data_6U6J # _entry.id 6U6J # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.380 _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 6U6J pdb_00006u6j 10.2210/pdb6u6j/pdb WWPDB D_1000244040 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6U6J _pdbx_database_status.recvd_initial_deposition_date 2019-08-29 _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 ? 'Giurgiu, C.' 3 ? 'Wright, T.' 4 ? # _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 141 _citation.language ? _citation.page_first 18104 _citation.page_last 18112 _citation.title ;Prebiotically Plausible "Patching" of RNA Backbone Cleavage through a 3'-5' Pyrophosphate Linkage. ; _citation.year 2019 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/jacs.9b08237 _citation.pdbx_database_id_PubMed 31651170 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Wright, T.H.' 1 ? primary 'Giurgiu, C.' 2 ? primary 'Zhang, W.' 3 ? primary 'Radakovic, A.' 4 ? primary ;O'Flaherty, D.K. ; 5 ? primary 'Zhou, L.' 6 ? primary 'Szostak, J.W.' 7 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 120.00 _cell.angle_gamma_esd ? _cell.entry_id 6U6J _cell.details ? _cell.formula_units_Z ? _cell.length_a 43.304 _cell.length_a_esd ? _cell.length_b 43.304 _cell.length_b_esd ? _cell.length_c 84.303 _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 6U6J _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 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(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*G*(DPG))-3') ; 4937.990 2 ? ? ? ? 2 non-polymer nat "5'-O-[(R)-(2-amino-1H-imidazol-1-yl)(hydroxy)phosphoryl]guanosine" 428.297 2 ? ? ? ? 3 water nat water 18.015 35 ? ? ? ? # _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 '(LCC)(LCC)(LCC)(LCG)ACUUAAGUCG(GDP)' _entity_poly.pdbx_seq_one_letter_code_can NNNGACUUAAGUCGG _entity_poly.pdbx_strand_id A,B _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 LCC n 1 2 LCC n 1 3 LCC n 1 4 LCG n 1 5 A n 1 6 C n 1 7 U n 1 8 U n 1 9 A n 1 10 A n 1 11 G n 1 12 U n 1 13 C n 1 14 G n 1 15 GDP 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 15 _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 6U6J _struct_ref.pdbx_db_accession 6U6J _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 6U6J A 1 ? 15 ? 6U6J 1 ? 15 ? 1 15 2 1 6U6J B 1 ? 15 ? 6U6J 1 ? 15 ? 1 15 # 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 EQ4 'RNA linking' n "5'-O-[(R)-(2-amino-1H-imidazol-1-yl)(hydroxy)phosphoryl]guanosine" ? 'C13 H17 N8 O7 P' 428.297 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 GDP 'RNA linking' n "GUANOSINE-5'-DIPHOSPHATE" ? 'C10 H15 N5 O11 P2' 443.201 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 LCG 'RNA linking' n '[(1R,3R,4R,7S)-7-HYDROXY-3-(GUANIN-9-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE' ? 'C11 H14 N5 O8 P' 375.231 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 6U6J _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 2.49 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 50.68 _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 _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 '10mM MgCl2, 1.8 M Ammonium citrate tribasic pH 7.0' _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.