data_6BMD # _entry.id 6BMD # _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 6BMD pdb_00006bmd 10.2210/pdb6bmd/pdb WWPDB D_1000231112 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6BMD _pdbx_database_status.recvd_initial_deposition_date 2017-11-14 _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 'Zhang, W.' 1 ? 'Szostak, J.W.' 2 ? # _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 140 _citation.language ? _citation.page_first 2829 _citation.page_last 2840 _citation.title 'Structural Rationale for the Enhanced Catalysis of Nonenzymatic RNA Primer Extension by a Downstream Oligonucleotide.' _citation.year 2018 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/jacs.7b11750 _citation.pdbx_database_id_PubMed 29411978 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Zhang, W.' 1 ? primary 'Tam, C.P.' 2 ? primary 'Zhou, L.' 3 ? primary 'Oh, S.S.' 4 ? primary 'Wang, J.' 5 ? primary 'Szostak, J.W.' 6 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 122.53 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 6BMD _cell.details ? _cell.formula_units_Z ? _cell.length_a 107.392 _cell.length_a_esd ? _cell.length_b 63.759 _cell.length_b_esd ? _cell.length_c 65.840 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 12 _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 6BMD _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' _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(P*GP*AP*GP*GP*UP*GP*(LCC)P*(LCC)P*GP*AP*GP*CP*GP*CP*GP*AP*AP*AP*GP*CP*GP*CP*UP*C)-3') ; 7853.808 3 ? ? ? ? 2 polymer syn ;RNA (5'-D(*(GP3))-R(P*CP*AP*CP*CP*UP*CP*A)-3') ; 2910.738 3 ? ? ? ? 3 water nat water 18.015 37 ? ? ? ? # 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 polyribonucleotide no yes 'GAGGUG(LCC)(LCC)GAGCGCGAAAGCGCUC' GAGGUGNNGAGCGCGAAAGCGCUC A,C,E ? 2 polyribonucleotide no yes '(GP3)CACCUCA' XCACCUCA B,D,F ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 A n 1 3 G n 1 4 G n 1 5 U n 1 6 G n 1 7 LCC n 1 8 LCC n 1 9 G n 1 10 A n 1 11 G n 1 12 C n 1 13 G n 1 14 C n 1 15 G n 1 16 A n 1 17 A n 1 18 A n 1 19 G n 1 20 C n 1 21 G n 1 22 C n 1 23 U n 1 24 C n 2 1 GP3 n 2 2 C n 2 3 A n 2 4 C n 2 5 C n 2 6 U n 2 7 C n 2 8 A 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 1 24 'synthetic construct' ? 32630 ? 2 1 sample 1 8 'synthetic construct' ? 32630 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 6BMD 6BMD ? 1 ? 1 2 PDB 6BMD 6BMD ? 2 ? 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 6BMD A 1 ? 24 ? 6BMD 2 ? 25 ? 2 25 2 2 6BMD B 1 ? 8 ? 6BMD 1 ? 8 ? 1 8 3 1 6BMD C 1 ? 24 ? 6BMD 2 ? 25 ? 2 25 4 2 6BMD D 1 ? 8 ? 6BMD 1 ? 8 ? 1 8 5 1 6BMD E 1 ? 24 ? 6BMD 2 ? 25 ? 2 25 6 2 6BMD F 1 ? 8 ? 6BMD 1 ? 8 ? 1 8 # 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 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 GP3 non-polymer . "DIGUANOSINE-5'-TRIPHOSPHATE" ? 'C20 H27 N10 O18 P3' 788.406 HOH non-polymer . WATER ? 'H2 O' 18.015 LCC 'RNA linking' . '[(1R,3R,4R,7S)-7-HYDROXY-3-(5-METHYLCYTOSIN-1-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE' ? 'C11 H16 N3 O8 P' 349.234 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # _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 6BMD _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 2.9 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 58 _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 7.5 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '50 mM MgCl2, 3 M ammonia sulfate, 100 mM HEPES 7.5' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 99 _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 'MAR CCD 165 mm' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2017-10-25 # _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 1 _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 'ALS BEAMLINE 8.2.2' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 8.2.2 _diffrn_source.pdbx_synchrotron_site ALS # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 6BMD _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 3.0 _reflns.d_resolution_low 50 _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 7315 _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 95.9 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 4.8 _reflns.pdbx_Rmerge_I_obs 0.190 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value 0.144 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 5.8 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.654 _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 0.213 _reflns.pdbx_Rpim_I_all 0.094 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.970 _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 3.0 _reflns_shell.d_res_low 3.11 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 1.98 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 557 _reflns_shell.percent_possible_all 74.5 _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 0.377 _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 3.2 _reflns_shell.pdbx_Rsym_value 0.334 _reflns_shell.pdbx_chi_squared 0.571 _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all 0.429 _reflns_shell.pdbx_Rpim_I_all 0.198 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.904 _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] -0.05 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] -0.05 _refine.aniso_B[2][2] 0.12 _refine.aniso_B[2][3] 0.00 _refine.aniso_B[3][3] 0.00 _refine.B_iso_max ? _refine.B_iso_mean 26.407 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.934 _refine.correlation_coeff_Fo_to_Fc_free 