data_6P2H # _entry.id 6P2H # _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 6P2H pdb_00006p2h 10.2210/pdb6p2h/pdb WWPDB D_1000241577 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6P2H _pdbx_database_status.recvd_initial_deposition_date 2019-05-21 _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 'Matyjasik, M.M.' 1 0000-0002-5887-8428 'Batey, R.T.' 2 0000-0002-1384-6625 # _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 UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_id_ASTM NARHAD _citation.journal_id_CSD 0389 _citation.journal_id_ISSN 1362-4962 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 47 _citation.language ? _citation.page_first 10931 _citation.page_last 10941 _citation.title ;Structural basis for 2'-deoxyguanosine recognition by the 2'-dG-II class of riboswitches. ; _citation.year 2019 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkz839 _citation.pdbx_database_id_PubMed 31598729 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Matyjasik, M.M.' 1 ? primary 'Batey, R.T.' 2 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 6P2H _cell.details ? _cell.formula_units_Z ? _cell.length_a 91.805 _cell.length_a_esd ? _cell.length_b 91.805 _cell.length_b_esd ? _cell.length_c 77.756 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 8 _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 6P2H _symmetry.cell_setting ? _symmetry.Int_Tables_number 91 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 2 2' _symmetry.pdbx_full_space_group_name_H-M ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn 'RNA (69-MER)' 22323.186 1 ? ? ? ? 2 non-polymer syn "2'-DEOXY-GUANOSINE" 267.241 1 ? ? ? ? 3 non-polymer syn 'COBALT HEXAMMINE(III)' 161.116 5 ? ? ? ? 4 non-polymer syn 'MAGNESIUM ION' 24.305 5 ? ? ? ? 5 water nat water 18.015 12 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name ;Env1 2'-deoxyguanosine-II riboswitch aptamer domain ; # _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 '(GTP)GGUGUAAUCUCCAAAAUAUGGUUGGGGAGCCUCCACCAGUGAACCGUAAAAUCGCUGUCACCACCCAG' _entity_poly.pdbx_seq_one_letter_code_can GGGUGUAAUCUCCAAAAUAUGGUUGGGGAGCCUCCACCAGUGAACCGUAAAAUCGCUGUCACCACCCAG _entity_poly.pdbx_strand_id A _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 GTP n 1 2 G n 1 3 G n 1 4 U n 1 5 G n 1 6 U n 1 7 A n 1 8 A n 1 9 U n 1 10 C n 1 11 U n 1 12 C n 1 13 C n 1 14 A n 1 15 A n 1 16 A n 1 17 A n 1 18 U n 1 19 A n 1 20 U n 1 21 G n 1 22 G n 1 23 U n 1 24 U n 1 25 G n 1 26 G n 1 27 G n 1 28 G n 1 29 A n 1 30 G n 1 31 C n 1 32 C n 1 33 U n 1 34 C n 1 35 C n 1 36 A n 1 37 C n 1 38 C n 1 39 A n 1 40 G n 1 41 U n 1 42 G n 1 43 A n 1 44 A n 1 45 C n 1 46 C n 1 47 G n 1 48 U n 1 49 A n 1 50 A n 1 51 A n 1 52 A n 1 53 U n 1 54 C n 1 55 G n 1 56 C n 1 57 U n 1 58 G n 1 59 U n 1 60 C n 1 61 A n 1 62 C n 1 63 C n 1 64 A n 1 65 C n 1 66 C n 1 67 C n 1 68 A n 1 69 G n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _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 6P2H _struct_ref.pdbx_db_accession 6P2H _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 6P2H _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 69 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 6P2H _struct_ref_seq.db_align_beg 17 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 85 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 17 _struct_ref_seq.pdbx_auth_seq_align_end 85 # 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 GNG non-polymer n "2'-DEOXY-GUANOSINE" ? 'C10 H13 N5 O4' 267.241 GTP non-polymer n "GUANOSINE-5'-TRIPHOSPHATE" ? 'C10 H16 N5 O14 P3' 523.180 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 NCO non-polymer . 'COBALT HEXAMMINE(III)' ? 'Co H18 N6 3' 161.116 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 6P2H _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 3.67 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 66.48 _exptl_crystal.description Tetragonal _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, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 303 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;40 mM sodium cacodylate pH 6.0, 23% v/v methylpentanediol, 18 mM cobalt hexamine, 80 mM potassium chloride, and 12 mM sodium chloride ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details 'Liquid nitrogen cryostream' _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 PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS PILATUS 200K' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2018-06-22 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator Cu _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 1.5406 _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 'ROTATING