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'MAR CCD 130 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 2019-08-15 _diffrn_detector.pdbx_frequency ? # _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 1.0 _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 1.0 _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 6U6J _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.6 _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 12495 _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 98.9 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 10.3 _reflns.pdbx_Rmerge_I_obs 0.059 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 44.9 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.854 _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 ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.994 _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 1.6 _reflns_shell.d_res_low 1.66 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 4.2 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 1234 _reflns_shell.percent_possible_all ? _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 0.536 _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 10.3 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared 0.388 _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 ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.991 _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 27.78 _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 6U6J _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 1.6 _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 11788 _refine.ls_number_reflns_R_free 630 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.21 _refine.ls_percent_reflns_R_free 5.1 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.23 _refine.ls_R_factor_R_free 0.28 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.23 _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 6C8D _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 ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _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 ? _refine.overall_SU_ML ? _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 598 _refine_hist.pdbx_number_atoms_ligand 112 _refine_hist.number_atoms_solvent 35 _refine_hist.number_atoms_total 745 _refine_hist.d_res_high 1.6 _refine_hist.d_res_low 50 # _refine_ls_shell.R_factor_R_free 0.285 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 0.249 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_obs ? _refine_ls_shell.d_res_high 1.601 _refine_ls_shell.d_res_low 1.642 _refine_ls_shell.number_reflns_R_free 845 _refine_ls_shell.number_reflns_R_work ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.pdbx_fsc_free ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.percent_reflns_obs 97.02 _refine_ls_shell.redundancy_reflns_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.wR_factor_R_free ? _refine_ls_shell.wR_factor_R_work ? _refine_ls_shell.wR_factor_all ? _refine_ls_shell.wR_factor_obs ? # _struct.entry_id 6U6J _struct.title 'RNA-monomer complex containing pyrophosphate linkage' _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 6U6J _struct_keywords.text 'RNA, pyrophosphate' _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 2 ? D N N 2 ? E N N 3 ? F 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 LCC 1 "O3'" ? ? ? 1_555 A LCC 2 P ? ? A LCC 1 A LCC 2 1_555 ? ? ? ? ? ? ? 1.548 ? ? covale2 covale both ? A LCC 2 "O3'" ? ? ? 1_555 A LCC 3 P ? ? A LCC 2 A LCC 3 1_555 ? ? ? ? ? ? ? 1.652 ? ? covale3 covale both ? A LCC 3 "O3'" ? ? ? 1_555 A LCG 4 P ? ? A LCC 3 A LCG 4 1_555 ? ? ? ? ? ? ? 1.675 ? ? covale4 covale both ? A LCG 4 "O3'" ? ? ? 1_555 A A 5 P ? ? A LCG 4 A A 5 1_555 ? ? ? ? ? ? ? 1.612 ? ? covale5 covale one ? A G 14 "O3'" ? ? ? 