0.914 _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _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 6BMD _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 3.00 _refine.ls_d_res_low 50 _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 6922 _refine.ls_number_reflns_R_free 392 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 95.78 _refine.ls_percent_reflns_R_free 5.4 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.18610 _refine.ls_R_factor_R_free 0.23050 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.18352 _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 ? _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 5UZ6 _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free 0.402 _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_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 ? _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 18.539 _refine.overall_SU_ML 0.321 _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 1 _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 2157 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 37 _refine_hist.number_atoms_total 2194 _refine_hist.d_res_high 3.00 _refine_hist.d_res_low 50 # 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' ? 0.012 0.013 2400 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.019 0.021 981 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 2.060 1.504 3723 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 2.397 3.073 2385 ? 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' ? 0.175 0.200 411 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.011 0.020 1203 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.002 0.020 513 ? r_gen_planes_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_xyhbond_nbd_refined ? ? '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 ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_vdw_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_hbond_refined ? ? '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_mcangle_other ? ? 'X-RAY DIFFRACTION' ? 1.785 2.853 2399 ? r_scbond_it ? ? 'X-RAY DIFFRACTION' ? 1.785 2.853 2400 ? r_scbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_scangle_it ? ? 'X-RAY DIFFRACTION' ? 2.707 4.278 3723 ? r_scangle_other ? ? 'X-RAY DIFFRACTION' ? 3.862 27.612 3458 ? r_long_range_B_refined ? ? 'X-RAY DIFFRACTION' ? 3.861 27.609 3459 ? r_long_range_B_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_rigid_bond_restr ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_sphericity_free ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 3.000 _refine_ls_shell.d_res_low 3.078 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 22 _refine_ls_shell.number_reflns_R_work 371 _refine_ls_shell.percent_reflns_obs 71.20 _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 0.347 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 0.264 _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 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 6BMD _struct.title 'RNA hairpin containing GpppG-oligo to mimic intermediate formed by activated monomer and activated downstream helper' _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 6BMD _struct_keywords.text 'RNA, GpppG, helper, intermediate' _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 2 ? C N N 1 ? D N N 2 ? E N N 1 ? F N N 2 ? G N N 3 ? H N N 3 ? I N N 3 ? J N N 3 ? K N N 3 ? L 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 G 6 "O3'" ? ? ? 1_555 A LCC 7 P ? ? A G 7 A LCC 8 1_555 ? ? ? ? ? ? ? 1.669 ? ? covale2 covale both ? A LCC 7 "O3'" ? ? ? 1_555 A LCC 8 P ? ? A LCC 8 A LCC 9 1_555 ? ? ? ? ? ? ? 1.707 ? ? covale3 covale both ? A LCC 8 "O3'" ? ? ? 1_555 A G 9 P ? ? A LCC 9 A G 10 1_555 ? ? ? ? ? ? ? 1.620 ? ? covale4 covale one ? B GP3 1 O3E ? ? ? 1_555 B C 2 P ? ? B GP3 1 B C 2 1_555 ? ? ? ? ? ? ? 1.605 ? ? covale5 covale both ? C G 6 "O3'" ? ? ? 1_555 C LCC 7 P ? ? C G 7 C LCC 8 1_555 ? ? ? ? ? ? ? 1.701 ? ? covale6 covale both ? C LCC 7 "O3'" ? ? ? 1_555 C LCC 8 P ? ? C LCC 8 C LCC 9 1_555 ? ? ? ? ? ? ? 1.587 ? ? covale7 covale both ? C LCC 8 "O3'" ? ? ? 1_555 C G 9 P ? ? C LCC 9 C G 10 1_555 ? ? ? ? ? ? ? 1.662 ? ? covale8 covale one ? D GP3 1 O3E ? ? ? 1_555 D C 2 P ? ? D GP3 1 D C 2 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale9 covale both ? E G 6 "O3'" ? ? ? 1_555 E LCC 7 P ? ? E G 7 E LCC 8 1_555 ? ? ? ? ? ? ? 1.663 ? ? covale10 covale both ? E LCC 7 "O3'" ? ? ? 1_555 E LCC 8 P ? ? E LCC 8 E LCC 9 1_555 ? ? ? ? ? ? ? 1.678 ? ? covale11 covale both ? E LCC 8 "O3'" ? ? ? 1_555 E G 9 P ? ? E LCC 9 E G 10 1_555 ? ? ? ? ? ? ? 1.644 ? ? covale12 covale one ? F GP3 1 O3E ? ? ? 1_555 F C 2 P ? ? F GP3 1 F C 2 1_555 ? ? ? ? ? ? ? 1.608 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 B C 7 N3 ? ? A G 2 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 7 O2 ? ? A G 2 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 7 N4 ? ? A G 2 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A A 2 N1 ? ? ? 1_555 B U 6 N3 ? ? A A 3 B U 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A A 2 N6 ? ? ? 1_555 B U 6 O4 ? ? A A 3 B U 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 5 N3 ? ? A G 4 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 5 O2 ? ? A G 4 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 5 N4 ? ? A G 4 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N1 ? ? ? 