ANODE' _diffrn_source.target ? _diffrn_source.type 'RIGAKU MICROMAX-007 HF' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.5406 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_synchrotron_site ? # _reflns.B_iso_Wilson_estimate 58.19 _reflns.entry_id 6P2H _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.803 _reflns.d_resolution_low 29.953 _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 8547 _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 97.69 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 10.8 _reflns.pdbx_Rmerge_I_obs 0.096 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 27.25 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 1.990 _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all 0.03 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 2.803 _reflns_shell.d_res_low 2.904 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 3.37 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 816 _reflns_shell.percent_possible_all 97.69 _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 0.608 _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 1.515 _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all 0.195 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.946 _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean ? _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 6P2H _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 2.803 _refine.ls_d_res_low 29.953 _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 8547 _refine.ls_number_reflns_R_free 843 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.17 _refine.ls_percent_reflns_R_free 10.00 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2474 _refine.ls_R_factor_R_free 0.2756 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2443 _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 1.33 _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 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 4FE5 _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 30.00 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.47 _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.details ? _refine_hist.d_res_high 2.803 _refine_hist.d_res_low 29.953 _refine_hist.number_atoms_solvent 12 _refine_hist.number_atoms_total 1549 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 1478 _refine_hist.pdbx_number_atoms_ligand 59 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # 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' ? 0.001 ? 1704 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 0.535 ? 2675 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 14.997 ? 827 ? f_dihedral_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.024 ? 347 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.002 ? 70 ? f_plane_restr ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 2.8035 2.9790 . . 135 1221 98.00 . . . 0.4974 . 0.4213 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.9790 3.2088 . . 132 1220 97.00 . . . 0.3518 . 0.3187 . . . . . . . . . . 'X-RAY DIFFRACTION' 3.2088 3.5312 . . 140 1243 98.00 . . . 0.3094 . 0.2654 . . . . . . . . . . 'X-RAY DIFFRACTION' 3.5312 4.0411 . . 140 1246 98.00 . . . 0.2568 . 0.2237 . . . . . . . . . . 'X-RAY DIFFRACTION' 4.0411 5.0873 . . 144 1278 99.00 . . . 0.2351 . 0.2042 . . . . . . . . . . 'X-RAY DIFFRACTION' 5.0873 29.9547 . . 152 1383 99.00 . . . 0.2408 . 0.2217 . . . . . . . . . . # _struct.entry_id 6P2H _struct.title ;Structural basis for 2'-deoxyguanosine recognition by the 2'-dG-II class of riboswitches ; _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 6P2H _struct_keywords.text ;riboswitch aptamer 2'-deoxyguanosine purine nucleoside, RNA ; _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 3 ? E N N 3 ? F N N 3 ? G N N 3 ? H N N 4 ? I N N 4 ? J N N 4 ? K N N 4 ? L N N 4 ? M N N 5 ? # 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 GTP 1 "O3'" ? ? ? 1_555 A G 2 P ? ? A GTP 17 A G 18 1_555 ? ? ? ? ? ? ? 1.559 ? ? covale2 covale none ? A G 2 OP2 ? ? ? 1_555 F NCO . N4 ? ? A G 18 A NCO 105 1_555 ? ? ? ? ? ? ? 1.299 ? ? covale3 covale none ? A G 40 OP2 ? ? ? 1_555 G NCO . N2 ? ? A G 56 A NCO 106 1_555 ? ? ? ? ? ? ? 1.297 ? ? metalc1 metalc ? ? A U 6 "O3'" ? ? ? 1_555 K MG . MG ? ? A U 22 A MG 110 1_555 ? ? ? ? ? ? ? 2.694 ? ? metalc2 metalc ? ? A U 6 "O2'" ? ? ? 1_555 K MG . MG ? ? A U 22 A MG 110 1_555 ? ? ? ? ? ? ? 2.471 ? ? metalc3 metalc ? ? A A 7 OP2 ? ? ? 1_555 I MG . MG ? ? A A 23 A MG 108 1_555 ? ? ? ? ? ? ? 2.467 ? ? metalc4 metalc ? ? A A 8 OP1 ? ? ? 1_555 H MG . MG ? ? A A 24 A MG 107 1_555 ? ? ? ? ? ? ? 2.241 ? ? metalc5 metalc ? ? A A 8 OP2 ? ? ? 1_555 I MG . MG ? ? A A 24 A MG 108 1_555 ? ? ? ? ? ? ? 