1_555 A GDP 15 PB ? ? A G 14 A GDP 15 1_555 ? ? ? ? ? ? ? 1.537 ? ? covale6 covale both ? B LCC 1 "O3'" ? ? ? 1_555 B LCC 2 P ? ? B LCC 1 B LCC 2 1_555 ? ? ? ? ? ? ? 1.570 ? ? covale7 covale both ? B LCC 2 "O3'" ? ? ? 1_555 B LCC 3 P ? ? B LCC 2 B LCC 3 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale8 covale both ? B LCC 3 "O3'" ? ? ? 1_555 B LCG 4 P ? ? B LCC 3 B LCG 4 1_555 ? ? ? ? ? ? ? 1.556 ? ? covale9 covale both ? B LCG 4 "O3'" ? ? ? 1_555 B A 5 P ? ? B LCG 4 B A 5 1_555 ? ? ? ? ? ? ? 1.571 ? ? covale10 covale one ? B G 14 "O3'" ? ? ? 1_555 B GDP 15 PB ? ? B G 14 B GDP 15 1_555 ? ? ? ? ? ? ? 1.506 ? ? hydrog1 hydrog ? ? A LCG 4 N1 ? ? ? 1_555 B C 13 N3 ? ? A LCG 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A LCG 4 N2 ? ? ? 1_555 B C 13 O2 ? ? A LCG 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A LCG 4 O6 ? ? ? 1_555 B C 13 N4 ? ? A LCG 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A A 5 N1 ? ? ? 1_555 B U 12 N3 ? ? A A 5 B U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A A 5 N6 ? ? ? 1_555 B U 12 O4 ? ? A A 5 B U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 6 N3 ? ? ? 1_555 B G 11 N1 ? ? A C 6 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 6 N4 ? ? ? 1_555 B G 11 O6 ? ? A C 6 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 6 O2 ? ? ? 1_555 B G 11 N2 ? ? A C 6 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A U 7 N3 ? ? ? 1_555 B A 10 N1 ? ? A U 7 B A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A U 7 O4 ? ? ? 1_555 B A 10 N6 ? ? A U 7 B A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A U 8 N3 ? ? ? 1_555 B A 9 N1 ? ? A U 8 B A 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A U 8 O4 ? ? ? 1_555 B A 9 N6 ? ? A U 8 B A 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 9 N1 ? ? ? 1_555 B U 8 N3 ? ? A A 9 B U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A 9 N6 ? ? ? 1_555 B U 8 O4 ? ? A A 9 B U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A A 10 N1 ? ? ? 1_555 B U 7 N3 ? ? A A 10 B U 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A A 10 N6 ? ? ? 1_555 B U 7 O4 ? ? A A 10 B U 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 11 N1 ? ? ? 1_555 B C 6 N3 ? ? A G 11 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 11 N2 ? ? ? 1_555 B C 6 O2 ? ? A G 11 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 11 O6 ? ? ? 1_555 B C 6 N4 ? ? A G 11 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A U 12 N3 ? ? ? 1_555 B A 5 N1 ? ? A U 12 B A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A U 12 O4 ? ? ? 1_555 B A 5 N6 ? ? A U 12 B A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 13 N3 ? ? ? 1_555 B LCG 4 N1 ? ? A C 13 B LCG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 13 N4 ? ? ? 1_555 B LCG 4 O6 ? ? A C 13 B LCG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 13 O2 ? ? ? 1_555 B LCG 4 N2 ? ? A C 13 B LCG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A EQ4 101 ? 3 'binding site for residue EQ4 A 101' AC2 Software B EQ4 101 ? 6 'binding site for residue EQ4 B 101' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 3 GDP A 15 ? GDP A 15 . ? 1_555 ? 2 AC1 3 LCC B 1 ? LCC B 1 . ? 1_555 ? 3 AC1 3 LCC B 2 ? LCC B 2 . ? 1_555 ? 4 AC2 6 LCC A 1 ? LCC A 1 . ? 6_765 ? 5 AC2 6 LCC A 1 ? LCC A 1 . ? 1_555 ? 6 AC2 6 LCC A 2 ? LCC A 2 . ? 1_555 ? 7 AC2 6 C B 13 ? C B 13 . ? 1_555 ? 8 AC2 6 G B 14 ? G B 14 . ? 1_555 ? 9 AC2 6 GDP B 15 ? GDP B 15 . ? 