data_5VR4 # _entry.id 5VR4 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.379 _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 5VR4 pdb_00005vr4 10.2210/pdb5vr4/pdb WWPDB D_1000227191 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 5VR4 _pdbx_database_status.recvd_initial_deposition_date 2017-05-10 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _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_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Harp, J.M.' 1 0000-0002-9116-5606 'Egli, M.' 2 0000-0003-4145-356X # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'J. Am. Chem. Soc.' _citation.journal_id_ASTM JACSAT _citation.journal_id_CSD ? _citation.journal_id_ISSN 1520-5126 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 139 _citation.language ? _citation.page_first 14542 _citation.page_last 14555 _citation.title ;4'-C-Methoxy-2'-deoxy-2'-fluoro Modified Ribonucleotides Improve Metabolic Stability and Elicit Efficient RNAi-Mediated Gene Silencing. ; _citation.year 2017 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/jacs.7b07582 _citation.pdbx_database_id_PubMed 28937776 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Malek-Adamian, E.' 1 ? primary 'Guenther, D.C.' 2 ? primary 'Matsuda, S.' 3 ? primary 'Martinez-Montero, S.' 4 ? primary 'Zlatev, I.' 5 ? primary 'Harp, J.' 6 ? primary 'Burai Patrascu, M.' 7 ? primary 'Foster, D.J.' 8 ? primary 'Fakhoury, J.' 9 ? primary 'Perkins, L.' 10 ? primary 'Moitessier, N.' 11 ? primary 'Manoharan, R.M.' 12 ? primary 'Taneja, N.' 13 ? primary 'Bisbe, A.' 14 ? primary 'Charisse, K.' 15 ? primary 'Maier, M.' 16 ? primary 'Rajeev, K.G.' 17 ? primary 'Egli, M.' 18 ? primary 'Manoharan, M.' 19 ? primary 'Damha, M.J.' 20 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 5VR4 _cell.details ? _cell.formula_units_Z ? _cell.length_a 44.387 _cell.length_a_esd ? _cell.length_b 44.387 _cell.length_b_esd ? _cell.length_c 85.921 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 32 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VR4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' _symmetry.pdbx_full_space_group_name_H-M ? # 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 ;RNA (5'-R(*CP*GP*AP*AP*(UMO)P*UP*CP*G)-3') ; 2558.578 4 ? ? ? ? 2 non-polymer syn 'COBALT TETRAAMMINE ION' 127.055 1 ? ? ? ? 3 water nat water 18.015 137 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'CGAA(UMO)UCG' _entity_poly.pdbx_seq_one_letter_code_can CGAAXUCG _entity_poly.pdbx_strand_id A,B,C,D _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 C n 1 2 G n 1 3 A n 1 4 A n 1 5 UMO n 1 6 U n 1 7 C n 1 8 G n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 8 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 5VR4 _struct_ref.pdbx_db_accession 5VR4 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # 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 5VR4 A 1 ? 8 ? 5VR4 101 ? 108 ? 101 108 2 1 5VR4 B 1 ? 8 ? 5VR4 209 ? 216 ? 209 216 3 1 5VR4 C 1 ? 8 ? 5VR4 101 ? 108 ? 101 108 4 1 5VR4 D 1 ? 8 ? 5VR4 209 ? 216 ? 209 216 # 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 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 CON non-polymer . 'COBALT TETRAAMMINE ION' ? 'Co H12 N4 3' 127.055 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 UMO non-polymer n ;2'-F-4'-OMe U ; ;[(2~{R},3~{R},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-4-fluoranyl-2-methoxy-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate ; 'C10 H14 F N2 O9 P' 356.198 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 5VR4 _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 2.08 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 40.51 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 6.6 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details 'Room temperature' _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;0.5 mM RNA, 10 mM Cobalt(III) hexamine, 6 mM sodium chloride, 40 