DC 3 O2 ? ? C DG 4 D DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C DG 4 O6 ? ? ? 1_555 D DC 3 N4 ? ? C DG 4 D DC 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? C DC 5 N3 ? ? ? 1_555 D DG 2 N1 ? ? C DC 5 D DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? C DC 5 N4 ? ? ? 1_555 D DG 2 O6 ? ? C DC 5 D DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? C DC 5 O2 ? ? ? 1_555 D DG 2 N2 ? ? C DC 5 D DG 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? C DG 6 N1 ? ? ? 1_555 D DC 1 N3 ? ? C DG 6 D DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? C DG 6 N2 ? ? ? 1_555 D DC 1 O2 ? ? C DG 6 D DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? C DG 6 O6 ? ? ? 1_555 D DC 1 N4 ? ? C DG 6 D DC 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? 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 MN 7 ? 3 'BINDING SITE FOR RESIDUE MN A 7' AC2 Software A MN 8 ? 2 'BINDING SITE FOR RESIDUE MN A 8' # 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 3 DA A 2 ? DA A 2 . ? 1_555 ? 2 AC1 3 HOH G . ? HOH A 9 . ? 1_555 ? 3 AC1 3 DG D 4 ? DG D 10 . ? 1_555 ? 4 AC2 2 DG A 4 ? DG A 4 . ? 1_555 ? 5 AC2 2 HOH G . ? HOH A 10 . ? 1_555 ? # 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 C4 A DC 1 ? ? C5 A DC 1 ? ? 1.372 1.425 -0.053 0.008 N 2 1 N3 A DA 2 ? ? C4 A DA 2 ? ? 1.308 1.344 -0.036 0.006 N 3 1 N7 A DA 2 ? ? C8 A DA 2 ? ? 1.362 1.311 0.051 0.007 N 4 1 "O3'" A DG 4 ? ? "C3'" A DG 4 ? ? 1.331 1.419 -0.088 0.006 N 5 1 N7 A DG 4 ? ? C8 A DG 4 ? ? 1.342 1.305 0.037 0.006 N 6 1 "O3'" A DC 5 ? ? "C3'" A DC 5 ? ? 1.352 1.419 -0.067 0.006 N 7 1 "O3'" A DG 6 ? ? "C3'" A DG 6 ? ? 1.344 1.419 -0.075 0.006 N 8 1 "C5'" B DC 7 ? ? "C4'" B DC 7 ? ? 1.555 1.512 0.043 0.007 N 9 1 N1 B DC 7 ? ? C6 B DC 7 ? ? 1.320 1.367 -0.047 0.006 N 10 1 C4 B DC 7 ? ? C5 B DC 7 ? ? 1.371 1.425 -0.054 0.008 N 11 1 N7 B DG 8 ? ? C8 B DG 8 ? ? 1.346 1.305 0.041 0.006 N 12 1 C8 B DG 8 ? ? N9 B DG 8 ? ? 1.424 1.374 0.050 0.007 N 13 1 "O3'" B DG 10 ? ? "C3'" B DG 10 ? ? 1.364 1.419 -0.055 0.006 N 14 1 N9 B DG 10 ? ? C4 B DG 10 ? ? 1.426 1.375 0.051 0.008 N 15 1 P B DT 11 ? ? "O5'" B DT 11 ? ? 1.668 1.593 0.075 0.010 N 16 1 "C1'" B DT 11 ? ? N1 B DT 11 ? ? 1.592 1.488 0.104 0.013 N 17 1 C6 B DG 12 ? ? N1 B DG 12 ? ? 1.320 1.391 -0.071 0.007 N 18 1 C5 B DG 12 ? ? N7 B DG 12 ? ? 