1_555 ? # _database_PDB_matrix.entry_id 6U6J _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 6U6J _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 0.023093 _atom_sites.fract_transf_matrix[1][2] 0.013332 _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] 0.026665 _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] 0.011862 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # 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 LCC 1 1 1 LCC LCC A . n A 1 2 LCC 2 2 2 LCC LCC A . n A 1 3 LCC 3 3 3 LCC LCC A . n A 1 4 LCG 4 4 4 LCG LCG A . n A 1 5 A 5 5 5 A A A . n A 1 6 C 6 6 6 C C A . n A 1 7 U 7 7 7 U U A . n A 1 8 U 8 8 8 U U A . n A 1 9 A 9 9 9 A A A . n A 1 10 A 10 10 10 A A A . n A 1 11 G 11 11 11 G G A . n A 1 12 U 12 12 12 U U A . n A 1 13 C 13 13 13 C C A . n A 1 14 G 14 14 14 G G A . n A 1 15 GDP 15 15 15 GDP DPG A . n B 1 1 LCC 1 1 1 LCC LCC B . n B 1 2 LCC 2 2 2 LCC LCC B . n B 1 3 LCC 3 3 3 LCC LCC B . n B 1 4 LCG 4 4 4 LCG LCG B . n B 1 5 A 5 5 5 A A B . n B 1 6 C 6 6 6 C C B . n B 1 7 U 7 7 7 U U B . n B 1 8 U 8 8 8 U U B . n B 1 9 A 9 9 9 A A B . n B 1 10 A 10 10 10 A A B . n B 1 11 G 11 11 11 G G B . n B 1 12 U 12 12 12 U U B . n B 1 13 C 13 13 13 C C B . n B 1 14 G 14 14 14 G G B . n B 1 15 GDP 15 15 15 GDP DPG B . 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 C 2 EQ4 1 101 1 EQ4 NG A . D 2 EQ4 1 101 2 EQ4 NG B . E 3 HOH 1 201 10 HOH HOH A . E 3 HOH 2 202 31 HOH HOH A . E 3 HOH 3 203 3 HOH HOH A . E 3 HOH 4 204 35 HOH HOH A . E 3 HOH 5 205 1 HOH HOH A . E 3 HOH 6 206 2 HOH HOH A . E 3 HOH 7 207 12 HOH HOH A . E 3 HOH 8 208 23 HOH HOH A . E 3 HOH 9 209 9 HOH HOH A . E 3 HOH 10 210 25 HOH HOH A . E 3 HOH 11 211 14 HOH HOH A . E 3 HOH 12 212 24 HOH HOH A . E 3 HOH 13 213 30 HOH HOH A . E 3 HOH 14 214 11 HOH HOH A . E 3 HOH 15 215 32 HOH HOH A . E 3 HOH 16 216 4 HOH HOH A . E 3 HOH 17 217 7 HOH HOH A . E 3 HOH 18 218 29 HOH HOH A . E 3 HOH 19 219 26 HOH HOH A . F 3 HOH 1 201 19 HOH HOH B . F 3 HOH 2 202 22 HOH HOH B . F 3 HOH 3 203 28 HOH HOH B . F 3 HOH 4 204 33 HOH HOH B . F 3 HOH 5 205 21 HOH HOH B . F 3 HOH 6 206 27 HOH HOH B . F 3 HOH 7 207 18 HOH HOH B . F 3 HOH 8 208 20 HOH HOH B . F 3 HOH 9 209 16 HOH HOH B . F 3 HOH 10 210 8 HOH HOH B . F 3 HOH 11 211 17 HOH HOH B . F 3 HOH 12 212 34 HOH HOH B . F 3 HOH 13 213 6 HOH HOH B . F 3 HOH 14 214 15 HOH HOH B . F 3 HOH 15 215 5 HOH HOH B . F 3 HOH 16 216 13 HOH HOH B . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # 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)' 3890 ? 1 MORE 15 ? 1 'SSA (A^2)' 5690 ? # _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 219 ? E HOH . 2 1 B HOH 205 ? F HOH . 3 1 B HOH 208 ? F 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 2019-11-20 2 'Structure model' 1 1 2019-11-27 3 'Structure model' 1 2 2023-10-11 # _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_author.identifier_ORCID' 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 ? ? ? . 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _pdbx_entry_details.entry_id 6U6J _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 "O5'" _pdbx_validate_rmsd_bond.auth_asym_id_1 B _pdbx_validate_rmsd_bond.auth_comp_id_1 G _pdbx_validate_rmsd_bond.auth_seq_id_1 11 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 "C5'" _pdbx_validate_rmsd_bond.auth_asym_id_2 B _pdbx_validate_rmsd_bond.auth_comp_id_2 G _pdbx_validate_rmsd_bond.auth_seq_id_2 11 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.365 _pdbx_validate_rmsd_bond.bond_target_value 1.420 _pdbx_validate_rmsd_bond.bond_deviation -0.055 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.009 _pdbx_validate_rmsd_bond.linker_flag N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "C3'" B LCC 1 ? ? "O3'" B LCC 1 ? ? P B LCC 2 ? ? 