1_555 B C 4 N3 ? ? A G 5 B C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 B C 4 O2 ? ? A G 5 B C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 B C 4 N4 ? ? A G 5 B C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A U 5 N3 ? ? ? 1_555 B A 3 N1 ? ? A U 6 B A 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A U 5 O4 ? ? ? 1_555 B A 3 N6 ? ? A U 6 B A 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 6 N1 ? ? ? 1_555 B C 2 N3 ? ? A G 7 B C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 6 N2 ? ? ? 1_555 B C 2 O2 ? ? A G 7 B C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 6 O6 ? ? ? 1_555 B C 2 N4 ? ? A G 7 B C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 9 N1 ? ? ? 1_555 A C 24 N3 ? ? A G 10 A C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 9 N2 ? ? ? 1_555 A C 24 O2 ? ? A G 10 A C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 9 O6 ? ? ? 1_555 A C 24 N4 ? ? A G 10 A C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 10 N1 ? ? ? 1_555 A U 23 N3 ? ? A A 11 A U 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A A 10 N6 ? ? ? 1_555 A U 23 O4 ? ? A A 11 A U 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A G 11 N1 ? ? ? 1_555 A C 22 N3 ? ? A G 12 A C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 11 N2 ? ? ? 1_555 A C 22 O2 ? ? A G 12 A C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 11 O6 ? ? ? 1_555 A C 22 N4 ? ? A G 12 A C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A C 12 N3 ? ? ? 1_555 A G 21 N1 ? ? A C 13 A G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 12 N4 ? ? ? 1_555 A G 21 O6 ? ? A C 13 A G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 12 O2 ? ? ? 1_555 A G 21 N2 ? ? A C 13 A G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 13 N1 ? ? ? 1_555 A C 20 N3 ? ? A G 14 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A G 13 N2 ? ? ? 1_555 A C 20 O2 ? ? A G 14 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A G 13 O6 ? ? ? 1_555 A C 20 N4 ? ? A G 14 A C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A C 14 N3 ? ? ? 1_555 A G 19 N1 ? ? A C 15 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A C 14 N4 ? ? ? 1_555 A G 19 O6 ? ? A C 15 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A C 14 O2 ? ? ? 1_555 A G 19 N2 ? ? A C 15 A G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A G 15 N2 ? ? ? 1_555 A A 18 N7 ? ? A G 16 A A 19 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog35 hydrog ? ? C G 1 N1 ? ? ? 1_555 D C 7 N3 ? ? C G 2 D C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? C G 1 N2 ? ? ? 1_555 D C 7 O2 ? ? C G 2 D C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? C G 1 O6 ? ? ? 1_555 D C 7 N4 ? ? C G 2 D C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? C A 2 N1 ? ? ? 1_555 D U 6 N3 ? ? C A 3 D U 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? C A 2 N6 ? ? ? 1_555 D U 6 O4 ? ? C A 3 D U 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? C G 3 N1 ? ? ? 1_555 D C 5 N3 ? ? C G 4 D C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? C G 3 N2 ? ? ? 1_555 D C 5 O2 ? ? C G 4 D C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? C G 3 O6 ? ? ? 1_555 D C 5 N4 ? ? C G 4 D C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C G 3 N2 ? ? ? 1_555 E A 18 N3 ? ? C G 4 E A 19 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog44 hydrog ? ? C G 4 N1 ? ? ? 1_555 D C 4 N3 ? ? C G 5 D C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? C G 4 N2 ? ? ? 1_555 D C 4 O2 ? ? C G 5 D C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? C G 4 O6 ? ? ? 1_555 D C 4 N4 ? ? C G 5 D C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? C U 5 N3 ? ? ? 1_555 D A 3 N1 ? ? C U 6 D A 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? C U 5 O4 ? ? ? 1_555 D A 3 N6 ? ? C U 6 D A 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? C G 6 N1 ? ? ? 1_555 D C 2 N3 ? ? C G 7 D C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? C G 6 N2 ? ? ? 1_555 D C 2 O2 ? ? C G 7 D C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? C G 6 O6 ? ? ? 1_555 D C 2 N4 ? ? C G 7 D C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? C G 9 N1 ? ? ? 1_555 C C 24 N3 ? ? C G 10 C C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? C G 9 N2 ? ? ? 1_555 C C 24 O2 ? ? C G 10 C C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? C G 9 O6 ? ? ? 1_555 C C 24 N4 ? ? C G 10 C C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? C A 10 N1 ? ? ? 1_555 C U 23 N3 ? ? C A 11 C U 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? C A 10 N6 ? ? ? 1_555 C U 23 O4 ? ? C A 11 C U 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? C G 11 N1 ? ? ? 1_555 C C 22 N3 ? ? C G 12 C C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? C G 11 N2 ? ? ? 1_555 C C 22 O2 ? ? C G 12 C C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? C G 11 O6 ? ? ? 1_555 C C 22 N4 ? ? C G 12 C C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? C C 12 N3 ? ? ? 1_555 C G 21 N1 ? ? C C 13 C G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? C C 12 N4 ? ? ? 1_555 C G 21 O6 ? ? C C 13 C G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? C C 12 O2 ? ? ? 1_555 C G 21 N2 ? ? C C 13 C G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? C G 13 N1 ? ? ? 1_555 C C 20 N3 ? ? C G 14 C C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? C G 13 N2 ? ? ? 1_555 C C 20 O2 ? ? C G 14 C C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? C G 13 O6 ? ? ? 1_555 C C 20 N4 ? ? C G 14 C C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? C C 14 N3 ? ? ? 