1.445 1.388 0.057 0.006 N 19 1 N7 B DG 12 ? ? C8 B DG 12 ? ? 1.343 1.305 0.038 0.006 N 20 1 "O3'" C DC 1 ? ? P C DA 2 ? ? 1.689 1.607 0.082 0.012 Y 21 1 P C DA 2 ? ? "O5'" C DA 2 ? ? 1.655 1.593 0.062 0.010 N 22 1 "C1'" C DA 2 ? ? N9 C DA 2 ? ? 1.378 1.468 -0.090 0.014 N 23 1 C6 C DA 2 ? ? N1 C DA 2 ? ? 1.394 1.351 0.043 0.007 N 24 1 "O3'" C DA 2 ? ? P C DC 3 ? ? 1.850 1.607 0.243 0.012 Y 25 1 P C DC 3 ? ? "O5'" C DC 3 ? ? 1.661 1.593 0.068 0.010 N 26 1 C4 C DC 3 ? ? C5 C DC 3 ? ? 1.358 1.425 -0.067 0.008 N 27 1 N7 C DG 4 ? ? C8 C DG 4 ? ? 1.348 1.305 0.043 0.006 N 28 1 "O3'" C DC 5 ? ? "C3'" C DC 5 ? ? 1.309 1.419 -0.110 0.006 N 29 1 N1 C DC 5 ? ? C2 C DC 5 ? ? 1.329 1.397 -0.068 0.010 N 30 1 "O3'" C DG 6 ? ? "C3'" C DG 6 ? ? 1.346 1.419 -0.073 0.006 N 31 1 N7 C DG 6 ? ? C8 C DG 6 ? ? 1.369 1.305 0.064 0.006 N 32 1 N3 D DG 8 ? ? C4 D DG 8 ? ? 1.396 1.350 0.046 0.007 N 33 1 C6 D DG 8 ? ? N1 D DG 8 ? ? 1.438 1.391 0.047 0.007 N 34 1 "O3'" D DC 9 ? ? "C3'" D DC 9 ? ? 1.311 1.419 -0.108 0.006 N 35 1 C4 D DG 10 ? ? C5 D DG 10 ? ? 1.332 1.379 -0.047 0.007 N 36 1 "O3'" D DT 11 ? ? "C3'" D DT 11 ? ? 1.346 1.419 -0.073 0.006 N 37 1 C5 D DT 11 ? ? C6 D DT 11 ? ? 1.392 1.339 0.053 0.007 N 38 1 C6 D DT 11 ? ? N1 D DT 11 ? ? 1.422 1.378 0.044 0.007 N 39 1 C5 D DT 11 ? ? C7 D DT 11 ? ? 1.535 1.496 0.039 0.006 N 40 1 "O3'" D DG 12 ? ? "C3'" D DG 12 ? ? 1.360 1.419 -0.059 0.006 N 41 1 C4 D DG 12 ? ? C5 D DG 12 ? ? 1.303 1.379 -0.076 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 DC 1 ? ? "C1'" A DC 1 ? ? "C2'" A DC 1 ? ? 101.07 105.90 -4.83 0.80 N 2 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 102.85 108.00 -5.15 0.70 N 3 1 N3 A DC 1 ? ? C4 A DC 1 ? ? C5 A DC 1 ? ? 126.71 121.90 4.81 0.40 N 4 1 C4 A DC 1 ? ? C5 A DC 1 ? ? C6 A DC 1 ? ? 112.16 117.40 -5.24 0.50 N 5 1 C5 A DC 1 ? ? C6 A DC 1 ? ? N1 A DC 1 ? ? 125.02 121.00 4.02 0.50 N 6 1 N1 A DC 1 ? ? C2 A DC 1 ? ? O2 A DC 1 ? ? 114.80 118.90 -4.10 0.60 N 7 1 N3 A DC 1 ? ? C2 A DC 1 ? ? O2 A DC 1 ? ? 128.28 121.90 6.38 0.70 N 8 1 N3 A DC 1 ? ? C4 A DC 1 ? ? N4 A DC 1 ? ? 122.38 118.00 4.38 0.70 N 9 1 C5 A DC 1 ? ? C4 A DC 1 ? ? N4 A DC 1 ? ? 110.89 120.20 -9.31 0.70 N 10 1 "O3'" A DC 1 ? ? P A DA 2 ? ? "O5'" A DA 2 ? ? 84.52 104.00 -19.48 1.90 Y 11 1 "O5'" A DA 2 ? ? P A DA 2 ? ? OP1 A DA 2 ? ? 123.49 110.70 12.79 1.20 N 12 1 "O5'" A DA 2 ? ? P A DA 2 ? ? OP2 A DA 2 ? ? 