mM potassium chloride, 5% MPD, 20 mM sodium cacodylate equilibrated against reservoir containing 40% MPD ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? # _diffrn_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'MARMOSAIC 300 mm CCD' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2015-07-01 # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97856 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'APS BEAMLINE 22-ID' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.97856 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 22-ID _diffrn_source.pdbx_synchrotron_site APS # _reflns.B_iso_Wilson_estimate 25.4 _reflns.entry_id 5VR4 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.50 _reflns.d_resolution_low 30.0 _reflns.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.number_all ? _reflns.number_obs 26152 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 99.6 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 7.3 _reflns.pdbx_Rmerge_I_obs 0.067 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 21.05 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all 0.027 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 1.50 _reflns_shell.d_res_low 1.53 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 2.73 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs ? _reflns_shell.percent_possible_all 100.0 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.795 _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy 7.3 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all 0.317 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.943 _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean ? _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 5VR4 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 1.50 _refine.ls_d_res_low 29.481 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 26152 _refine.ls_number_reflns_R_free 1375 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.96 _refine.ls_percent_reflns_R_free 5.26 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1890 _refine.ls_R_factor_R_free 0.2425 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1861 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.17 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 3P4A _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 24.16 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.19 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _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 676 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.number_atoms_solvent 137 _refine_hist.number_atoms_total 816 _refine_hist.d_res_high 1.50 _refine_hist.d_res_low 29.481 # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.009 ? 754 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.804 ? 1169 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 8.223 ? 336 ? f_dihedral_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.072 ? 152 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.037 ? 36 ? f_plane_restr ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 1.4971 1.5506 . . 133 2452 98.00 . . . 0.3200 . 0.2448 . . . . . . . . . . 'X-RAY DIFFRACTION' 1.5506 1.6127 . . 142 2481 99.00 . . . 0.2598 . 0.2101 . . . . . . . . . . 'X-RAY DIFFRACTION' 1.6127 1.6860 . . 133 2495 99.00 . . . 0.2514 . 0.1974 . . . . . . . . . . 'X-RAY DIFFRACTION' 1.6860 1.7749 . . 108 2518 99.00 . . . 0.2631 . 0.1703 . . . . . . . . . . 'X-RAY DIFFRACTION' 1.7749 1.8861 . . 156 2444 100.00 . . . 0.2039 . 0.1718 . . . . . . . . . . 'X-RAY DIFFRACTION' 1.8861 2.0317 . . 159 2503 100.00 . . . 0.2204 . 0.1716 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.0317 2.2361 . . 148 2482 100.00 . . . 0.2692 . 0.1708 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.2361 2.5595 . . 124 2495 100.00 . . . 0.2679 . 0.1932 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.5595 3.2241 . . 151 2473 99.00 . . . 0.2415 . 0.1897 . . . . . . . . . . 