1_555 C G 19 N1 ? ? C C 15 C G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? C C 14 N4 ? ? ? 1_555 C G 19 O6 ? ? C C 15 C G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? C C 14 O2 ? ? ? 1_555 C G 19 N2 ? ? C C 15 C G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? C G 15 N2 ? ? ? 1_555 C A 18 N7 ? ? C G 16 C A 19 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog70 hydrog ? ? C G 15 N3 ? ? ? 1_555 C A 18 N6 ? ? C G 16 C A 19 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog71 hydrog ? ? C A 18 N3 ? ? ? 1_555 E G 3 N2 ? ? C A 19 E G 4 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? hydrog72 hydrog ? ? E G 1 N1 ? ? ? 1_555 F C 7 N3 ? ? E G 2 F C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog73 hydrog ? ? E G 1 N2 ? ? ? 1_555 F C 7 O2 ? ? E G 2 F C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog74 hydrog ? ? E G 1 O6 ? ? ? 1_555 F C 7 N4 ? ? E G 2 F C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog75 hydrog ? ? E A 2 N1 ? ? ? 1_555 F U 6 N3 ? ? E A 3 F U 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog76 hydrog ? ? E A 2 N6 ? ? ? 1_555 F U 6 O4 ? ? E A 3 F U 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog77 hydrog ? ? E G 3 N1 ? ? ? 1_555 F C 5 N3 ? ? E G 4 F C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog78 hydrog ? ? E G 3 N2 ? ? ? 1_555 F C 5 O2 ? ? E G 4 F C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog79 hydrog ? ? E G 3 O6 ? ? ? 1_555 F C 5 N4 ? ? E G 4 F C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog80 hydrog ? ? E G 4 N1 ? ? ? 1_555 F C 4 N3 ? ? E G 5 F C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog81 hydrog ? ? E G 4 N2 ? ? ? 1_555 F C 4 O2 ? ? E G 5 F C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog82 hydrog ? ? E G 4 O6 ? ? ? 1_555 F C 4 N4 ? ? E G 5 F C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog83 hydrog ? ? E U 5 N3 ? ? ? 1_555 F A 3 N1 ? ? E U 6 F A 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog84 hydrog ? ? E U 5 O4 ? ? ? 1_555 F A 3 N6 ? ? E U 6 F A 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog85 hydrog ? ? E G 6 N1 ? ? ? 1_555 F C 2 N3 ? ? E G 7 F C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog86 hydrog ? ? E G 6 N2 ? ? ? 1_555 F C 2 O2 ? ? E G 7 F C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog87 hydrog ? ? E G 6 O6 ? ? ? 1_555 F C 2 N4 ? ? E G 7 F C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog88 hydrog ? ? E G 9 N1 ? ? ? 1_555 E C 24 N3 ? ? E G 10 E C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog89 hydrog ? ? E G 9 N2 ? ? ? 1_555 E C 24 O2 ? ? E G 10 E C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog90 hydrog ? ? E G 9 O6 ? ? ? 1_555 E C 24 N4 ? ? E G 10 E C 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog91 hydrog ? ? E A 10 N1 ? ? ? 1_555 E U 23 N3 ? ? E A 11 E U 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog92 hydrog ? ? E A 10 N6 ? ? ? 1_555 E U 23 O4 ? ? E A 11 E U 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog93 hydrog ? ? E G 11 N1 ? ? ? 1_555 E C 22 N3 ? ? E G 12 E C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog94 hydrog ? ? E G 11 N2 ? ? ? 1_555 E C 22 O2 ? ? E G 12 E C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog95 hydrog ? ? E G 11 O6 ? ? ? 1_555 E C 22 N4 ? ? E G 12 E C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog96 hydrog ? ? E C 12 N3 ? ? ? 1_555 E G 21 N1 ? ? E C 13 E G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog97 hydrog ? ? E C 12 N4 ? ? ? 1_555 E G 21 O6 ? ? E C 13 E G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog98 hydrog ? ? E C 12 O2 ? ? ? 1_555 E G 21 N2 ? ? E C 13 E G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog99 hydrog ? ? E G 13 N1 ? ? ? 1_555 E C 20 N3 ? ? E G 14 E C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog100 hydrog ? ? E G 13 N2 ? ? ? 1_555 E C 20 O2 ? ? E G 14 E C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog101 hydrog ? ? E G 13 O6 ? ? ? 1_555 E C 20 N4 ? ? E G 14 E C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog102 hydrog ? ? E C 14 N3 ? ? ? 1_555 E G 19 N1 ? ? E C 15 E G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog103 hydrog ? ? E C 14 N4 ? ? ? 1_555 E G 19 O6 ? ? E C 15 E G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog104 hydrog ? ? E C 14 O2 ? ? ? 1_555 E G 19 N2 ? ? E C 15 E G 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog105 hydrog ? ? E G 15 N2 ? ? ? 1_555 E A 18 N7 ? ? E G 16 E A 19 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _atom_sites.entry_id 6BMD _atom_sites.fract_transf_matrix[1][1] 0.009312 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.005938 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.015684 _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] 0.018014 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P # loop_ _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 G 1 2 2 G G A . n A 1 2 A 2 3 3 A A A . n A 1 3 G 3 4 4 G G A . n A 1 4 G 4 5 5 G G A . n A 1 5 U 5 6 6 U U A . n A 1 6 G 6 7 7 G G A . n A 1 7 LCC 7 8 8 LCC LCC A . n A 1 8 LCC 8 9 9 LCC LCC A . n A 1 9 G 9 10 10 G G A . n A 1 10 A 10 11 11 A A A . n A 1 11 G 11 12 12 G G A . n A 1 12 C 12 13 13 C C A . n A 1 13 G 13 14 14 G G A . n A 1 14 C 14 15 15 C C A . n A 1 15 G 15 16 16 G G A . n A 1 16 A 16 17 17 A A A . n A 1 17 A 17 18 18 A A A . n A 1 18 A 18 19 19 A A A . n A 1 19 G 19 20 20 G G A . n A 1 20 C 20 21 21 C C A . n A 1 21 G 21 22 22 G G A . n A 1 22 C 22 23 23 C C A . n A 1 23 U 23 24 24 U U A . n A 1 24 C 24 25 25 C C A . n B 2 1 GP3 