96.90 105.70 -8.80 0.90 N 13 1 "O5'" A DA 2 ? ? "C5'" A DA 2 ? ? "C4'" A DA 2 ? ? 102.00 109.40 -7.40 0.80 N 14 1 "O4'" A DA 2 ? ? "C4'" A DA 2 ? ? "C3'" A DA 2 ? ? 96.27 104.50 -8.23 0.40 N 15 1 C5 A DA 2 ? ? C6 A DA 2 ? ? N6 A DA 2 ? ? 118.30 123.70 -5.40 0.80 N 16 1 "O3'" A DA 2 ? ? P A DC 3 ? ? "O5'" A DC 3 ? ? 119.04 104.00 15.04 1.90 Y 17 1 "O5'" A DC 3 ? ? P A DC 3 ? ? OP2 A DC 3 ? ? 98.21 105.70 -7.49 0.90 N 18 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 110.52 108.30 2.22 0.30 N 19 1 C2 A DC 3 ? ? N1 A DC 3 ? ? "C1'" A DC 3 ? ? 112.18 118.80 -6.62 1.10 N 20 1 "O5'" A DG 4 ? ? P A DG 4 ? ? OP2 A DG 4 ? ? 120.22 110.70 9.52 1.20 N 21 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 112.86 108.30 4.56 0.30 N 22 1 "C3'" A DG 4 ? ? "O3'" A DG 4 ? ? P A DC 5 ? ? 130.99 119.70 11.29 1.20 Y 23 1 "O3'" A DG 4 ? ? P A DC 5 ? ? "O5'" A DC 5 ? ? 117.05 104.00 13.05 1.90 Y 24 1 OP1 A DC 5 ? ? P A DC 5 ? ? OP2 A DC 5 ? ? 136.31 119.60 16.71 1.50 N 25 1 "O5'" A DC 5 ? ? P A DC 5 ? ? OP2 A DC 5 ? ? 96.24 105.70 -9.46 0.90 N 26 1 "C5'" A DG 6 ? ? "C4'" A DG 6 ? ? "O4'" A DG 6 ? ? 118.99 109.80 9.19 1.10 N 27 1 "C4'" A DG 6 ? ? "C3'" A DG 6 ? ? "C2'" A DG 6 ? ? 110.41 103.10 7.31 0.90 N 28 1 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? "C2'" A DG 6 ? ? 111.42 106.80 4.62 0.50 N 29 1 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 112.25 108.30 3.95 0.30 N 30 1 "C5'" B DC 7 ? ? "C4'" B DC 7 ? ? "C3'" B DC 7 ? ? 124.07 115.70 8.37 1.20 N 31 1 C6 B DC 7 ? ? N1 B DC 7 ? ? C2 B DC 7 ? ? 122.94 120.30 2.64 0.40 N 32 1 N1 B DC 7 ? ? C2 B DC 7 ? ? N3 B DC 7 ? ? 114.64 119.20 -4.56 0.70 N 33 1 N3 B DC 7 ? ? C2 B DC 7 ? ? O2 B DC 7 ? ? 126.74 121.90 4.84 0.70 N 34 1 "C5'" B DG 8 ? ? "C4'" B DG 8 ? ? "O4'" B DG 8 ? ? 118.18 109.80 8.38 1.10 N 35 1 N3 B DG 8 ? ? C4 B DG 8 ? ? C5 B DG 8 ? ? 131.80 128.60 3.20 0.50 N 36 1 C4 B DG 8 ? ? C5 B DG 8 ? ? N7 B DG 8 ? ? 116.52 110.80 5.72 0.40 N 37 1 C5 B DG 8 ? ? N7 B DG 8 ? ? C8 B DG 8 ? ? 95.95 104.30 -8.35 0.50 N 38 1 N7 B DG 8 ? ? C8 B DG 8 ? ? N9 B DG 8 ? ? 118.96 113.10 5.86 0.50 N 39 1 C6 B DG 8 ? ? C5 B DG 8 ? ? N7 B DG 8 ? ? 125.43 130.40 -4.97 0.60 N 40 1 N1 B DG 8 ? ? C6 B DG 8 ? ? O6 B DG 8 ? ? 124.85 119.90 4.95 0.60 N 41 1 C5 B DG 8 ? ? C6 B DG 8 ? ? O6 B DG 8 ? ? 124.84 128.60 -3.76 0.60 N 42 1 "O5'" B DC 9 ? ? "C5'" B DC 9 ? ? "C4'" B DC 9 ? ? 