111.66 119.70 -8.04 1.20 Y 2 1 "C3'" B LCC 3 ? ? "O3'" B LCC 3 ? ? P B LCG 4 ? ? 109.06 119.70 -10.64 1.20 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 EQ4 P1 P N N 73 EQ4 O1 O N N 74 EQ4 O2 O N N 75 EQ4 C1 C N N 76 EQ4 O3 O N N 77 EQ4 C2 C N R 78 EQ4 O4 O N N 79 EQ4 C3 C N S 80 EQ4 O5 O N N 81 EQ4 C4 C N R 82 EQ4 O6 O N N 83 EQ4 C5 C N R 84 EQ4 N1 N N N 85 EQ4 C6 C N N 86 EQ4 N2 N N N 87 EQ4 N3 N N N 88 EQ4 C7 C Y N 89 EQ4 C8 C Y N 90 EQ4 C9 C N N 91 EQ4 O7 O N N 92 EQ4 N4 N Y N 93 EQ4 C10 C Y N 94 EQ4 N5 N Y N 95 EQ4 N6 N Y N 96 EQ4 C11 C Y N 97 EQ4 C12 C Y N 98 EQ4 N7 N Y N 99 EQ4 C13 C Y N 100 EQ4 N8 N N N 101 EQ4 H1 H N N 102 EQ4 H2 H N N 103 EQ4 H3 H N N 104 EQ4 H4 H N N 105 EQ4 H5 H N N 106 EQ4 H6 H N N 107 EQ4 H7 H N N 108 EQ4 H8 H N N 109 EQ4 H9 H N N 110 EQ4 H10 H N N 111 EQ4 H11 H N N 112 EQ4 H12 H N N 113 EQ4 H13 H N N 114 EQ4 H14 H N N 115 EQ4 H15 H N N 116 EQ4 H16 H N N 117 EQ4 H17 H N N 118 G OP3 O N N 119 G P P N N 120 G OP1 O N N 121 G OP2 O N N 122 G "O5'" O N N 123 G "C5'" C N N 124 G "C4'" C N R 125 G "O4'" O N N 126 G "C3'" C N S 127 G "O3'" O N N 128 G "C2'" C N R 129 G "O2'" O N N 130 G "C1'" C N R 131 G N9 N Y N 132 G C8 C Y N 133 G N7 N Y N 134 G C5 C Y N 135 G C6 C N N 136 G O6 O N N 137 G N1 N N N 138 G C2 C N N 139 G N2 N N N 140 G N3 N N N 141 G C4 C Y N 142 G HOP3 H N N 143 G HOP2 H N N 144 G "H5'" H N N 145 G "H5''" H N N 146 G "H4'" H N N 147 G "H3'" H N N 148 G "HO3'" H N N 149 G "H2'" H N N 150 G "HO2'" H N N 151 G "H1'" H N N 152 G H8 H N N 153 G H1 H N N 154 G H21 H N N 155 G H22 H N N 156 GDP PB P N N 157 GDP O1B O N N 158 GDP O2B O N N 159 GDP O3B O N N 160 GDP O3A O N N 161 GDP PA P N N 162 GDP O1A O N N 163 GDP O2A O N N 164 GDP "O5'" O N N 165 GDP "C5'" C N N 166 GDP "C4'" C N R 167 GDP "O4'" O N N 168 GDP "C3'" C N S 169 GDP "O3'" O N N 170 GDP "C2'" C N R 171 GDP "O2'" O N N 172 GDP "C1'" C N R 173 GDP N9 N Y N 174 GDP C8 C Y N 175 GDP N7 N Y N 176 GDP C5 C Y N 177 GDP C6 C N N 178 GDP O6 O N N 179 GDP N1 N N N 180 GDP C2 C N N 181 GDP N2 N N N 182 GDP N3 N N N 183 GDP C4 C Y N 184 GDP HOB2 H N N 185 GDP HOB3 H N N 186 GDP HOA2 H N N 187 GDP "H5'" H N N 188 GDP "H5''" H N N 189 GDP "H4'" H N N 190 GDP "H3'" H N N 191 GDP "HO3'" H N N 192 GDP "H2'" H N N 193 GDP "HO2'" H N N 194 GDP "H1'" H N N 195 GDP H8 H N N 196 GDP HN1 H N N 197 GDP HN21 H N N 198 GDP HN22 H N N 199 HOH O O N N 200 HOH H1 H N N 201 HOH H2 H N N 202 LCC "O5'" O N N 203 LCC "C5'" C N N 204 LCC "C4'" C N R 205 LCC "O4'" O N N 206 LCC "C1'" C N R 207 LCC N1 N N N 208 LCC C6 C N N 209 LCC C5 C N N 210 LCC C5M C N N 211 LCC C4 C N N 212 LCC N4 N N N 213 LCC N3 N N N 214 LCC C2 C N N 215 LCC O2 O N N 216 LCC "C3'" C N S 217 LCC "C2'" C N R 218 LCC "O2'" O N N 219 LCC "O3'" O N N 220 LCC "C6'" C N N 221 LCC P P N N 222 LCC O1P O N N 223 LCC O2P O N N 224 LCC OXT O N N 225 LCC "H5'1" H N N 226 LCC "H5'2" H N N 227 LCC "H1'" H N N 228 LCC H6 H N N 229 LCC H5M1 H N N 230 LCC H5M2 H N N 231 LCC H5M3 H N N 232 LCC H41 H N N 233 LCC H42 H N N 234 LCC "H3'" H N N 235 LCC "H2'1" H N N 236 LCC H3T H N N 237 LCC "H6'1" H N N 238 LCC "H6'2" H N N 239 LCC H1P H N N 240 LCC HXT H N N 241 LCG P P N N 242 LCG OP1 O N N 243 LCG "O5'" O N N 244 LCG "C5'" C N N 245 LCG "C3'" C N S 246 LCG "C6'" C N N 247 LCG N9 N Y N 248 LCG C8 C Y N 249 LCG C4 C Y N 250 LCG N7 N Y N 251 LCG C5 C Y N 252 LCG C6 C N N 253 LCG "C2'" C N R 254 LCG O6 O N N 255 