1 1 1 GP3 GP3 B . n B 2 2 C 2 2 2 C C B . n B 2 3 A 3 3 3 A A B . n B 2 4 C 4 4 4 C C B . n B 2 5 C 5 5 5 C C B . n B 2 6 U 6 6 6 U U B . n B 2 7 C 7 7 7 C C B . n B 2 8 A 8 8 8 A A B . n C 1 1 G 1 2 2 G G C . n C 1 2 A 2 3 3 A A C . n C 1 3 G 3 4 4 G G C . n C 1 4 G 4 5 5 G G C . n C 1 5 U 5 6 6 U U C . n C 1 6 G 6 7 7 G G C . n C 1 7 LCC 7 8 8 LCC LCC C . n C 1 8 LCC 8 9 9 LCC LCC C . n C 1 9 G 9 10 10 G G C . n C 1 10 A 10 11 11 A A C . n C 1 11 G 11 12 12 G G C . n C 1 12 C 12 13 13 C C C . n C 1 13 G 13 14 14 G G C . n C 1 14 C 14 15 15 C C C . n C 1 15 G 15 16 16 G G C . n C 1 16 A 16 17 17 A A C . n C 1 17 A 17 18 18 A A C . n C 1 18 A 18 19 19 A A C . n C 1 19 G 19 20 20 G G C . n C 1 20 C 20 21 21 C C C . n C 1 21 G 21 22 22 G G C . n C 1 22 C 22 23 23 C C C . n C 1 23 U 23 24 24 U U C . n C 1 24 C 24 25 25 C C C . n D 2 1 GP3 1 1 1 GP3 GP3 D . n D 2 2 C 2 2 2 C C D . n D 2 3 A 3 3 3 A A D . n D 2 4 C 4 4 4 C C D . n D 2 5 C 5 5 5 C C D . n D 2 6 U 6 6 6 U U D . n D 2 7 C 7 7 7 C C D . n D 2 8 A 8 8 8 A A D . n E 1 1 G 1 2 2 G G E . n E 1 2 A 2 3 3 A A E . n E 1 3 G 3 4 4 G G E . n E 1 4 G 4 5 5 G G E . n E 1 5 U 5 6 6 U U E . n E 1 6 G 6 7 7 G G E . n E 1 7 LCC 7 8 8 LCC LCC E . n E 1 8 LCC 8 9 9 LCC LCC E . n E 1 9 G 9 10 10 G G E . n E 1 10 A 10 11 11 A A E . n E 1 11 G 11 12 12 G G E . n E 1 12 C 12 13 13 C C E . n E 1 13 G 13 14 14 G G E . n E 1 14 C 14 15 15 C C E . n E 1 15 G 15 16 16 G G E . n E 1 16 A 16 17 17 A A E . n E 1 17 A 17 18 18 A A E . n E 1 18 A 18 19 19 A A E . n E 1 19 G 19 20 20 G G E . n E 1 20 C 20 21 21 C C E . n E 1 21 G 21 22 22 G G E . n E 1 22 C 22 23 23 C C E . n E 1 23 U 23 24 24 U U E . n E 1 24 C 24 25 25 C C E . n F 2 1 GP3 1 1 1 GP3 GP3 F . n F 2 2 C 2 2 2 C C F . n F 2 3 A 3 3 3 A A F . n F 2 4 C 4 4 4 C C F . n F 2 5 C 5 5 5 C C F . n F 2 6 U 6 6 6 U U F . n F 2 7 C 7 7 7 C C F . n F 2 8 A 8 8 8 A A F . 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 G 3 HOH 1 101 5 HOH HOH A . G 3 HOH 2 102 1 HOH HOH A . G 3 HOH 3 103 6 HOH HOH A . G 3 HOH 4 104 7 HOH HOH A . G 3 HOH 5 105 14 HOH HOH A . G 3 HOH 6 106 4 HOH HOH A . G 3 HOH 7 107 8 HOH HOH A . G 3 HOH 8 108 18 HOH HOH A . H 3 HOH 1 101 38 HOH HOH B . H 3 HOH 2 102 2 HOH HOH B . H 3 HOH 3 103 20 HOH HOH B . H 3 HOH 4 104 3 HOH HOH B . I 3 HOH 1 101 30 HOH HOH C . I 3 HOH 2 102 15 HOH HOH C . I 3 HOH 3 103 23 HOH HOH C . I 3 HOH 4 104 24 HOH HOH C . I 3 HOH 5 105 33 HOH HOH C . I 3 HOH 6 106 25 HOH HOH C . I 3 HOH 7 107 29 HOH HOH C . J 3 HOH 1 101 34 HOH HOH D . J 3 HOH 2 102 22 HOH HOH D . J 3 HOH 3 103 31 HOH HOH D . J 3 HOH 4 104 35 HOH HOH D . J 3 HOH 5 105 32 HOH HOH D . K 3 HOH 1 101 13 HOH HOH E . K 3 HOH 2 102 17 HOH HOH E . K 3 HOH 3 103 10 HOH HOH E . K 3 HOH 4 104 12 HOH HOH E . K 3 HOH 5 105 36 HOH HOH E . K 3 HOH 6 106 37 HOH HOH E . K 3 HOH 7 107 9 HOH HOH E . K 3 HOH 8 108 19 HOH HOH E . L 3 HOH 1 101 26 HOH HOH F . L 3 HOH 2 102 27 HOH HOH F . L 3 HOH 3 103 21 HOH HOH F . L 3 HOH 4 104 16 HOH HOH F . L 3 HOH 5 105 28 HOH HOH F . # 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 3 author_and_software_defined_assembly PISA 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,G,H 2 1 C,D,I,J 3 1 E,F,K,L # 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)' 1280 ? 1 MORE -0 ? 1 'SSA (A^2)' 6150 ? 2 'ABSA (A^2)' 1310 ? 2 MORE 1 ? 2 'SSA (A^2)' 6140 ? 3 'ABSA (A^2)' 1310 ? 3 MORE 1 ? 3 'SSA (A^2)' 6150 ? # _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_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 2018-02-21 2 'Structure model' 1 1 2018-03-14 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 3 'Structure model' chem_comp_atom 3 3 'Structure model' chem_comp_bond 4 3 'Structure model' database_2 5 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 3 'Structure model' '_database_2.pdbx_DOI' 6 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 ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0158 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "O3'" A LCC 8 ? ? P A LCC 9 ? ? 1.707 1.607 0.100 0.012 Y 2 1 "O3'" C G 7 ? ? P C LCC 8 ? ? 1.701 1.607 0.094 0.012 Y # 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 "C3'" A G 7 ? ? "O3'" A G 7 ? ? P A LCC 8 ? ? 130.89 119.70 11.19 1.20 Y 2 1 "O3'" A G 7 ? ? P A LCC 8 ? ? "O5'" A LCC 8 ? ? 81.67 104.00 -22.33 1.90 Y 3 1 "C3'" A LCC 8 ? ? "O3'" A LCC 8 ? ? P A LCC 9 ? ? 112.00 119.70 -7.70 1.20 Y 4 1 "O3'" A LCC 8 ? ? P A LCC 9 ? ? "O5'" A LCC 9 ? ? 82.45 104.00 -21.55 1.90 Y 5 1 "O3'" C G 7 ? ? P C LCC 8 ? ? "O5'" C LCC 8 ? ? 121.85 104.00 17.85 1.90 Y 6 1 "O3'" E G 7 ? ? P E LCC 8 ? ? "O5'" E LCC 8 ? ? 87.29 104.00 -16.71 1.90 Y 7 1 "O3'" E LCC 8 ? ? P E LCC 9 ? ? "O5'" E LCC 9 ? ? 126.03 104.00 22.03 1.90 Y 8 1 "O3'" E LCC 9 ? ? P E G 10 ? ? OP1 E G 10 ? ? 