103.65 109.40 -5.75 0.80 N 43 1 "O4'" B DC 9 ? ? "C1'" B DC 9 ? ? N1 B DC 9 ? ? 98.75 108.00 -9.25 0.70 N 44 1 N3 B DC 9 ? ? C4 B DC 9 ? ? C5 B DC 9 ? ? 125.29 121.90 3.39 0.40 N 45 1 N1 B DC 9 ? ? C2 B DC 9 ? ? O2 B DC 9 ? ? 123.85 118.90 4.95 0.60 N 46 1 N3 B DC 9 ? ? C2 B DC 9 ? ? O2 B DC 9 ? ? 115.53 121.90 -6.37 0.70 N 47 1 N3 B DC 9 ? ? C4 B DC 9 ? ? N4 B DC 9 ? ? 108.95 118.00 -9.05 0.70 N 48 1 C5 B DC 9 ? ? C4 B DC 9 ? ? N4 B DC 9 ? ? 125.76 120.20 5.56 0.70 N 49 1 "O5'" B DG 10 ? ? "C5'" B DG 10 ? ? "C4'" B DG 10 ? ? 99.33 109.40 -10.07 0.80 N 50 1 "O4'" B DG 10 ? ? "C1'" B DG 10 ? ? N9 B DG 10 ? ? 111.74 108.30 3.44 0.30 N 51 1 C6 B DG 10 ? ? N1 B DG 10 ? ? C2 B DG 10 ? ? 121.06 125.10 -4.04 0.60 N 52 1 N3 B DG 10 ? ? C4 B DG 10 ? ? C5 B DG 10 ? ? 125.43 128.60 -3.17 0.50 N 53 1 C4 B DG 10 ? ? C5 B DG 10 ? ? N7 B DG 10 ? ? 107.34 110.80 -3.46 0.40 N 54 1 C5 B DG 10 ? ? N7 B DG 10 ? ? C8 B DG 10 ? ? 108.89 104.30 4.59 0.50 N 55 1 N7 B DG 10 ? ? C8 B DG 10 ? ? N9 B DG 10 ? ? 109.67 113.10 -3.43 0.50 N 56 1 N3 B DG 10 ? ? C2 B DG 10 ? ? N2 B DG 10 ? ? 114.29 119.90 -5.61 0.70 N 57 1 "O4'" B DT 11 ? ? "C1'" B DT 11 ? ? N1 B DT 11 ? ? 110.34 108.30 2.04 0.30 N 58 1 C4 B DT 11 ? ? C5 B DT 11 ? ? C6 B DT 11 ? ? 113.14 118.00 -4.86 0.60 N 59 1 C5 B DT 11 ? ? C6 B DT 11 ? ? N1 B DT 11 ? ? 129.03 123.70 5.33 0.60 N 60 1 C4 B DT 11 ? ? C5 B DT 11 ? ? C7 B DT 11 ? ? 125.83 119.00 6.83 0.60 N 61 1 C6 B DG 12 ? ? N1 B DG 12 ? ? C2 B DG 12 ? ? 121.47 125.10 -3.63 0.60 N 62 1 N1 B DG 12 ? ? C2 B DG 12 ? ? N3 B DG 12 ? ? 130.64 123.90 6.74 0.60 N 63 1 C2 B DG 12 ? ? N3 B DG 12 ? ? C4 B DG 12 ? ? 108.59 111.90 -3.31 0.50 N 64 1 N9 B DG 12 ? ? C4 B DG 12 ? ? C5 B DG 12 ? ? 109.28 105.40 3.88 0.40 N 65 1 N3 B DG 12 ? ? C2 B DG 12 ? ? N2 B DG 12 ? ? 113.65 119.90 -6.25 0.70 N 66 1 "C5'" C DC 1 ? ? "C4'" C DC 1 ? ? "O4'" C DC 1 ? ? 97.19 109.30 -12.11 1.90 N 67 1 "C3'" C DC 1 ? ? "C2'" C DC 1 ? ? "C1'" C DC 1 ? ? 90.87 102.40 -11.53 0.80 N 68 1 "O4'" C DC 1 ? ? "C1'" C DC 1 ? ? "C2'" C DC 1 ? ? 111.81 106.80 5.01 0.50 N 69 1 C6 C DC 1 ? ? N1 C DC 1 ? ? C2 C DC 1 ? ? 123.41 120.30 3.11 0.40 N 70 1 C2 C DC 1 ? ? N3 C DC 1 ? ? C4 C DC 1 ? ? 122.99 119.90 3.09 0.50 N 71 1 N3 C DC 1 ? ? C4 C DC 1 ? ? C5 C DC 1 ? ? 118.94 121.90 -2.96 0.40 N 72 1 N1 C DC 1 ? ? C2 C DC 1 ? ? O2 C DC 1 ? ? 