'X-RAY DIFFRACTION' 3.2241 29.4867 . . 121 2434 97.00 . . . 0.2256 . 0.1864 . . . . . . . . . . # _struct.entry_id 5VR4 _struct.title ;RNA octamer containing 2'-F-4'-OMe U. ; _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 5VR4 _struct_keywords.text RNA _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 1 ? D N N 1 ? E N N 2 ? F N N 3 ? G N N 3 ? H N N 3 ? I N N 3 ? # 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 A 4 "O3'" ? ? ? 1_555 A UMO 5 P ? ? A A 104 A UMO 105 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale2 covale one ? A UMO 5 "O3'" ? ? ? 1_555 A U 6 P ? ? A UMO 105 A U 106 1_555 ? ? ? ? ? ? ? 1.616 ? ? covale3 covale both ? B A 4 "O3'" ? ? ? 1_555 B UMO 5 P ? ? B A 212 B UMO 213 1_555 ? ? ? ? ? ? ? 1.608 ? ? covale4 covale one ? B UMO 5 "O3'" ? ? ? 1_555 B U 6 P ? ? B UMO 213 B U 214 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale5 covale both ? C A 4 "O3'" ? ? ? 1_555 C UMO 5 P ? ? C A 104 C UMO 105 1_555 ? ? ? ? ? ? ? 1.611 ? ? covale6 covale one ? C UMO 5 "O3'" ? ? ? 1_555 C U 6 P ? ? C UMO 105 C U 106 1_555 ? ? ? ? ? ? ? 1.619 ? ? covale7 covale both ? D A 4 "O3'" ? ? ? 1_555 D UMO 5 P ? ? D A 212 D UMO 213 1_555 ? ? ? ? ? ? ? 1.622 ? ? covale8 covale one ? D UMO 5 "O3'" ? ? ? 1_555 D U 6 P ? ? D UMO 213 D U 214 1_555 ? ? ? ? ? ? ? 1.612 ? ? hydrog1 hydrog ? ? A C 1 N3 ? ? ? 1_555 B G 8 N1 ? ? A C 101 B G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 1 N4 ? ? ? 1_555 B G 8 O6 ? ? A C 101 B G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 1 O2 ? ? ? 1_555 B G 8 N2 ? ? A C 101 B G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 B C 7 N3 ? ? A G 102 B C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 B C 7 O2 ? ? A G 102 B C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 B C 7 N4 ? ? A G 102 B C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 3 N1 ? ? ? 1_555 B U 6 N3 ? ? A A 103 B U 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 3 N6 ? ? ? 1_555 B U 6 O4 ? ? A A 103 B U 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A A 4 N1 ? ? ? 1_555 B UMO 5 N3 ? ? A A 104 B UMO 213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A A 4 N6 ? ? ? 1_555 B UMO 5 O4 ? ? A A 104 B UMO 213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A UMO 5 N3 ? ? ? 1_555 B A 4 N1 ? ? A UMO 105 B A 212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A UMO 5 O4 ? ? ? 1_555 B A 4 N6 ? ? A UMO 105 B A 212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A U 6 N3 ? ? ? 1_555 B A 3 N1 ? ? A U 106 B A 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A U 6 O4 ? ? ? 1_555 B A 3 N6 ? ? A U 106 B A 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 2 N1 ? ? A C 107 B G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 2 O6 ? ? A C 107 B G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 2 N2 ? ? A C 107 B G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 8 N1 ? ? ? 1_555 B C 1 N3 ? ? A G 108 B C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 8 N2 ? ? ? 1_555 B C 1 O2 ? ? A G 108 B C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A G 8 O6 ? ? ? 1_555 B C 1 N4 ? ? A G 108 B C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? C C 1 N3 ? ? ? 1_555 D G 8 N1 ? ? C C 101 D G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? C C 1 N4 ? ? ? 1_555 D G 8 O6 ? ? C C 101 D G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? C C 1 O2 ? ? ? 1_555 D G 8 N2 ? ? C C 101 D G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? C G 2 N1 ? ? ? 1_555 D C 7 N3 ? ? C G 102 D C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? C G 2 N2 ? ? ? 1_555 D C 7 O2 ? ? C G 102 D C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? C G 2 O6 ? ? ? 1_555 D C 7 N4 ? ? C G 102 D C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C A 3 N1 ? ? ? 1_555 D U 6 N3 ? ? C A 103 D U 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C A 3 N6 ? ? ? 