121.97 110.50 11.47 1.10 Y # 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 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 GP3 N9A N Y N 111 GP3 C8A C Y N 112 GP3 N7A N Y N 113 GP3 C5A C Y N 114 GP3 C6A C N N 115 GP3 O6A O N N 116 GP3 N1A N N N 117 GP3 C2A C N N 118 GP3 N2A N N N 119 GP3 N3A N N N 120 GP3 C4A C Y N 121 GP3 O5D O N N 122 GP3 C5D C N N 123 GP3 C4D C N R 124 GP3 O4D O N N 125 GP3 C3D C N S 126 GP3 O3D O N N 127 GP3 C2D C N R 128 GP3 O2D O N N 129 GP3 C1D C N R 130 GP3 PA P N R 131 GP3 O1A O N N 132 GP3 O2A O N N 133 GP3 O3A O N N 134 GP3 PB P N N 135 GP3 O1B O N N 136 GP3 O2B O N N 137 GP3 O3B O N N 138 GP3 PG P N R 139 GP3 O1G O N N 140 GP3 O2G O N N 141 GP3 O5E O N N 142 GP3 C5E C N N 143 GP3 C4E C N R 144 GP3 O4E O N N 145 GP3 C3E C N S 146 GP3 O3E O N N 147 GP3 C2E C N R 148 GP3 O2E O N N 149 GP3 C1E C N R 150 GP3 N9B N Y N 151 GP3 C8B C Y N 152 GP3 N7B N Y N 153 GP3 C5B C Y N 154 GP3 C6B C N N 155 GP3 O6B O N N 156 GP3 N1B N N N 157 GP3 C2B C N N 158 GP3 N2B N N N 159 GP3 N3B N N N 160 GP3 C4B C Y N 161 GP3 H8A H N N 162 GP3 H1A H N N 163 GP3 H21A H N N 164 GP3 H22A H N N 165 GP3 H51A H N N 166 GP3 H52A H N N 167 GP3 H4D H N N 168 GP3 H3D H N N 169 GP3 HO3A H N N 170 GP3 H2D H N N 171 GP3 HO2A H N N 172 GP3 H1D H N N 173 GP3 HOA2 H N N 174 GP3 HOB2 H N N 175 GP3 HOG2 H N N 176 GP3 H51B H N N 177 GP3 H52B H N N 178 GP3 H4E H N N 179 GP3 H3E H N N 180 GP3 HO3B H N N 181 GP3 H2E H N N 182 GP3 HO2B H N N 183 GP3 H1E H N N 184 GP3 H8B H N N 185 GP3 H1B H N N 186 GP3 H21B H N N 187 GP3 H22B H N N 188 HOH O O N N 189 HOH H1 H N N 190 HOH H2 H N N 191 LCC "O5'" O N N 192 LCC "C5'" C N N 193 LCC "C4'" C N R 194 LCC "O4'" O N N 195 LCC "C1'" C N R 196 LCC N1 N N N 197 LCC C6 C N N 198 LCC C5 C N N 199 LCC C5M C N N 200 LCC C4 C N N 201 LCC N4 N N N 202 LCC N3 N N N 203 LCC C2 C N N 204 LCC O2 O N N 205 LCC "C3'" C N S 206 LCC "C2'" C N R 207 LCC "O2'" O N N 208 LCC "O3'" O N N 209 LCC "C6'" C N N 210 LCC P P N N 211 LCC O1P O N N 212 LCC O2P O N N 213 LCC OXT O N N 214 LCC "H5'1" H N N 215 LCC "H5'2" H N N 216 LCC "H1'" H N N 217 LCC H6 H N N 218 LCC H5M1 H N N 219 LCC H5M2 H N N 220 LCC H5M3 H N N 221 LCC H41 H N N 222 LCC H42 H N N 223 LCC "H3'" H N N 224 LCC "H2'1" H N N 225 LCC H3T H N N 226 LCC "H6'1" H N N 227 LCC "H6'2" H N N 228 LCC H1P H N N 229 LCC HXT H N N 230 U OP3 O N N 231 U P P N N 232 U OP1 O N N 233 U OP2 O N N 234 U "O5'" O N N 235 U "C5'" C N N 236 U "C4'" C N R 237 U "O4'" O N N 238 U "C3'" C N S 239 U "O3'" O N N 240 U "C2'" C N R 241 U "O2'" O N N 242 U "C1'" C N R 243 U N1 N N N 244 U C2 C N N 245 U O2 O N N 246 U N3 N N N 247 U C4 C N N 248 U O4 O N N 249 U C5 C N N 250 U C6 C N N 251 U HOP3 H N N 252 U HOP2 H N N 253 U "H5'" H N N 254 U "H5''" H N N 255 U "H4'" H N N 256 U "H3'" H N N 257 U "HO3'" H N N 258 U "H2'" H N N 259 U "HO2'" H N N 260 U "H1'" H N N 261 U H3 H N N 262 U H5 H N N 263 U H6 H N N 264 # 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 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 GP3 N9A C8A sing Y N 116 GP3 N9A C4A sing Y N 117 GP3 N9A C1D sing N N 118 GP3 C8A N7A doub Y N 119 GP3 C8A H8A sing N N 120 GP3 N7A C5A sing Y N 121 GP3 C5A C6A sing N N 122 GP3 C5A C4A doub Y N 123 GP3 C6A O6A doub N N 124 GP3 C6A N1A sing N N 125 GP3 N1A C2A sing N N 126 GP3 N1A H1A sing N N 127 GP3 C2A N2A sing N N 128 GP3 C2A N3A doub N N 129 GP3 N2A H21A sing N N 130 GP3 N2A H22A sing N N 131 GP3 N3A C4A sing N N 132 GP3 O5D C5D sing N N 133 GP3 O5D PA sing N N 134 GP3 C5D C4D sing N N 135 GP3 C5D H51A sing N N 136 GP3 C5D H52A sing N N 137 GP3 C4D O4D sing N N 138 GP3 C4D C3D sing N N 139 GP3 C4D H4D sing N N 140 GP3 O4D C1D sing N N 141 GP3 C3D O3D sing N N 142 GP3 C3D C2D sing N N 143 GP3 C3D H3D sing N N 144 GP3 O3D HO3A sing N N 145 GP3 C2D O2D sing N N 146 GP3 C2D C1D sing N N 147 GP3 C2D H2D sing N N 148 GP3 O2D HO2A sing N N 149 GP3 C1D H1D sing N N 150 GP3 PA O1A doub N N 151 GP3 PA O2A sing N N 152 GP3 PA O3A sing N N 153 GP3 O2A HOA2 sing N N 154 GP3 O3A PB sing N N 155 GP3 PB O1B doub N N 156 GP3 PB O2B sing N N 157 GP3 PB O3B sing N N 158 GP3 O2B HOB2 sing N N 159 GP3 O3B PG sing N N 160 GP3 PG O1G doub N N 161 GP3 PG O2G sing N N 162 GP3 PG O5E sing N N 163 GP3 O2G HOG2 sing N N 164 GP3 O5E C5E sing N N 165 GP3 C5E C4E sing N N 166 GP3 C5E H51B sing N N 167 GP3 C5E H52B sing N N 168 GP3 C4E O4E sing N N 169 GP3 C4E C3E sing N N 170 GP3 C4E H4E sing N N 171 GP3 O4E C1E sing N N 172 GP3 C3E O3E sing N N 173 GP3 C3E C2E sing N N 174 GP3 C3E H3E sing N N 175 GP3 O3E HO3B sing N N 176 GP3 C2E O2E sing N N 177 GP3 C2E C1E sing N N 178 GP3 C2E H2E sing N N 179 GP3 O2E HO2B sing N N 180 GP3 C1E N9B sing N N 181 GP3 C1E H1E sing N N 182 GP3 N9B C8B sing Y N 183 GP3 N9B C4B sing Y N 184 GP3 C8B N7B doub Y N 185 GP3 C8B H8B sing N N 186 GP3 N7B C5B sing Y N 187 GP3 C5B C6B sing N N 188 GP3 C5B C4B doub Y N 189 GP3 C6B O6B doub N N 190 GP3 C6B N1B sing N N 191 GP3 N1B C2B sing N N 192 GP3 N1B H1B sing N N 193 GP3 C2B N2B sing N N 194 GP3 C2B N3B doub N N 195 GP3 N2B H21B sing N N 196 GP3 N2B H22B sing N N 197 GP3 N3B C4B sing N N 198 HOH O H1 sing N N 199 HOH O H2 sing N N 200 LCC "O5'" "C5'" sing N N 201 LCC "O5'" P sing N N 202 LCC "C5'" "C4'" sing N N 203 LCC "C5'" "H5'1" sing N N 204 LCC "C5'" "H5'2" sing N N 205 LCC "C4'" "O4'" sing N N 206 LCC "C4'" "C3'" sing N N 207 LCC "C4'" "C6'" sing N N 208 LCC "O4'" "C1'" sing N N 209 LCC "C1'" N1 sing N N 210 LCC "C1'" "C2'" sing N N 211 LCC "C1'" "H1'" sing N N 212 LCC N1 C6 sing N N 213 LCC N1 C2 sing N N 214 LCC C6 C5 doub N N 215 LCC C6 H6 sing N N 216 LCC C5 C5M sing N N 217 LCC C5 C4 sing N N 218 LCC C5M H5M1 sing N N 219 LCC C5M H5M2 sing N N 220 LCC C5M H5M3 sing N N 221 LCC C4 N4 sing N N 222 LCC C4 N3 doub N N 223 LCC N4 H41 sing N N 224 LCC N4 H42 sing N N 225 LCC N3 C2 sing N N 226 LCC C2 O2 doub N N 227 LCC "C3'" "C2'" sing N N 228 LCC "C3'" "O3'" sing N N 229 LCC "C3'" "H3'" sing N N 230 LCC "C2'" "O2'" sing N N 231 LCC "C2'" "H2'1" sing N N 232 LCC "O2'" "C6'" sing N N 233 LCC "O3'" H3T sing N N 234 LCC "C6'" "H6'1" sing N N 235 LCC "C6'" "H6'2" sing N N 236 LCC P O1P sing N N 237 LCC P O2P doub N N 238 LCC P OXT sing N N 239 LCC O1P H1P sing N N 240 LCC OXT HXT sing N N 241 U OP3 P sing N N 242 U OP3 HOP3 sing N N 243 U P OP1 doub