124.99 118.90 6.09 0.60 N 73 1 OP1 C DA 2 ? ? P C DA 2 ? ? OP2 C DA 2 ? ? 130.42 119.60 10.82 1.50 N 74 1 "O5'" C DA 2 ? ? P C DA 2 ? ? OP1 C DA 2 ? ? 88.74 105.70 -16.96 0.90 N 75 1 "O4'" C DA 2 ? ? "C4'" C DA 2 ? ? "C3'" C DA 2 ? ? 98.29 104.50 -6.21 0.40 N 76 1 "C4'" C DA 2 ? ? "C3'" C DA 2 ? ? "C2'" C DA 2 ? ? 109.86 103.10 6.76 0.90 N 77 1 "O4'" C DA 2 ? ? "C1'" C DA 2 ? ? "C2'" C DA 2 ? ? 100.37 105.90 -5.53 0.80 N 78 1 N1 C DA 2 ? ? C2 C DA 2 ? ? N3 C DA 2 ? ? 122.61 129.30 -6.69 0.50 N 79 1 C2 C DA 2 ? ? N3 C DA 2 ? ? C4 C DA 2 ? ? 115.11 110.60 4.51 0.50 N 80 1 N1 C DA 2 ? ? C6 C DA 2 ? ? N6 C DA 2 ? ? 123.80 118.60 5.20 0.60 N 81 1 C5 C DA 2 ? ? C6 C DA 2 ? ? N6 C DA 2 ? ? 117.78 123.70 -5.92 0.80 N 82 1 "C3'" C DA 2 ? ? "O3'" C DA 2 ? ? P C DC 3 ? ? 104.54 119.70 -15.16 1.20 Y 83 1 "C3'" C DC 3 ? ? "C2'" C DC 3 ? ? "C1'" C DC 3 ? ? 94.97 102.40 -7.43 0.80 N 84 1 "O4'" C DC 3 ? ? "C1'" C DC 3 ? ? N1 C DC 3 ? ? 110.35 108.30 2.05 0.30 N 85 1 N3 C DC 3 ? ? C4 C DC 3 ? ? C5 C DC 3 ? ? 125.78 121.90 3.88 0.40 N 86 1 C4 C DC 3 ? ? C5 C DC 3 ? ? C6 C DC 3 ? ? 111.34 117.40 -6.06 0.50 N 87 1 C5 C DC 3 ? ? C6 C DC 3 ? ? N1 C DC 3 ? ? 124.80 121.00 3.80 0.50 N 88 1 C5 C DC 3 ? ? C4 C DC 3 ? ? N4 C DC 3 ? ? 115.74 120.20 -4.46 0.70 N 89 1 "O3'" C DC 3 ? ? P C DG 4 ? ? "O5'" C DG 4 ? ? 91.68 104.00 -12.32 1.90 Y 90 1 "O4'" C DG 4 ? ? "C1'" C DG 4 ? ? N9 C DG 4 ? ? 97.58 108.00 -10.42 0.70 N 91 1 N1 C DG 4 ? ? C2 C DG 4 ? ? N3 C DG 4 ? ? 120.19 123.90 -3.71 0.60 N 92 1 N3 C DG 4 ? ? C2 C DG 4 ? ? N2 C DG 4 ? ? 127.38 119.90 7.48 0.70 N 93 1 "O5'" C DC 5 ? ? P C DC 5 ? ? OP2 C DC 5 ? ? 99.37 105.70 -6.33 0.90 N 94 1 "O4'" C DC 5 ? ? "C1'" C DC 5 ? ? "C2'" C DC 5 ? ? 109.95 106.80 3.15 0.50 N 95 1 N3 C DC 5 ? ? C4 C DC 5 ? ? C5 C DC 5 ? ? 124.36 121.90 2.46 0.40 N 96 1 C4 C DC 5 ? ? C5 C DC 5 ? ? C6 C DC 5 ? ? 110.41 117.40 -6.99 0.50 N 97 1 C5 C DC 5 ? ? C6 C DC 5 ? ? N1 C DC 5 ? ? 126.49 121.00 5.49 0.50 N 98 1 N1 C DC 5 ? ? C2 C DC 5 ? ? O2 C DC 5 ? ? 112.66 118.90 -6.24 0.60 N 99 1 N3 C DC 5 ? ? C2 C DC 5 ? ? O2 C DC 5 ? ? 130.72 121.90 8.82 0.70 N 100 1 N3 C DC 5 ? ? C4 C DC 5 ? ? N4 C DC 5 ? ? 122.54 118.00 4.54 0.70 N 101 1 C5 C DC 5 ? ? C4 C DC 5 ? ? N4 C DC 5 ? ? 113.09 120.20 -7.11 0.70 N 102 1 "O3'" C DC 5 ? ? P C DG 6 ? ? "O5'" C DG 6 ? ? 92.01 104.00 -11.99 1.90 Y 103 1 "O3'" C DC 5 ? ? P C DG 6 ? ? OP1 C DG 6 ? ? 