LCG "C4'" C N R 256 LCG "C1'" C N R 257 LCG C2 C N N 258 LCG N1 N N N 259 LCG "O4'" O N N 260 LCG OP2 O N N 261 LCG N2 N N N 262 LCG N3 N N N 263 LCG "O2'" O N N 264 LCG "O3'" O N N 265 LCG OP3 O N N 266 LCG "H5'" H N N 267 LCG "H5''" H N N 268 LCG "H3'" H N N 269 LCG "H6'1" H N N 270 LCG "H6'2" H N N 271 LCG H8 H N N 272 LCG "H2'" H N N 273 LCG "H1'" H N N 274 LCG H1 H N N 275 LCG HOP2 H N N 276 LCG H21 H N N 277 LCG H22 H N N 278 LCG "HO3'" H N N 279 LCG HOP3 H N N 280 U OP3 O N N 281 U P P N N 282 U OP1 O N N 283 U OP2 O N N 284 U "O5'" O N N 285 U "C5'" C N N 286 U "C4'" C N R 287 U "O4'" O N N 288 U "C3'" C N S 289 U "O3'" O N N 290 U "C2'" C N R 291 U "O2'" O N N 292 U "C1'" C N R 293 U N1 N N N 294 U C2 C N N 295 U O2 O N N 296 U N3 N N N 297 U C4 C N N 298 U O4 O N N 299 U C5 C N N 300 U C6 C N N 301 U HOP3 H N N 302 U HOP2 H N N 303 U "H5'" H N N 304 U "H5''" H N N 305 U "H4'" H N N 306 U "H3'" H N N 307 U "HO3'" H N N 308 U "H2'" H N N 309 U "HO2'" H N N 310 U "H1'" H N N 311 U H3 H N N 312 U H5 H N N 313 U H6 H N N 314 # 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 EQ4 C12 N7 sing Y N 76 EQ4 C12 C11 doub Y N 77 EQ4 N7 C13 doub Y N 78 EQ4 C11 N6 sing Y N 79 EQ4 C13 N8 sing N N 80 EQ4 C13 N6 sing Y N 81 EQ4 N6 P1 sing N N 82 EQ4 O2 P1 doub N N 83 EQ4 O5 C3 sing N N 84 EQ4 P1 O3 sing N N 85 EQ4 P1 O1 sing N N 86 EQ4 O3 C1 sing N N 87 EQ4 C3 C2 sing N N 88 EQ4 C3 C4 sing N N 89 EQ4 O6 C4 sing N N 90 EQ4 C2 C1 sing N N 91 EQ4 C2 O4 sing N N 92 EQ4 C4 C5 sing N N 93 EQ4 O4 C5 sing N N 94 EQ4 C5 N5 sing N N 95 EQ4 C10 N5 sing Y N 96 EQ4 C10 N4 doub Y N 97 EQ4 N5 C7 sing Y N 98 EQ4 N4 C8 sing Y N 99 EQ4 C7 C8 doub Y N 100 EQ4 C7 N3 sing N N 101 EQ4 C8 C9 sing N N 102 EQ4 N3 C6 doub N N 103 EQ4 C9 O7 doub N N 104 EQ4 C9 N1 sing N N 105 EQ4 C6 N1 sing N N 106 EQ4 C6 N2 sing N N 107 EQ4 O1 H1 sing N N 108 EQ4 C1 H2 sing N N 109 EQ4 C1 H3 sing N N 110 EQ4 C2 H4 sing N N 111 EQ4 C3 H5 sing N N 112 EQ4 O5 H6 sing N N 113 EQ4 C4 H7 sing N N 114 EQ4 O6 H8 sing N N 115 EQ4 C5 H9 sing N N 116 EQ4 N1 H10 sing N N 117 EQ4 N2 H11 sing N N 118 EQ4 N2 H12 sing N N 119 EQ4 C10 H13 sing N N 120 EQ4 C11 H14 sing N N 121 EQ4 C12 H15 sing N N 122 EQ4 N8 H16 sing N N 123 EQ4 N8 H17 sing N N 124 G OP3 P sing N N 125 G OP3 HOP3 sing N N 126 G P OP1 doub N N 127 G P OP2 sing N N 128 G P "O5'" sing N N 129 G OP2 HOP2 sing N N 130 G "O5'" "C5'" sing N N 131 G "C5'" "C4'" sing N N 132 G "C5'" "H5'" sing N N 133 G "C5'" "H5''" sing N N 134 G "C4'" "O4'" sing N N 135 G "C4'" "C3'" sing N N 136 G "C4'" "H4'" sing N N 137 G "O4'" "C1'" sing N N 138 G "C3'" "O3'" sing N N 139 G "C3'" "C2'" sing N N 140 G "C3'" "H3'" sing N N 141 G "O3'" "HO3'" sing N N 142 G "C2'" "O2'" sing N N 143 G "C2'" "C1'" sing N N 144 G "C2'" "H2'" sing N N 145 G "O2'" "HO2'" sing N N 146 G "C1'" N9 sing N N 147 G "C1'" "H1'" sing N N 148 G N9 C8 sing Y N 149 G N9 C4 sing Y N 150 G C8 N7 doub Y N 151 G C8 H8 sing N N 152 G N7 C5 sing Y N 153 G C5 C6 sing N N 154 G C5 C4 doub Y N 155 G C6 O6 doub N N 156 G C6 N1 sing N N 157 G N1 C2 sing N N 158 G N1 H1 sing N N 159 G C2 N2 sing N N 160 G C2 N3 doub N N 161 G N2 H21 sing N N 162 G N2 H22 sing N N 163 G N3 C4 sing N N 164 GDP PB O1B doub N N 165 GDP PB O2B sing N N 166 GDP PB O3B sing N N 167 GDP PB O3A sing N N 168 GDP O2B HOB2 sing N N 169 GDP O3B HOB3 sing N N 170 GDP O3A PA sing N N 171 GDP PA O1A doub N N 172 GDP PA O2A sing N N 173 GDP PA "O5'" sing N N 174 GDP O2A HOA2 sing N N 175 GDP "O5'" "C5'" sing N N 176 GDP "C5'" "C4'" sing N N 177 GDP "C5'" "H5'" sing