N N 244 U P OP2 sing N N 245 U P "O5'" sing N N 246 U OP2 HOP2 sing N N 247 U "O5'" "C5'" sing N N 248 U "C5'" "C4'" sing N N 249 U "C5'" "H5'" sing N N 250 U "C5'" "H5''" sing N N 251 U "C4'" "O4'" sing N N 252 U "C4'" "C3'" sing N N 253 U "C4'" "H4'" sing N N 254 U "O4'" "C1'" sing N N 255 U "C3'" "O3'" sing N N 256 U "C3'" "C2'" sing N N 257 U "C3'" "H3'" sing N N 258 U "O3'" "HO3'" sing N N 259 U "C2'" "O2'" sing N N 260 U "C2'" "C1'" sing N N 261 U "C2'" "H2'" sing N N 262 U "O2'" "HO2'" sing N N 263 U "C1'" N1 sing N N 264 U "C1'" "H1'" sing N N 265 U N1 C2 sing N N 266 U N1 C6 sing N N 267 U C2 O2 doub N N 268 U C2 N3 sing N N 269 U N3 C4 sing N N 270 U N3 H3 sing N N 271 U C4 O4 doub N N 272 U C4 C5 sing N N 273 U C5 C6 doub N N 274 U C5 H5 sing N N 275 U C6 H6 sing N N 276 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 6BMD 'double helix' 6BMD 'a-form double helix' 6BMD tetraloop 6BMD 'mismatched base pair' # 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 G 1 1_555 B C 7 1_555 -0.660 -0.388 -0.148 -9.146 -6.138 -5.202 1 A_G2:C7_B A 2 ? B 7 ? 19 1 1 A A 2 1_555 B U 6 1_555 -0.084 -0.072 0.064 1.973 -14.580 -1.107 2 A_A3:U6_B A 3 ? B 6 ? 20 1 1 A G 3 1_555 B C 5 1_555 -0.100 -0.143 0.158 -3.249 -14.354 2.321 3 A_G4:C5_B A 4 ? B 5 ? 19 1 1 A G 4 1_555 B C 4 1_555 -0.976 -0.197 -0.092 -9.020 -19.058 5.953 4 A_G5:C4_B A 5 ? B 4 ? 19 1 1 A U 5 1_555 B A 3 1_555 -0.142 -0.168 0.303 -5.107 -7.215 -4.553 5 A_U6:A3_B A 6 ? B 3 ? 20 1 1 A G 6 1_555 B C 2 1_555 -0.436 -0.261 0.677 -2.625 -19.658 1.435 6 A_G7:C2_B A 7 ? B 2 ? 19 1 1 A G 9 1_555 A C 24 1_555 -0.302 -0.300 0.010 -7.488 -8.715 -4.184 7 A_G10:C25_A A 10 ? A 25 ? 19 1 1 A A 10 1_555 A U 23 1_555 -0.136 -0.250 0.264 -1.231 -11.211 3.586 8 A_A11:U24_A A 11 ? A 24 ? 20 1 1 A G 11 1_555 A C 22 1_555 0.634 0.187 -0.034 -7.791 -13.678 6.100 9 A_G12:C23_A A 12 ? A 23 ? 19 1 1 A C 12 1_555 A G 21 1_555 0.511 -0.190 -0.277 4.973 -13.372 -3.268 10 A_C13:G22_A A 13 ? A 22 ? 19 1 1 A G 13 1_555 A C 20 1_555 -0.001 -0.121 -0.114 -4.324 -4.107 2.075 11 A_G14:C21_A A 14 ? A 21 ? 19 1 1 A C 14 1_555 A G 19 1_555 0.328 -0.077 -0.145 -2.204 1.690 0.911 12 A_C15:G20_A A 15 ? A 20 ? 19 1 1 A G 15 1_555 A A 18 1_555 6.839 -5.279 0.828 15.412 3.630 -12.662 13 A_G16:A19_A A 16 ? A 19 ? ? 10 1 C G 1 1_555 D C 7 1_555 -0.624 -0.040 -0.289 -10.556 -2.492 -3.480 14 C_G2:C7_D C 2 ? D 7 ? 19 1 1 C A 2 1_555 D U 6 1_555 0.010 -0.180 0.048 1.688 -14.190 -1.201 15 C_A3:U6_D C 3 ? D 6 ? 20 1 1 C G 3 1_555 D C 5 1_555 -0.214 -0.282 -0.387 -13.039 -17.907 3.959 16 C_G4:C5_D C 4 ? D 5 ? 19 1 1 C G 4 1_555 D C 4 1_555 -0.149 -0.126 0.233 -8.060 -18.792 -1.569 17 C_G5:C4_D C 5 ? D 4 ? 19 1 1 C U 5 1_555 D A 3 1_555 -0.099 -0.198 -0.012 0.158 -15.660 -0.385 18 C_U6:A3_D C 6 ? D 3 ? 20 1 1 C G 6 1_555 D C 2 1_555 -0.101 -0.313 -0.002 -0.827 -10.373 0.139 19 C_G7:C2_D C 7 ? D 2 ? 19 1 1 C G 9 1_555 C C 24 1_555 -0.155 -0.036 0.350 2.102 -11.323 -0.822 20 C_G10:C25_C C 10 ? C 25 ? 19 1 1 C A 10 1_555 C U 23 1_555 -0.097 -0.496 0.356 1.091 -21.184 0.528 21 C_A11:U24_C C 11 ? C 24 ? 20 1 1 C G 11 1_555 C C 22 1_555 -0.344 -0.267 0.016 -3.058 -13.087 1.994 22 C_G12:C23_C C 12 ? C 23 ? 19 1 1 C C 12 1_555 C G 21 1_555 0.245 -0.207 0.240 -4.471 -10.584 -0.066 23 C_C13:G22_C C 13 ? C 22 ? 19 1 1 C G 13 1_555 C C 20 1_555 0.012 -0.138 -0.243 -9.169 -6.570 2.647 24 C_G14:C21_C C 14 ? C 21 ? 19 1 1 C C 14 1_555 C G 19 1_555 0.391 -0.180 -0.025 -2.768 1.750 -3.439 25 C_C15:G20_C C 15 ? C 20 ? 19 1 1 C G 15 1_555 C A 18 1_555 6.986 -4.930 0.917 12.359 -0.605 -10.985 26 C_G16:A19_C C 16 ? C 19 ? 11 10 1 E G 1 1_555 F C 7 1_555 -0.272 -0.181 -0.072 -5.221 -2.379 -1.107 27 E_G2:C7_F E 2 ? F 7 ? 19 1 1 E A 2 1_555 F U 6 1_555 0.555 -0.295 0.282 4.972 -4.681 -5.176 28 E_A3:U6_F E 3 ? F 6 ? 20 1 1 E G 3 1_555 F C 5 1_555 -0.144 -0.185 -0.168 -7.539 -13.598 2.112 29 E_G4:C5_F E 4 ? F 5 ? 19 1 1 E G 4 1_555 F C 4 1_555 -0.385 0.033 0.407 -11.178 -20.343 7.684 30 E_G5:C4_F E 5 ? F 4 ? 19 1 1 E U 5 1_555 F A 3 1_555 0.033 -0.190 0.248 -9.993 -17.364 -3.513 31 E_U6:A3_F E 6 ? F 3 ? 20 1 1 E G 6 1_555 F C 2 1_555 0.080 -0.105 0.743 2.211 -12.563 4.222 32 E_G7:C2_F E 7 ? F 2 ? 19 1 1 E G 9 1_555 E C 24 1_555 -0.430 -0.358 -0.311 -3.635 -16.290 -2.078 33 E_G10:C25_E E 10 ? E 25 ? 19 1 1 E A 10 1_555 E U 23 1_555 0.276 -0.421 0.077 7.281 -18.962 1.206 34 E_A11:U24_E E 11 ? E 24 ? 20 1 1 E G 11 1_555 E C 22 1_555 -0.021 -0.321 0.077 1.268 -17.700 -5.384 35 E_G12:C23_E E 12 ? E 23 ? 19 1 1 E C 12 1_555 E G 21 1_555 0.028 -0.125 0.057 2.703 -10.719 -2.192 36 E_C13:G22_E E 13 ? E 22 ? 19 1 1 E G 13 1_555 E C 20 1_555 0.043 -0.037 0.357 -2.754 -10.478 3.576 37 E_G14:C21_E E 14 ? E 21 ? 19 1 1 E C 14 1_555 E G 19 1_555 0.847 -0.227 0.075 2.464 -1.771 3.041 38 E_C15:G20_E E 15 ? E 20 ? 19 1 1 E G 15 1_555 E A 18 1_555 6.959 -5.512 0.798 12.019 7.802 -15.169 39 E_G16:A19_E E 16 ? E 19 ? ? ? # 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 G 1 1_555 B C 7 1_555 A A 2 1_555 B U 6 1_555 0.040 -1.238 3.079 -2.250 5.435 33.453 -2.914 -0.397 2.840 9.352 3.871 33.951 1 AA_G2A3:U6C7_BB A 2 ? B 7 ? A 3 ? B 6 ? 1 A A 2 1_555 B U 6 1_555 A G 3 1_555 B C 5 1_555 0.123 -1.822 3.349 -0.704 7.579 32.323 -4.414 -0.329 2.857 13.384 1.244 33.184 2 AA_A3G4:C5U6_BB A 3 ? B 6 ? A 4 ? B 5 ? 1 A G 3 1_555 B C 5 1_555 A G 4 1_555 B C 4 1_555 1.173 -2.089 3.195 5.389 8.247 26.755 -5.981 -1.252 2.629 17.103 -11.175 28.480 3 AA_G4G5:C4C5_BB A 4 ? B 5 ? A 5 ? B 4 ? 