118.44 110.50 7.94 1.10 Y 104 1 "C1'" C DG 6 ? ? "O4'" C DG 6 ? ? "C4'" C DG 6 ? ? 114.52 110.30 4.22 0.70 N 105 1 C4 C DG 6 ? ? C5 C DG 6 ? ? C6 C DG 6 ? ? 122.42 118.80 3.62 0.60 N 106 1 C8 C DG 6 ? ? N9 C DG 6 ? ? C4 C DG 6 ? ? 102.60 106.40 -3.80 0.40 N 107 1 N9 C DG 6 ? ? C4 C DG 6 ? ? C5 C DG 6 ? ? 108.75 105.40 3.35 0.40 N 108 1 C6 C DG 6 ? ? C5 C DG 6 ? ? N7 C DG 6 ? ? 126.50 130.40 -3.90 0.60 N 109 1 "C1'" D DC 7 ? ? "O4'" D DC 7 ? ? "C4'" D DC 7 ? ? 102.73 110.10 -7.37 1.00 N 110 1 C4 D DC 7 ? ? C5 D DC 7 ? ? C6 D DC 7 ? ? 113.46 117.40 -3.94 0.50 N 111 1 C5 D DC 7 ? ? C6 D DC 7 ? ? N1 D DC 7 ? ? 125.59 121.00 4.59 0.50 N 112 1 N1 D DC 7 ? ? C2 D DC 7 ? ? O2 D DC 7 ? ? 125.51 118.90 6.61 0.60 N 113 1 C2 D DC 7 ? ? N1 D DC 7 ? ? "C1'" D DC 7 ? ? 125.66 118.80 6.86 1.10 N 114 1 "O5'" D DG 8 ? ? P D DG 8 ? ? OP1 D DG 8 ? ? 119.68 110.70 8.98 1.20 N 115 1 "O5'" D DG 8 ? ? P D DG 8 ? ? OP2 D DG 8 ? ? 99.80 105.70 -5.90 0.90 N 116 1 "O5'" D DG 8 ? ? "C5'" D DG 8 ? ? "C4'" D DG 8 ? ? 102.83 109.40 -6.57 0.80 N 117 1 "O4'" D DG 8 ? ? "C1'" D DG 8 ? ? N9 D DG 8 ? ? 103.78 108.00 -4.22 0.70 N 118 1 C2 D DG 8 ? ? N3 D DG 8 ? ? C4 D DG 8 ? ? 115.60 111.90 3.70 0.50 N 119 1 C5 D DG 8 ? ? C6 D DG 8 ? ? N1 D DG 8 ? ? 115.95 111.50 4.45 0.50 N 120 1 C5 D DG 8 ? ? C6 D DG 8 ? ? O6 D DG 8 ? ? 123.61 128.60 -4.99 0.60 N 121 1 "C3'" D DG 8 ? ? "O3'" D DG 8 ? ? P D DC 9 ? ? 131.19 119.70 11.49 1.20 Y 122 1 "O3'" D DG 8 ? ? P D DC 9 ? ? "O5'" D DC 9 ? ? 119.23 104.00 15.23 1.90 Y 123 1 OP1 D DC 9 ? ? P D DC 9 ? ? OP2 D DC 9 ? ? 130.97 119.60 11.37 1.50 N 124 1 "O5'" D DC 9 ? ? P D DC 9 ? ? OP2 D DC 9 ? ? 98.69 105.70 -7.01 0.90 N 125 1 "C3'" D DC 9 ? ? "O3'" D DC 9 ? ? P D DG 10 ? ? 127.95 119.70 8.25 1.20 Y 126 1 "O5'" D DG 10 ? ? "C5'" D DG 10 ? ? "C4'" D DG 10 ? ? 101.95 109.40 -7.45 0.80 N 127 1 "C1'" D DG 10 ? ? "O4'" D DG 10 ? ? "C4'" D DG 10 ? ? 102.09 110.10 -8.01 1.00 N 128 1 N7 D DG 10 ? ? C8 D DG 10 ? ? N9 D DG 10 ? ? 108.62 113.10 -4.48 0.50 N 129 1 C8 D DG 10 ? ? N9 D DG 10 ? ? C4 D DG 10 ? ? 109.17 106.40 2.77 0.40 N 130 1 "O4'" D DT 11 ? ? "C4'" D DT 11 ? ? "C3'" D DT 11 ? ? 102.07 104.50 -2.43 0.40 N 131 1 "O4'" D DT 11 ? ? "C1'" D DT 11 ? ? "C2'" D DT 11 ? ? 101.09 105.90 -4.81 0.80 N 132 1 C5 D DT 11 ? ? C4 D DT 11 ? ? O4 D DT 11 ? ? 