1_555 D U 6 O4 ? ? C A 103 D U 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? C A 4 N1 ? ? ? 1_555 D UMO 5 N3 ? ? C A 104 D UMO 213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? C A 4 N6 ? ? ? 1_555 D UMO 5 O4 ? ? C A 104 D UMO 213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? C UMO 5 N3 ? ? ? 1_555 D A 4 N1 ? ? C UMO 105 D A 212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? C UMO 5 O4 ? ? ? 1_555 D A 4 N6 ? ? C UMO 105 D A 212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? C U 6 N3 ? ? ? 1_555 D A 3 N1 ? ? C U 106 D A 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? C U 6 O4 ? ? ? 1_555 D A 3 N6 ? ? C U 106 D A 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? C C 7 N3 ? ? ? 1_555 D G 2 N1 ? ? C C 107 D G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? C C 7 N4 ? ? ? 1_555 D G 2 O6 ? ? C C 107 D G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? C C 7 O2 ? ? ? 1_555 D G 2 N2 ? ? C C 107 D G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? C G 8 N1 ? ? ? 1_555 D C 1 N3 ? ? C G 108 D C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? C G 8 N2 ? ? ? 1_555 D C 1 O2 ? ? C G 108 D C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? C G 8 O6 ? ? ? 1_555 D C 1 N4 ? ? C G 108 D C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id C _struct_site.pdbx_auth_comp_id CON _struct_site.pdbx_auth_seq_id 201 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 1 _struct_site.details 'binding site for residue CON C 201' # _struct_site_gen.id 1 _struct_site_gen.site_id AC1 _struct_site_gen.pdbx_num_res 1 _struct_site_gen.label_comp_id A _struct_site_gen.label_asym_id C _struct_site_gen.label_seq_id 3 _struct_site_gen.pdbx_auth_ins_code ? _struct_site_gen.auth_comp_id A _struct_site_gen.auth_asym_id C _struct_site_gen.auth_seq_id 103 _struct_site_gen.label_atom_id . _struct_site_gen.label_alt_id ? _struct_site_gen.symmetry 1_555 _struct_site_gen.details ? # _atom_sites.entry_id 5VR4 _atom_sites.fract_transf_matrix[1][1] 0.022529 _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] 0.022529 _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] 0.011639 _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 CO F H N O P # 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 C 1 101 101 C C A . n A 1 2 G 2 102 102 G G A . n A 1 3 A 3 103 103 A A A . n A 1 4 A 4 104 104 A A A . n A 1 5 UMO 5 105 105 UMO UMO A . n A 1 6 U 6 106 106 U U A . n A 1 7 C 7 107 107 C C A . n A 1 8 G 8 108 108 G G A . n B 1 1 C 1 209 209 C C B . n B 1 2 G 2 210 210 G G B . n B 1 3 A 3 211 211 A A B . n B 1 4 A 4 212 212 A A B . n B 1 5 UMO 5 213 213 UMO UMO B . n B 1 6 U 6 214 214 U U B . n B 1 7 C 7 215 215 C C B . n B 1 8 G 8 216 216 G G B . n C 1 1 C 1 101 101 C C C . n C 1 2 G 2 102 102 G G C . n C 1 3 A 3 103 103 A A C . n C 1 4 A 4 104 104 A A C . n C 1 5 UMO 5 105 105 UMO UMO C . n C 1 6 U 6 106 106 U U C . n C 1 7 C 7 107 107 C C C . n C 1 8 G 8 108 108 G G C . n D 1 1 C 1 209 209 C C D . n D 1 2 G 2 210 210 G G D . n D 1 3 A 3 211 211 A A D . n D 1 4 A 4 212 212 A A D . n D 1 5 UMO 5 213 213 UMO UMO D . n D 1 6 U 6 214 214 U U D . n D 1 7 C 7 215 215 C C D . n D 1 8 G 8 216 216 G G D . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code E 2 CON 1 201 1 CON NCO C . F 3 HOH 1 201 133 HOH HOH A . F 3 HOH 2 202 81 HOH HOH A . F 3 HOH 3 203 2 HOH HOH A . F 3 HOH 4 204 35 HOH HOH A . F 3 HOH 5 205 42 HOH HOH A . F 3 HOH 6 206 25 HOH HOH A . F 3 HOH 7 207 62 HOH HOH A . F 3 HOH 8 208 105 HOH HOH A . F 3 HOH 9 209 117 HOH HOH A . F 3 HOH 10 210 106 HOH HOH A . F 3 HOH 11 211 23 HOH HOH A . F 3 HOH 12 212 132 HOH HOH A . F 3 HOH 13 213 80 HOH HOH A . F 3 HOH 14 214 76 HOH HOH A . F 3 HOH 15 215 125 HOH HOH A . F 3 HOH 16 216 51 HOH HOH A . F 3 HOH 17 217 1 HOH HOH A . F 3 HOH 18 218 68 HOH HOH A . F 3 HOH 19 219 128 HOH HOH A . F 3 HOH 20 220 28 HOH HOH A . F 3 HOH 21 221 10 HOH HOH A . F 3 HOH 22 222 49 HOH HOH A . F 3 HOH 23 223 46 HOH HOH A . F 3 HOH 24 224 39 HOH HOH