N N 178 GDP "C5'" "H5''" sing N N 179 GDP "C4'" "O4'" sing N N 180 GDP "C4'" "C3'" sing N N 181 GDP "C4'" "H4'" sing N N 182 GDP "O4'" "C1'" sing N N 183 GDP "C3'" "O3'" sing N N 184 GDP "C3'" "C2'" sing N N 185 GDP "C3'" "H3'" sing N N 186 GDP "O3'" "HO3'" sing N N 187 GDP "C2'" "O2'" sing N N 188 GDP "C2'" "C1'" sing N N 189 GDP "C2'" "H2'" sing N N 190 GDP "O2'" "HO2'" sing N N 191 GDP "C1'" N9 sing N N 192 GDP "C1'" "H1'" sing N N 193 GDP N9 C8 sing Y N 194 GDP N9 C4 sing Y N 195 GDP C8 N7 doub Y N 196 GDP C8 H8 sing N N 197 GDP N7 C5 sing Y N 198 GDP C5 C6 sing N N 199 GDP C5 C4 doub Y N 200 GDP C6 O6 doub N N 201 GDP C6 N1 sing N N 202 GDP N1 C2 sing N N 203 GDP N1 HN1 sing N N 204 GDP C2 N2 sing N N 205 GDP C2 N3 doub N N 206 GDP N2 HN21 sing N N 207 GDP N2 HN22 sing N N 208 GDP N3 C4 sing N N 209 HOH O H1 sing N N 210 HOH O H2 sing N N 211 LCC "O5'" "C5'" sing N N 212 LCC "O5'" P sing N N 213 LCC "C5'" "C4'" sing N N 214 LCC "C5'" "H5'1" sing N N 215 LCC "C5'" "H5'2" sing N N 216 LCC "C4'" "O4'" sing N N 217 LCC "C4'" "C3'" sing N N 218 LCC "C4'" "C6'" sing N N 219 LCC "O4'" "C1'" sing N N 220 LCC "C1'" N1 sing N N 221 LCC "C1'" "C2'" sing N N 222 LCC "C1'" "H1'" sing N N 223 LCC N1 C6 sing N N 224 LCC N1 C2 sing N N 225 LCC C6 C5 doub N N 226 LCC C6 H6 sing N N 227 LCC C5 C5M sing N N 228 LCC C5 C4 sing N N 229 LCC C5M H5M1 sing N N 230 LCC C5M H5M2 sing N N 231 LCC C5M H5M3 sing N N 232 LCC C4 N4 sing N N 233 LCC C4 N3 doub N N 234 LCC N4 H41 sing N N 235 LCC N4 H42 sing N N 236 LCC N3 C2 sing N N 237 LCC C2 O2 doub N N 238 LCC "C3'" "C2'" sing N N 239 LCC "C3'" "O3'" sing N N 240 LCC "C3'" "H3'" sing N N 241 LCC "C2'" "O2'" sing N N 242 LCC "C2'" "H2'1" sing N N 243 LCC "O2'" "C6'" sing N N 244 LCC "O3'" H3T sing N N 245 LCC "C6'" "H6'1" sing N N 246 LCC "C6'" "H6'2" sing N N 247 LCC P O1P sing N N 248 LCC P O2P doub N N 249 LCC P OXT sing N N 250 LCC O1P H1P sing N N 251 LCC OXT HXT sing N N 252 LCG P OP1 doub N N 253 LCG P "O5'" sing N N 254 LCG P OP2 sing N N 255 LCG P OP3 sing N N 256 LCG "O5'" "C5'" sing N N 257 LCG "C5'" "C4'" sing N N 258 LCG "C5'" "H5'" sing N N 259 LCG "C5'" "H5''" sing N N 260 LCG "C3'" "C2'" sing N N 261 LCG "C3'" "C4'" sing N N 262 LCG "C3'" "O3'" sing N N 263 LCG "C3'" "H3'" sing N N 264 LCG "C6'" "C4'" sing N N 265 LCG "C6'" "O2'" sing N N 266 LCG "C6'" "H6'1" sing N N 267 LCG "C6'" "H6'2" sing N N 268 LCG N9 C8 sing Y N 269 LCG N9 C4 sing Y N 270 LCG N9 "C1'" sing N N 271 LCG C8 N7 doub Y N 272 LCG C8 H8 sing N N 273 LCG C4 C5 doub Y N 274 LCG C4 N3 sing N N 275 LCG N7 C5 sing Y N 276 LCG C5 C6 sing N N 277 LCG C6 O6 doub N N 278 LCG C6 N1 sing N N 279 LCG "C2'" "C1'" sing N N 280 LCG "C2'" "O2'" sing N N 281 LCG "C2'" "H2'" sing N N 282 LCG "C4'" "O4'" sing N N 283 LCG "C1'" "O4'" sing N N 284 LCG "C1'" "H1'" sing N N 285 LCG C2 N1 sing N N 286 LCG C2 N2 sing N N 287 LCG C2 N3 doub N N 288 LCG N1 H1 sing N N 289 LCG OP2 HOP2 sing N N 290 LCG N2 H21 sing N N 291 LCG N2 H22 sing N N 292 LCG "O3'" "HO3'" sing N N 293 LCG OP3 HOP3 sing N N 294 U OP3 P sing N N 295 U OP3 HOP3 sing N N 296 U P OP1 doub N N 297 U P OP2 sing N N 298 U P "O5'" sing N N 299 U OP2 HOP2 sing N N 300 U "O5'" "C5'" sing N N 301 U "C5'" "C4'" sing N N 302 U "C5'" "H5'" sing N N 303 U "C5'" "H5''" sing N N 304 U "C4'" "O4'" sing N N 305 U "C4'" "C3'" sing N N 306 U "C4'" "H4'" sing N N 307 U "O4'" "C1'" sing N N 308 U "C3'" "O3'" sing N N 309 U "C3'" "C2'" sing N N 310 U "C3'" "H3'" sing N N 311 U "O3'" "HO3'" sing N N 312 U "C2'" "O2'" sing N N 