120.68 124.90 -4.22 0.70 N 133 1 C4 D DT 11 ? ? C5 D DT 11 ? ? C7 D DT 11 ? ? 113.03 119.00 -5.97 0.60 N 134 1 C6 D DT 11 ? ? C5 D DT 11 ? ? C7 D DT 11 ? ? 130.44 122.90 7.54 0.60 N 135 1 "O5'" D DG 12 ? ? "C5'" D DG 12 ? ? "C4'" D DG 12 ? ? 102.62 109.40 -6.78 0.80 N 136 1 "C2'" D DG 12 ? ? "C3'" D DG 12 ? ? "O3'" D DG 12 ? ? 93.32 109.40 -16.08 2.50 N 137 1 "O4'" D DG 12 ? ? "C1'" D DG 12 ? ? N9 D DG 12 ? ? 111.24 108.30 2.94 0.30 N 138 1 C2 D DG 12 ? ? N3 D DG 12 ? ? C4 D DG 12 ? ? 117.18 111.90 5.28 0.50 N 139 1 N7 D DG 12 ? ? C8 D DG 12 ? ? N9 D DG 12 ? ? 110.09 113.10 -3.01 0.50 N 140 1 C6 D DG 12 ? ? C5 D DG 12 ? ? N7 D DG 12 ? ? 134.38 130.40 3.98 0.60 N 141 1 N1 D DG 12 ? ? C2 D DG 12 ? ? N2 D DG 12 ? ? 123.26 116.20 7.06 0.90 N # _pdbx_validate_polymer_linkage.id 1 _pdbx_validate_polymer_linkage.PDB_model_num 1 _pdbx_validate_polymer_linkage.auth_atom_id_1 "O3'" _pdbx_validate_polymer_linkage.auth_asym_id_1 C _pdbx_validate_polymer_linkage.auth_comp_id_1 DA _pdbx_validate_polymer_linkage.auth_seq_id_1 2 _pdbx_validate_polymer_linkage.PDB_ins_code_1 ? _pdbx_validate_polymer_linkage.label_alt_id_1 ? _pdbx_validate_polymer_linkage.auth_atom_id_2 P _pdbx_validate_polymer_linkage.auth_asym_id_2 C _pdbx_validate_polymer_linkage.auth_comp_id_2 DC _pdbx_validate_polymer_linkage.auth_seq_id_2 3 _pdbx_validate_polymer_linkage.PDB_ins_code_2 ? _pdbx_validate_polymer_linkage.label_alt_id_2 ? _pdbx_validate_polymer_linkage.dist 1.85 # 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 DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 HOH O O N N 144 HOH H1 H N N 145 HOH H2 H N N 146 MN MN MN 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 3FQ5 'double helix' 3FQ5 'z-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DC 1 1_555 B DG 6 1_555 -0.518 -0.224 0.114 3.089 2.311 2.831 1 A_DC1:DG12_B A 1 ? B 12 ? 19 1 1 A DA 2 1_555 B DT 5 1_555 0.542 -0.492 0.232 -0.782 -9.123 -0.295 2 A_DA2:DT11_B A 2 ? B 11 ? 20 1 1 A DC 3 1_555 B DG 4 1_555 0.003 -0.139 -0.046 7.837 -5.768 -0.534 3 A_DC3:DG10_B A 3 ? B 10 ? 19 1 1 A DG 4 1_555 B DC 3 1_555 0.853 -0.170 0.581 0.265 2.889 2.527 4 A_DG4:DC9_B A 4 ? B 9 ? 19 1 1 A DC 5 1_555 B DG 2 1_555 -0.739 -0.351 0.158 -1.250 4.426 4.872 5 A_DC5:DG8_B A 5 ? B 8 ? 19 1 1 A DG 6 1_555 B DC 1 1_555 0.047 -0.222 0.283 1.482 1.526 2.530 6 A_DG6:DC7_B A 6 ? B 7 ? 