A . F 3 HOH 25 225 115 HOH HOH A . F 3 HOH 26 226 78 HOH HOH A . F 3 HOH 27 227 119 HOH HOH A . F 3 HOH 28 228 118 HOH HOH A . F 3 HOH 29 229 134 HOH HOH A . F 3 HOH 30 230 101 HOH HOH A . F 3 HOH 31 231 107 HOH HOH A . G 3 HOH 1 301 114 HOH HOH B . G 3 HOH 2 302 32 HOH HOH B . G 3 HOH 3 303 5 HOH HOH B . G 3 HOH 4 304 43 HOH HOH B . G 3 HOH 5 305 83 HOH HOH B . G 3 HOH 6 306 61 HOH HOH B . G 3 HOH 7 307 22 HOH HOH B . G 3 HOH 8 308 13 HOH HOH B . G 3 HOH 9 309 7 HOH HOH B . G 3 HOH 10 310 130 HOH HOH B . G 3 HOH 11 311 44 HOH HOH B . G 3 HOH 12 312 45 HOH HOH B . G 3 HOH 13 313 79 HOH HOH B . G 3 HOH 14 314 92 HOH HOH B . G 3 HOH 15 315 122 HOH HOH B . G 3 HOH 16 316 56 HOH HOH B . G 3 HOH 17 317 129 HOH HOH B . G 3 HOH 18 318 103 HOH HOH B . G 3 HOH 19 319 21 HOH HOH B . G 3 HOH 20 320 75 HOH HOH B . G 3 HOH 21 321 93 HOH HOH B . G 3 HOH 22 322 104 HOH HOH B . G 3 HOH 23 323 41 HOH HOH B . G 3 HOH 24 324 67 HOH HOH B . G 3 HOH 25 325 89 HOH HOH B . G 3 HOH 26 326 91 HOH HOH B . G 3 HOH 27 327 90 HOH HOH B . G 3 HOH 28 328 121 HOH HOH B . G 3 HOH 29 329 58 HOH HOH B . G 3 HOH 30 330 48 HOH HOH B . G 3 HOH 31 331 100 HOH HOH B . G 3 HOH 32 332 97 HOH HOH B . G 3 HOH 33 333 123 HOH HOH B . G 3 HOH 34 334 77 HOH HOH B . H 3 HOH 1 301 112 HOH HOH C . H 3 HOH 2 302 71 HOH HOH C . H 3 HOH 3 303 26 HOH HOH C . H 3 HOH 4 304 94 HOH HOH C . H 3 HOH 5 305 87 HOH HOH C . H 3 HOH 6 306 64 HOH HOH C . H 3 HOH 7 307 30 HOH HOH C . H 3 HOH 8 308 14 HOH HOH C . H 3 HOH 9 309 37 HOH HOH C . H 3 HOH 10 310 55 HOH HOH C . H 3 HOH 11 311 47 HOH HOH C . H 3 HOH 12 312 19 HOH HOH C . H 3 HOH 13 313 8 HOH HOH C . H 3 HOH 14 314 11 HOH HOH C . H 3 HOH 15 315 16 HOH HOH C . H 3 HOH 16 316 82 HOH HOH C . H 3 HOH 17 317 4 HOH HOH C . H 3 HOH 18 318 6 HOH HOH C . H 3 HOH 19 319 66 HOH HOH C . H 3 HOH 20 320 53 HOH HOH C . H 3 HOH 21 321 126 HOH HOH C . H 3 HOH 22 322 17 HOH HOH C . H 3 HOH 23 323 18 HOH HOH C . H 3 HOH 24 324 137 HOH HOH C . H 3 HOH 25 325 124 HOH HOH C . H 3 HOH 26 326 73 HOH HOH C . H 3 HOH 27 327 24 HOH HOH C . H 3 HOH 28 328 50 HOH HOH C . H 3 HOH 29 329 108 HOH HOH C . H 3 HOH 30 330 20 HOH HOH C . H 3 HOH 31 331 127 HOH HOH C . H 3 HOH 32 332 136 HOH HOH C . H 3 HOH 33 333 109 HOH HOH C . H 3 HOH 34 334 110 HOH HOH C . H 3 HOH 35 335 98 HOH HOH C . H 3 HOH 36 336 95 HOH HOH C . I 3 HOH 1 301 120 HOH HOH D . I 3 HOH 2 302 52 HOH HOH D . I 3 HOH 3 303 99 HOH HOH D . I 3 HOH 4 304 15 HOH HOH D . I 3 HOH 5 305 36 HOH HOH D . I 3 HOH 6 306 63 HOH HOH D . I 3 HOH 7 307 29 HOH HOH D . I 3 HOH 8 308 31 HOH HOH D . I 3 HOH 9 309 60 HOH HOH D . I 3 HOH 10 310 34 HOH HOH D . I 3 HOH 11 311 111 HOH HOH D . I 3 HOH 12 312 74 HOH HOH D . I 3 HOH 13 313 88 HOH HOH D . I 3 HOH 14 314 9 HOH HOH D . I 3 HOH 15 315 12 HOH HOH D . I 3 HOH 16 316 54 HOH HOH D . I 3 HOH 17 317 69 HOH HOH D . I 3 HOH 18 318 27 HOH HOH D . I 3 HOH 19 319 65 HOH HOH D . I 3 HOH 20 320 96 HOH HOH D . I 3 HOH 21 321 3 HOH HOH D . I 3 HOH 22 322 102 HOH HOH D . I 3 HOH 23 323 40 HOH HOH D . I 3 HOH 24 324 57 HOH HOH D . I 3 HOH 25 325 38 HOH HOH D . I 3 HOH 26 326 33 HOH HOH D . I 3 HOH 27 327 70 HOH HOH D . I 3 HOH 28 328 116 HOH HOH D . I 3 HOH 29 329 59 HOH HOH D . I 3 HOH 30 330 84 HOH HOH D . I 3 HOH 31 331 135 HOH HOH D . I 3 HOH 32 332 131 HOH HOH D . I 3 HOH 33 333 86 HOH HOH D . I 3 HOH 34 334 72 HOH HOH D . I 3 HOH 35 335 113 HOH HOH D . I 3 HOH 36 336 85 HOH HOH D . # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_defined_assembly ? dimeric 2 2 author_defined_assembly ? dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,F,G 2 1 C,D,E,H,I # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A HOH 221 ? F HOH . 