313 U "C2'" "C1'" sing N N 314 U "C2'" "H2'" sing N N 315 U "O2'" "HO2'" sing N N 316 U "C1'" N1 sing N N 317 U "C1'" "H1'" sing N N 318 U N1 C2 sing N N 319 U N1 C6 sing N N 320 U C2 O2 doub N N 321 U C2 N3 sing N N 322 U N3 C4 sing N N 323 U N3 H3 sing N N 324 U C4 O4 doub N N 325 U C4 C5 sing N N 326 U C5 C6 doub N N 327 U C5 H5 sing N N 328 U C6 H6 sing N N 329 # _ndb_struct_conf_na.entry_id 6U6J _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 LCG 4 1_555 B C 13 1_555 -0.263 -0.189 0.066 -2.282 -15.739 0.548 1 A_LCG4:C13_B A 4 ? B 13 ? 19 1 1 A A 5 1_555 B U 12 1_555 0.100 -0.092 0.246 6.237 -12.053 -1.443 2 A_A5:U12_B A 5 ? B 12 ? 20 1 1 A C 6 1_555 B G 11 1_555 0.171 -0.154 0.060 8.254 -16.373 -0.819 3 A_C6:G11_B A 6 ? B 11 ? 19 1 1 A U 7 1_555 B A 10 1_555 -0.045 -0.066 -0.018 4.390 -15.872 0.741 4 A_U7:A10_B A 7 ? B 10 ? 20 1 1 A U 8 1_555 B A 9 1_555 -0.019 -0.098 -0.004 3.879 -12.015 1.967 5 A_U8:A9_B A 8 ? B 9 ? 20 1 1 A A 9 1_555 B U 8 1_555 -0.059 -0.099 0.066 -3.532 -17.438 5.118 6 A_A9:U8_B A 9 ? B 8 ? 20 1 1 A A 10 1_555 B U 7 1_555 0.085 -0.174 -0.012 -2.055 -12.654 -0.466 7 A_A10:U7_B A 10 ? B 7 ? 20 1 1 A G 11 1_555 B C 6 1_555 -0.217 -0.153 -0.069 -9.169 -17.384 1.116 8 A_G11:C6_B A 11 ? B 6 ? 19 1 1 A U 12 1_555 B A 5 1_555 0.043 -0.132 0.067 -3.789 -10.182 -2.292 9 A_U12:A5_B A 12 ? B 5 ? 20 1 1 A C 13 1_555 B LCG 4 1_555 0.234 -0.164 0.135 0.134 -14.189 -0.807 10 A_C13:LCG4_B A 13 ? B 4 ? 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 LCG 4 1_555 B C 13 1_555 A A 5 1_555 B U 12 1_555 0.029 -1.018 3.037 -0.260 2.750 33.136 -2.200 -0.090 2.945 4.812 0.455 33.248 1 AA_LCG4A5:U12C13_BB A 4 ? B 13 ? A 5 ? B 12 ? 1 A A 5 1_555 B U 12 1_555 A C 6 1_555 B G 11 1_555 0.509 -1.451 3.206 2.284 4.927 32.979 -3.301 -0.525 2.991 8.607 -3.990 33.411 2 AA_A5C6:G11U12_BB A 5 ? B 12 ? A 6 ? B 11 ? 1 A C 6 1_555 B G 11 1_555 A U 7 1_555 B A 10 1_555 -0.557 -1.785 3.245 -2.510 10.585 28.775 -5.252 0.605 2.486 20.402 4.838 30.722 3 AA_C6U7:A10G11_BB A 6 ? B 11 ? A 7 ? B 10 ? 1 A U 7 1_555 B A 10 1_555 A U 8 1_555 B A 9 1_555 -0.131 -1.180 3.247 -2.746 10.529 31.874 -3.656 -0.196 2.732 18.511 4.828 33.634 4 AA_U7U8:A9A10_BB A 7 ? B 10 ? A 8 ? B 9 ? 1 A U 8 1_555 B A 9 1_555 A A 9 1_555 B U 8 1_555 0.420 -1.528 3.302 1.491 18.365 30.542 -4.894 -0.494 2.095 31.521 -2.559 35.555 5 AA_U8A9:U8A9_BB A 8 ? B 9 ? A 9 ? B 8 ? 1 A A 9 1_555 B U 8 1_555 A A 10 1_555 B U 7 1_555 -0.581 -1.260 3.204 0.236 5.360 34.444 -2.878 1.005 2.976 8.984 -0.395 34.846 6 AA_A9A10:U7U8_BB A 9 ? B 8 ? A 10 ? B 7 ? 1 A A 10 1_555 B U 7 1_555 A G 11 1_555 B C 6 1_555 0.404 -1.634 3.414 2.757 8.279 29.422 -4.694 -0.230 2.883 15.867 -5.284 30.662 7 AA_A10G11:C6U7_BB A 10 ? B 7 ? A 11 ? B 6 ? 1 A G 11 1_555 B C 6 1_555 A U 12 1_555 B A 5 1_555 -0.410 -1.295 3.111 -1.924 5.407 32.464 -3.132 0.420 2.882 9.578 3.409 32.954 8 AA_G11U12:A5C6_BB A 11 ? B 6 ? A 12 ? B 5 ? 1 A U 12 1_555 B A 5 1_555 A C 13 1_555 B LCG 4 1_555 0.353 -1.188 3.157 0.252 6.581 32.659 -3.094 -0.577 2.872 11.557 -0.442 33.299 9 AA_U12C13:LCG4A5_BB A 12 ? B 5 ? A 13 ? B 4 ? # _pdbx_audit_support.funding_organization 'Howard Hughes Medical Institute (HHMI)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id GDP _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id GDP _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 "5'-O-[(R)-(2-amino-1H-imidazol-1-yl)(hydroxy)phosphoryl]guanosine" EQ4 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 6C8D _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 ? #