1 A G 4 1_555 B C 4 1_555 A U 5 1_555 B A 3 1_555 -0.782 -1.360 3.124 -2.472 3.648 37.984 -2.509 0.900 3.029 5.582 3.783 38.229 4 AA_G5U6:A3C4_BB A 5 ? B 4 ? A 6 ? B 3 ? 1 A U 5 1_555 B A 3 1_555 A G 6 1_555 B C 2 1_555 0.917 -2.035 2.972 -0.241 6.234 27.900 -5.314 -1.905 2.461 12.728 0.493 28.575 5 AA_U6G7:C2A3_BB A 6 ? B 3 ? A 7 ? B 2 ? 1 A G 9 1_555 A C 24 1_555 A A 10 1_555 A U 23 1_555 0.146 -1.361 2.981 -3.125 5.016 31.648 -3.242 -0.753 2.713 9.098 5.668 32.181 6 AA_G10A11:U24C25_AA A 10 ? A 25 ? A 11 ? A 24 ? 1 A A 10 1_555 A U 23 1_555 A G 11 1_555 A C 22 1_555 0.025 -1.613 3.331 4.407 11.912 35.700 -3.936 0.497 2.662 18.715 -6.924 37.823 7 AA_A11G12:C23U24_AA A 11 ? A 24 ? A 12 ? A 23 ? 1 A G 11 1_555 A C 22 1_555 A C 12 1_555 A G 21 1_555 0.353 -1.992 3.076 5.605 0.725 23.144 -5.053 0.880 3.013 1.774 -13.710 23.815 8 AA_G12C13:G22C23_AA A 12 ? A 23 ? A 13 ? A 22 ? 1 A C 12 1_555 A G 21 1_555 A G 13 1_555 A C 20 1_555 0.928 -2.205 3.444 1.864 9.621 26.394 -6.676 -1.496 2.555 20.207 -3.914 28.125 9 AA_C13G14:C21G22_AA A 13 ? A 22 ? A 14 ? A 21 ? 1 A G 13 1_555 A C 20 1_555 A C 14 1_555 A G 19 1_555 -0.080 -2.267 3.286 0.297 3.867 32.469 -4.672 0.192 3.002 6.885 -0.529 32.693 10 AA_G14C15:G20C21_AA A 14 ? A 21 ? A 15 ? A 20 ? 1 A C 14 1_555 A G 19 1_555 A G 15 1_555 A A 18 1_555 -2.181 -1.033 2.768 -4.643 6.457 51.175 -1.557 2.230 2.802 7.424 5.338 51.748 11 AA_C15G16:A19G20_AA A 15 ? A 20 ? A 16 ? A 19 ? 1 C G 1 1_555 D C 7 1_555 C A 2 1_555 D U 6 1_555 0.312 -1.498 3.021 -2.478 2.360 30.860 -3.209 -1.013 2.868 4.418 4.639 31.045 12 CC_G2A3:U6C7_DD C 2 ? D 7 ? C 3 ? D 6 ? 1 C A 2 1_555 D U 6 1_555 C G 3 1_555 D C 5 1_555 -0.047 -2.016 3.678 4.003 10.027 32.966 -4.985 0.718 2.933 17.108 -6.831 34.642 13 CC_A3G4:C5U6_DD C 3 ? D 6 ? C 4 ? D 5 ? 1 C G 3 1_555 D C 5 1_555 C G 4 1_555 D C 4 1_555 0.809 -2.088 2.905 -1.062 8.716 29.944 -5.207 -1.667 2.196 16.429 2.003 31.176 14 CC_G4G5:C4C5_DD C 4 ? D 5 ? C 5 ? D 4 ? 1 C G 4 1_555 D C 4 1_555 C U 5 1_555 D A 3 1_555 -0.434 -1.587 3.087 1.070 2.985 32.699 -3.276 0.936 2.919 5.287 -1.895 32.849 15 CC_G5U6:A3C4_DD C 5 ? D 4 ? C 6 ? D 3 ? 1 C U 5 1_555 D A 3 1_555 C G 6 1_555 D C 2 1_555 0.331 -1.475 3.223 -0.970 10.752 29.443 -4.574 -0.779 2.529 20.315 1.833 31.319 16 CC_U6G7:C2A3_DD C 6 ? D 3 ? C 7 ? D 2 ? 1 C G 9 1_555 C C 24 1_555 C A 10 1_555 C U 23 1_555 0.029 -1.743 3.252 -1.206 6.209 32.349 -4.072 -0.245 2.874 11.013 2.140 32.946 17 CC_G10A11:U24C25_CC C 10 ? C 25 ? C 11 ? C 24 ? 1 C A 10 1_555 C U 23 1_555 C G 11 1_555 C C 22 1_555 -0.395 -1.683 3.238 0.680 7.905 30.850 -4.407 0.836 2.725 14.560 -1.252 31.830 18 CC_A11G12:C23U24_CC C 11 ? C 24 ? C 12 ? C 23 ? 1 C G 11 1_555 C C 22 1_555 C C 12 1_555 C G 21 1_555 0.152 -1.509 3.278 -0.158 8.838 34.153 -3.734 -0.274 2.812 14.744 0.264 35.245 19 CC_G12C13:G22C23_CC C 12 ? C 23 ? C 13 ? C 22 ? 1 C C 12 1_555 C G 21 1_555 C G 13 1_555 C C 20 1_555 0.797 -2.010 3.278 3.923 6.298 26.114 -5.794 -0.759 2.813 13.592 -8.467 27.130 20 CC_C13G14:C21G22_CC C 13 ? C 22 ? C 14 ? C 21 ? 1 C G 13 1_555 C C 20 1_555 C C 14 1_555 C G 19 1_555 -0.464 -2.319 3.260 -2.181 0.588 30.891 -4.456 0.451 3.241 1.102 4.087 30.972 21 CC_G14C15:G20C21_CC C 14 ? C 21 ? C 15 ? C 20 ? 1 C C 14 1_555 C G 19 1_555 C G 15 1_555 C A 18 1_555 -1.708 -1.029 2.844 -2.344 7.326 52.755 -1.548 1.777 2.756 8.195 2.622 53.273 22 CC_C15G16:A19G20_CC C 15 ? C 20 ? C 16 ? C 19 ? 1 E G 1 1_555 F C 7 1_555 E A 2 1_555 F U 6 1_555 -0.435 -1.574 3.048 -2.406 2.786 33.973 -3.083 0.391 2.936 4.751 4.103 34.166 23 EE_G2A3:U6C7_FF E 2 ? F 7 ? E 3 ? F 6 ? 1 E A 2 1_555 F U 6 1_555 E G 3 1_555 F C 5 1_555 0.232 -2.066 3.524 3.585 10.282 27.971 -6.061 0.271 2.626 20.323 -7.086 29.976 24 EE_A3G4:C5U6_FF E 3 ? F 6 ? E 4 ? F 5 ? 1 E G 3 1_555 F C 5 1_555 E G 4 1_555 F C 4 1_555 1.081 -2.031 3.073 -1.049 7.790 31.607 -4.796 -2.086 2.479 14.031 1.890 32.546 25 EE_G4G5:C4C5_FF E 4 ? F 5 ? E 5 ? F 4 ? 1 E G 4 1_555 F C 4 1_555 E U 5 1_555 F A 3 1_555 -0.944 -1.500 3.187 1.489 3.655 34.702 -3.021 1.787 2.977 6.103 -2.486 34.919 26 EE_G5U6:A3C4_FF E 5 ? F 4 ? E 6 ? F 3 ? 1 E U 5 1_555 F A 3 1_555 E G 6 1_555 F C 2 1_555 0.730 -1.747 2.626 -3.671 7.290 28.152 -4.595 -2.017 2.011 14.603 7.354 29.288 27 EE_U6G7:C2A3_FF E 6 ? F 3 ? E 7 ? F 2 ? 1 E G 9 1_555 E C 24 1_555 E A 10 1_555 E U 23 1_555 0.251 -1.047 2.941 -1.884 4.719 36.167 -2.244 -0.629 2.771 7.555 3.016 36.510 28 EE_G10A11:U24C25_EE E 10 ? E 25 ? E 11 ? E 24 ? 1 E A 10 1_555 E U 23 1_555 E G 11 1_555 E C 22 1_555 -0.193 -1.904 3.318 0.675 14.081 30.812 -5.308 0.429 2.254 24.930 -1.195 33.812 29 EE_A11G12:C23U24_EE E 11 ? E 24 ? E 12 ? E 23 ? 1 E G 11 1_555 E C 22 1_555 E C 12 1_555 E G 21 1_555 0.402 -1.899 3.330 1.122 4.225 31.753 -4.188 -0.530 3.070 7.676 -2.038 32.044 30 EE_G12C13:G22C23_EE E 12 ? E 23 ? E 13 ? E 22 ? 1 E C 12 1_555 E G 21 1_555 E G 13 1_555 E C 20 1_555 0.863 -1.968 3.177 -0.527 7.371 32.616 -4.525 -1.579 2.668 12.918 0.923 33.421 31 EE_C13G14:C21G22_EE E 13 ? E 22 ? E 14 ? E 21 ? 1 E G 13 1_555 E C 20 1_555 E C 14 1_555 E G 19 1_555 -0.322 -1.943 3.124 2.903 1.172 34.586 -3.425 0.958 3.022 1.966 -4.871 34.723 32 EE_G14C15:G20C21_EE E 14 ? E 21 ? E 15 ? E 20 ? 1 E C 14 1_555 E G 19 1_555 E G 15 1_555 E A 18 1_555 -2.145 -1.359 2.988 -1.789 9.191 50.403 -2.137 2.372 2.786 10.686 2.080 51.209 33 EE_C15G16:A19G20_EE E 15 ? E 20 ? E 16 ? E 19 ? # _pdbx_audit_support.funding_organization Howar _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id 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 5UZ6 _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 ? #