2 1 B HOH 333 ? G HOH . # 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 2017-10-04 2 'Structure model' 1 1 2017-10-25 3 'Structure model' 1 2 2023-10-04 # _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' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Refinement description' # 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 2 'Structure model' citation 2 2 'Structure model' citation_author 3 3 'Structure model' chem_comp_atom 4 3 'Structure model' chem_comp_bond 5 3 'Structure model' database_2 6 3 'Structure model' pdbx_initial_refinement_model # 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 2 'Structure model' '_citation.journal_volume' 2 2 'Structure model' '_citation.page_first' 3 2 'Structure model' '_citation.page_last' 4 2 'Structure model' '_citation.title' 5 2 'Structure model' '_citation_author.name' 6 3 'Structure model' '_database_2.pdbx_DOI' 7 3 'Structure model' '_database_2.pdbx_database_accession' # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.11.1_2575 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? DENZO ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? SCALEPACK ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 O _pdbx_validate_symm_contact.auth_asym_id_1 B _pdbx_validate_symm_contact.auth_comp_id_1 HOH _pdbx_validate_symm_contact.auth_seq_id_1 304 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 O _pdbx_validate_symm_contact.auth_asym_id_2 B _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 304 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 8_554 _pdbx_validate_symm_contact.dist 1.85 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 N 1 C CON 201 ? N2 ? E CON 1 N2 2 1 N 1 C CON 201 ? N3 ? E CON 1 N3 # 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 A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 CON CO CO N N 73 CON N1 N N N 74 CON N2 N N N 75 CON N3 N N N 76 CON N4 N N N 77 CON HN11 H N N 78 CON HN12 H N N 79 CON HN13 H N N 80 CON HN21 H N N 81 CON HN22 H N N 82 CON HN23 H N N 83 CON HN31 H N N 84 CON HN32 H N N 85 CON HN33 H N N 86 CON HN41 H N N 87 CON HN42 H N N 88 CON HN43 H N N 89 G OP3 O N N 90 G P P N N 91 G OP1 O N N 92 G OP2 O N N 93 G "O5'" O N N 94 G "C5'" C N N 95 G "C4'" C N R 96 G "O4'" O N N 97 G "C3'" C N S 98 G "O3'" O N N 99 G "C2'" C N R 100 G "O2'" O N N 101 G "C1'" C N R 102 G N9 N Y N 103 G C8 C Y N 104 G N7 N Y N 105 G C5 C Y N 106 G C6 C N N 107 G O6 O N N 108 G N1 N N N 109 G C2 C N N 110 G N2 N N N 111 G N3 N N N 112 G C4 C Y N 113 G HOP3 H N N 114 G HOP2 H N N 115 G "H5'" H N N 116 G "H5''" H N N 117 G "H4'" H N N 118 G "H3'" H N N 119 G "HO3'" H N N 120 G "H2'" H N N 121 G "HO2'" H N N 122 G "H1'" H N N 123 G H8 H N N 124 G H1 H N N 125 G H21 H N N 126 G H22 H N N 127 HOH O O N N 128 HOH H1 H N N 129 HOH H2 H N N 130 U OP3 O N N 131 U P P N N 132 U OP1 O N N 133 U OP2 O N N 134 U "O5'" O N N 135 U "C5'" C N N 136 U "C4'" C N R 137 U "O4'" O N N 138 U "C3'" C N S 139 U "O3'" O N N 140 U "C2'" C N R 141 U "O2'" O N N 142 U "C1'" C N R 143 U N1 N N N 144 U C2 C N N 145 U O2 O N N 146 U N3 N N N 147 U C4 C N N 148 U O4 O N N 149 U C5 C N N 150 U C6 C N N 151 U HOP3 H N N 152 U HOP2 H N N 153 U "H5'" H N N 154 U "H5''" H N N 155 U "H4'" H N N 156 U "H3'" H N N 157 U "HO3'" H N N 158 U "H2'" H N N 159 U "HO2'" H N N 160 U "H1'" H N N 161 U H3 H N N 162 U H5 H N N 163 U H6 H N N 164 UMO "C1'" C N R 165 UMO C2 C N N 166 UMO "C2'" C N R 167 UMO "C3'" C N R 168 UMO C4 C N N 169 UMO "C4'" C N R 170 UMO C5 C N N 171 UMO "C5'" C N N 172 UMO C6 C N N 173 UMO CM1 C N N 174 UMO "F2'" F N N 175 UMO N1 N N N 176 UMO N3 N N N 177 UMO O2 O N N 178 UMO "O3'" O N N 179 UMO O4 O N N 180 UMO "O4'" O N N 181 UMO "O5'" O N N 182 UMO OM1 O N N 183 UMO OP1 O N N 184 UMO OP2 O N N 185 UMO P P N N 186 UMO "H1'" H N N 187 UMO "H2'" H N N 188 UMO "H3'" H N N 189 UMO H5 H N N 190 UMO "H5'" H N N 191 UMO "H5''" H N N 192 UMO H6 H N N 193 UMO H6M H N N 194 UMO HM1 H N N 195 UMO H6L H N N 196 UMO H3 H N N 197 UMO H1 H N N 198 UMO H2 H N N 199 UMO OP3 O N N 200 UMO H4 H N N 201 # 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 A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 CON CO N1 sing N N 76 CON CO N2 sing N N 77 CON CO N3 sing N N 78 CON CO