19 1 1 C DC 1 1_555 D DG 6 1_555 -0.665 0.035 -0.030 6.402 3.940 1.930 7 C_DC1:DG12_D C 1 ? D 12 ? 19 1 1 C DA 2 1_555 D DT 5 1_555 -0.081 -0.286 0.165 -3.531 -3.126 11.666 8 C_DA2:DT11_D C 2 ? D 11 ? 20 1 1 C DC 3 1_555 D DG 4 1_555 0.259 -0.235 0.353 4.352 -3.322 3.178 9 C_DC3:DG10_D C 3 ? D 10 ? 19 1 1 C DG 4 1_555 D DC 3 1_555 0.535 -0.085 0.515 0.207 -0.200 1.261 10 C_DG4:DC9_D C 4 ? D 9 ? 19 1 1 C DG 6 1_555 D DC 1 1_555 0.367 -0.286 0.776 -0.231 -2.839 4.414 11 C_DG6:DC7_D C 6 ? D 7 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DC 1 1_555 B DG 6 1_555 A DA 2 1_555 B DT 5 1_555 -0.393 4.970 3.719 -3.454 -4.514 -3.503 -9.075 -29.083 5.108 46.362 -35.476 -6.676 1 AA_DC1DA2:DT11DG12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A DA 2 1_555 B DT 5 1_555 A DC 3 1_555 B DG 4 1_555 -0.409 -1.091 3.363 1.076 0.336 -43.311 1.443 -0.446 3.380 -0.455 1.458 -43.325 2 AA_DA2DC3:DG10DT11_BB A 2 ? B 11 ? A 3 ? B 10 ? 1 A DC 3 1_555 B DG 4 1_555 A DG 4 1_555 B DC 3 1_555 0.591 5.406 3.905 -2.275 -1.855 -7.833 -30.075 -4.528 5.015 12.992 -15.939 -8.364 3 AA_DC3DG4:DC9DG10_BB A 3 ? B 10 ? A 4 ? B 9 ? 1 A DG 4 1_555 B DC 3 1_555 A DC 5 1_555 B DG 2 1_555 0.298 -0.964 3.544 4.264 -2.010 -56.298 1.141 0.573 3.481 2.126 4.510 -56.479 4 AA_DG4DC5:DG8DC9_BB A 4 ? B 9 ? A 5 ? B 8 ? 1 A DC 5 1_555 B DG 2 1_555 A DG 6 1_555 B DC 1 1_555 -0.203 5.514 3.576 -3.411 0.736 -10.849 -28.862 -6.078 2.990 -3.766 -17.460 -11.395 5 AA_DC5DG6:DC7DG8_BB A 5 ? B 8 ? A 6 ? B 7 ? 1 C DC 1 1_555 D DG 6 1_555 C DA 2 1_555 D DT 5 1_555 -0.062 5.410 3.851 0.222 -1.182 -9.366 -29.684 0.222 4.497 7.197 1.353 -9.443 6 CC_DC1DA2:DT11DG12_DD C 1 ? D 12 ? C 2 ? D 11 ? 1 C DA 2 1_555 D DT 5 1_555 C DC 3 1_555 D DG 4 1_555 -0.148 -1.187 3.358 -1.367 -2.137 -43.558 1.806 -0.332 3.293 2.877 -1.840 -43.629 7 CC_DA2DC3:DG10DT11_DD C 2 ? D 11 ? C 3 ? D 10 ? 1 C DC 3 1_555 D DG 4 1_555 C DG 4 1_555 D DC 3 1_555 0.297 5.386 3.904 -1.394 -1.643 -8.728 -29.214 -2.473 4.819 10.582 -8.982 -8.990 8 CC_DC3DG4:DC9DG10_DD C 3 ? D 10 ? C 4 ? D 9 ? # _atom_sites.entry_id 3FQ5 _atom_sites.fract_transf_matrix[1][1] 0.040631 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.009860 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.031993 _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] 0.032195 _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 MN N O P # loop_