N4 sing N N 79 CON N1 HN11 sing N N 80 CON N1 HN12 sing N N 81 CON N1 HN13 sing N N 82 CON N2 HN21 sing N N 83 CON N2 HN22 sing N N 84 CON N2 HN23 sing N N 85 CON N3 HN31 sing N N 86 CON N3 HN32 sing N N 87 CON N3 HN33 sing N N 88 CON N4 HN41 sing N N 89 CON N4 HN42 sing N N 90 CON N4 HN43 sing N N 91 G OP3 P sing N N 92 G OP3 HOP3 sing N N 93 G P OP1 doub N N 94 G P OP2 sing N N 95 G P "O5'" sing N N 96 G OP2 HOP2 sing N N 97 G "O5'" "C5'" sing N N 98 G "C5'" "C4'" sing N N 99 G "C5'" "H5'" sing N N 100 G "C5'" "H5''" sing N N 101 G "C4'" "O4'" sing N N 102 G "C4'" "C3'" sing N N 103 G "C4'" "H4'" sing N N 104 G "O4'" "C1'" sing N N 105 G "C3'" "O3'" sing N N 106 G "C3'" "C2'" sing N N 107 G "C3'" "H3'" sing N N 108 G "O3'" "HO3'" sing N N 109 G "C2'" "O2'" sing N N 110 G "C2'" "C1'" sing N N 111 G "C2'" "H2'" sing N N 112 G "O2'" "HO2'" sing N N 113 G "C1'" N9 sing N N 114 G "C1'" "H1'" sing N N 115 G N9 C8 sing Y N 116 G N9 C4 sing Y N 117 G C8 N7 doub Y N 118 G C8 H8 sing N N 119 G N7 C5 sing Y N 120 G C5 C6 sing N N 121 G C5 C4 doub Y N 122 G C6 O6 doub N N 123 G C6 N1 sing N N 124 G N1 C2 sing N N 125 G N1 H1 sing N N 126 G C2 N2 sing N N 127 G C2 N3 doub N N 128 G N2 H21 sing N N 129 G N2 H22 sing N N 130 G N3 C4 sing N N 131 HOH O H1 sing N N 132 HOH O H2 sing N N 133 U OP3 P sing N N 134 U OP3 HOP3 sing N N 135 U P OP1 doub N N 136 U P OP2 sing N N 137 U P "O5'" sing N N 138 U OP2 HOP2 sing N N 139 U "O5'" "C5'" sing N N 140 U "C5'" "C4'" sing N N 141 U "C5'" "H5'" sing N N 142 U "C5'" "H5''" sing N N 143 U "C4'" "O4'" sing N N 144 U "C4'" "C3'" sing N N 145 U "C4'" "H4'" sing N N 146 U "O4'" "C1'" sing N N 147 U "C3'" "O3'" sing N N 148 U "C3'" "C2'" sing N N 149 U "C3'" "H3'" sing N N 150 U "O3'" "HO3'" sing N N 151 U "C2'" "O2'" sing N N 152 U "C2'" "C1'" sing N N 153 U "C2'" "H2'" sing N N 154 U "O2'" "HO2'" sing N N 155 U "C1'" N1 sing N N 156 U "C1'" "H1'" sing N N 157 U N1 C2 sing N N 158 U N1 C6 sing N N 159 U C2 O2 doub N N 160 U C2 N3 sing N N 161 U N3 C4 sing N N 162 U N3 H3 sing N N 163 U C4 O4 doub N N 164 U C4 C5 sing N N 165 U C5 C6 doub N N 166 U C5 H5 sing N N 167 U C6 H6 sing N N 168 UMO "O3'" "C3'" sing N N 169 UMO OP1 P sing N N 170 UMO "C3'" "C2'" sing N N 171 UMO "C3'" "C4'" sing N N 172 UMO OP2 P doub N N 173 UMO P "O5'" sing N N 174 UMO "O5'" "C5'" sing N N 175 UMO "C5'" "C4'" sing N N 176 UMO "C2'" "F2'" sing N N 177 UMO "C2'" "C1'" sing N N 178 UMO "C4'" OM1 sing N N 179 UMO "C4'" "O4'" sing N N 180 UMO OM1 CM1 sing N N 181 UMO C6 C5 doub N N 182 UMO C6 N1 sing N N 183 UMO "O4'" "C1'" sing N N 184 UMO C5 C4 sing N N 185 UMO "C1'" N1 sing N N 186 UMO N1 C2 sing N N 187 UMO C4 O4 doub N N 188 UMO C4 N3 sing N N 189 UMO C2 N3 sing N N 190 UMO C2 O2 doub N N 191 UMO "C1'" "H1'" sing N N 192 UMO "C2'" "H2'" sing N N 193 UMO "C3'" "H3'" sing N N 194 UMO C5 H5 sing N N 195 UMO "C5'" "H5'" sing N N 196 UMO "C5'" "H5''" sing N N 197 UMO C6 H6 sing N N 198 UMO CM1 H6M sing N N 199 UMO CM1 HM1 sing N N 200 UMO CM1 H6L sing N N 201 UMO N3 H3 sing N N 202 UMO "O3'" H1 sing N N 203 UMO OP1 H2 sing N N 204 UMO P OP3 sing N N 205 UMO OP3 H4 sing N N 206 # _ndb_struct_conf_na.entry_id 5VR4 _ndb_struct_conf_na.feature 'a-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A C 1 1_555 B G 8 1_555 0.253 -0.166 0.212 1.628 -15.337 -0.747 1 A_C101:G216_B A 101 ? B 216 ? 19 1 1 A G 2 1_555 B C 7 1_555 -0.157 -0.149 -0.042 -3.217 -13.246 -0.163 2 A_G102:C215_B A 102 ? B 215 ? 19 1 1 A A 3 1_555 B U 6 1_555 0.143 -0.102 -0.146 -5.561 -13.153 -2.572 3 A_A103:U214_B A 103 ? B 214 ? 20 1 1 A A 4 1_555 B UMO 5 1_555 0.006 -0.084 0.015 -5.937 -14.337 1.424 4 A_A104:UMO213_B A 104 ? B 213 ? 20 1 1 A UMO 5 1_555 B A 4 1_555 0.031 -0.133 0.030 -2.548 -14.930 0.404 5 A_UMO105:A212_B A 105 ? B 212 ? 20 1 1 A U 6 1_555 B A 3 1_555 -0.079 -0.115 -0.173 5.916 -7.363 -1.006 6 A_U106:A211_B A 106 ? B 211 ? 20 1 1 A C 7 1_555 B G 2 1_555 0.336 -0.174 -0.138 3.132 -13.679 0.350 7 A_C107:G210_B A 107 ? B 210 ? 19 1 1 A G 8 1_555 B C 1 1_555 -0.198 -0.067 -0.095 -9.594 -12.375 -0.755 8 A_G108:C209_B A 108 ? B 209 ? 19 1 1 C C 1 1_555 D G 8 1_555 0.155 -0.117 -0.195 8.737 -16.828 0.558 9 C_C101:G216_D C 101 ? D 216 ? 19 1 1 C G 2 1_555 D C 7 1_555 -0.177 -0.129 -0.089 -0.996 -12.751 -1.540 10 C_G102:C215_D C 102 ? D 215 ? 19 1 1 C A 3 1_555 D U 6 1_555 0.107 -0.096 -0.044 -1.757 -13.184 2.621 11 C_A103:U214_D C 103 ? D 214 ? 20 1 1 C A 4 1_555 D UMO 5 1_555 -0.077 -0.105 -0.062 -2.327 -14.931 2.412 12 C_A104:UMO213_D C 104 ? D 213 ? 20 1 1 C UMO 5 1_555 D A 4 1_555 0.061 -0.125 0.041 0.264 -15.013 1.067 13 C_UMO105:A212_D C 105 ? D 212 ? 20 1 1 C U 6 1_555 D A 3 1_555 -0.051 -0.090 -0.123 3.946 -11.979 -2.313 14 C_U106:A211_D C 106 ? D 211 ? 20 1 1 C C 7 1_555 D G 2 1_555 0.207 -0.166 -0.044 2.444 -14.240 -0.550 15 C_C107:G210_D C 107 ? D 210 ? 19 1 1 C G 8 1_555 D C 1 1_555 -0.011 -0.076 -0.094 -7.844 -13.183 -3.128 16 C_G108:C209_D C 108 ? D 209 ? 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 C 1 1_555 B G 8 1_555 A G 2 1_555 B C 7 1_555 -0.479 -1.598 3.151 0.415 13.583 34.148 -4.167 0.811 2.362 22.078 -0.674 36.678 1 AA_C101G102:C215G216_BB A 101 ? B 216 ? A 102 ? B 215 ? 1 A G 2 1_555 B C 7 1_555 A A 3 1_555 B U 6 1_555 -0.008 -1.397 3.291 1.398 5.677 34.128 -3.199 0.223 3.024 9.586 -2.360 34.610 2 AA_G102A103:U214C215_BB A 102 ? B 215 ? A 103 ? B 214 ? 1 A A 3 1_555 B U 6 1_555 A A 4 1_555 B UMO 5 1_555 0.371 -1.426 3.241 1.635 9.155 30.929 -4.085 -0.397 2.734 16.699 -2.982 32.264 3 AA_A103A104:UMO213U214_BB A 103 ? B 214 ? A 104 ? B 213 ? 1 A A 4 1_555 B UMO 5 1_555 A UMO 5 1_555 B A 4 1_555 -0.099 -1.080 3.190 -0.305 12.263 30.677 -3.811 0.126 2.581 22.102 0.549 32.984 4 AA_A104UMO105:A212UMO213_BB A 104 ? B 213 ? A 105 ? B 212 ? 1 A UMO 5 1_555 B A 4 1_555 A U 6 1_555 B A 3 1_555 -0.175 -1.121 3.086 -1.081 5.670 30.923 -3.039 0.139 2.845 10.518 2.006 31.444 5 AA_UMO105U106:A211A212_BB A 105 ? B 212 ? A 106 ? B 211 ? 1 A U 6 1_555 B A 3 1_555 A C 7 1_555 B G 2 1_555 0.391 -1.566 3.292 1.154 8.637 34.167 -3.810 -0.484 2.836 14.412 -1.925 35.228 6 AA_U106C107:G210A211_BB A 106 ? B 211 ? A 107 ? B 210 ? 1 A C 7 1_555 B G 2 1_555 A G 8 1_555 B C 1 1_555 0.543 -1.909 3.422 2.987 16.015 32.755 -5.106 -0.483 2.311 26.457 -4.935 36.483 7 AA_C107G108:C209G210_BB A 107 ? B 210 ? A 108 ? B 209 ? 1 C C 1 1_555 D G 8 1_555 C G 2 1_555 D C 7 1_555 -0.706 -1.765 3.351 -3.799 18.190 31.960 -5.025 0.650 2.141 30.071 6.280 36.848 8 CC_C101G102:C215G216_DD C 101 ? D 216 ? C 102 ? D 215 ? 1 C G 2 1_555 D C 7 1_555 C A 3 1_555 D U 6 1_555 0.225 -1.321 3.214 -0.856 7.717 33.244 -3.401 -0.511 2.838 13.265 1.471 34.114 9 CC_G102A103:U214C215_DD C 102 ? D 215 ? C 103 ? D 214 ? 1 C A 3 1_555 D U 6 1_555 C A 4 1_555 D UMO 5 1_555 -0.194 -1.358 3.256 1.064 8.979 31.540 -3.858 0.516 2.768 16.109 -1.908 32.778 10 CC_A103A104:UMO213U214_DD C 103 ? D 214 ? C 104 ? D 213 ? 1 C A 4 1_555 D UMO 5 1_555 C UMO 5 1_555 D A 4 1_555 -0.180 -1.096 3.224 -0.794 12.087 31.637 -3.697 0.191 2.644 21.222 1.394 33.821 11 CC_A104UMO105:A212UMO213_DD C 104 ? D 213 ? C 105 ? D 212 ? 1 C UMO 5 1_555 D A 4 1_555 C U 6 1_555 D A 3 1_555 -0.355 -1.117 3.171 -1.071 7.296 31.441 -3.220 0.461 2.857 13.237 1.944 32.273 12 CC_UMO105U106:A211A212_DD C 105 ? D 212 ? C 106 ? D 211 ? 1 C U 6 1_555 D A 3 1_555 C C 7 1_555 D G 2 1_555 0.544 -1.420 3.272 0.623 6.220 33.962 -3.323 -0.824 2.983 10.537 -1.055 34.516 13 CC_U106C107:G210A211_DD C 106 ? D 211 ? C 107 ? D 210 ? 1 C C 7 1_555 D G 2 1_555 C G 8 1_555 D C 1 1_555 0.070 -1.809 3.369 2.557 14.137 34.731 -4.535 0.202 2.472 22.527 -4.074 37.501 14 CC_C107G108:C209G210_DD C 107 ? D 210 ? C 108 ? D 209 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'COBALT TETRAAMMINE ION' CON 3 water HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 3P4A _pdbx_initial_refinement_model.details ? # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? #