2.283 ? ? metalc6 metalc ? ? B GNG . O6 ? ? ? 1_555 K MG . MG ? ? A GNG 101 A MG 110 1_555 ? ? ? ? ? ? ? 2.568 ? ? metalc7 metalc ? ? H MG . MG ? ? ? 1_555 M HOH . O ? ? A MG 107 A HOH 205 1_555 ? ? ? ? ? ? ? 2.369 ? ? metalc8 metalc ? ? H MG . MG ? ? ? 1_555 M HOH . O ? ? A MG 107 A HOH 209 1_555 ? ? ? ? ? ? ? 2.711 ? ? hydrog1 hydrog ? ? A GTP 1 N1 ? ? ? 1_555 A C 67 N3 ? ? A GTP 17 A C 83 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A GTP 1 N2 ? ? ? 1_555 A C 67 O2 ? ? A GTP 17 A C 83 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A GTP 1 O6 ? ? ? 1_555 A C 67 N4 ? ? A GTP 17 A C 83 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 66 N3 ? ? A G 18 A C 82 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 66 O2 ? ? A G 18 A C 82 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 66 N4 ? ? A G 18 A C 82 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 N1 ? ? ? 1_555 A C 65 N3 ? ? A G 19 A C 81 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 3 N2 ? ? ? 1_555 A C 65 O2 ? ? A G 19 A C 81 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 3 O6 ? ? ? 1_555 A C 65 N4 ? ? A G 19 A C 81 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A U 4 N3 ? ? ? 1_555 A A 64 N1 ? ? A U 20 A A 80 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A U 4 O4 ? ? ? 1_555 A A 64 N6 ? ? A U 20 A A 80 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 5 N1 ? ? ? 1_555 A C 63 N3 ? ? A G 21 A C 79 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A G 5 N2 ? ? ? 1_555 A C 63 O2 ? ? A G 21 A C 79 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 5 O6 ? ? ? 1_555 A C 63 N4 ? ? A G 21 A C 79 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A U 6 N3 ? ? ? 1_555 A A 36 N1 ? ? A U 22 A A 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A U 6 O4 ? ? ? 1_555 A A 36 N6 ? ? A U 22 A A 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A A 7 N1 ? ? ? 1_555 A G 30 N2 ? ? A A 23 A G 46 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog18 hydrog ? ? A A 7 N6 ? ? ? 1_555 A G 30 N3 ? ? A A 23 A G 46 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog19 hydrog ? ? A A 8 N6 ? ? ? 1_555 A U 59 O4 ? ? A A 24 A U 75 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog20 hydrog ? ? A A 8 N7 ? ? ? 1_555 A U 59 N3 ? ? A A 24 A U 75 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog21 hydrog ? ? A U 9 N3 ? ? ? 1_555 A A 29 N1 ? ? A U 25 A A 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A U 9 O4 ? ? ? 1_555 A A 29 N6 ? ? A U 25 A A 45 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 10 N3 ? ? ? 1_555 A G 28 N1 ? ? A C 26 A G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 10 N4 ? ? ? 1_555 A G 28 O6 ? ? A C 26 A G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A C 10 O2 ? ? ? 1_555 A G 28 N2 ? ? A C 26 A G 44 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A U 11 N3 ? ? ? 1_555 A G 27 O6 ? ? A U 27 A G 43 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog27 hydrog ? ? A U 11 O2 ? ? ? 1_555 A G 27 N1 ? ? A U 27 A G 43 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog28 hydrog ? ? A C 12 N3 ? ? ? 1_555 A G 26 N1 ? ? A C 28 A G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 12 N4 ? ? ? 1_555 A G 26 O6 ? ? A C 28 A G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 12 O2 ? ? ? 1_555 A G 26 N2 ? ? A C 28 A G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A C 13 N3 ? ? ? 1_555 A G 25 N1 ? ? A C 29 A G 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A C 13 N4 ? ? ? 1_555 A G 25 O6 ? ? A C 29 A G 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A C 13 O2 ? ? ? 1_555 A G 25 N2 ? ? A C 29 A G 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A A 14 N1 ? ? ? 1_555 A U 24 N3 ? ? A A 30 A U 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A A 14 N6 ? ? ? 1_555 A U 24 O4 ? ? A A 30 A U 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A A 15 N1 ? ? ? 1_555 A U 23 N3 ? ? A A 31 A U 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A A 15 N6 ? ? ? 1_555 A U 23 O4 ? ? A A 31 A U 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A A 17 N1 ? ? ? 1_555 A A 51 N6 ? ? A A 33 A A 67 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog39 hydrog ? ? A A 17 N6 ? ? ? 1_555 A A 51 N7 ? ? A A 33 A A 67 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog40 hydrog ? ? A U 18 O2 ? ? ? 1_555 A G 21 N2 ? ? A U 34 A G 37 1_555 ? ? ? ? ? ? 'U-G MISPAIR' ? ? ? hydrog41 hydrog ? ? A U 18 N3 ? ? ? 1_555 A A 50 N7 ? ? A U 34 A A 66 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog42 hydrog ? ? A U 18 O2 ? ? ? 1_555 A A 50 N6 ? ? A U 34 A A 66 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog43 hydrog ? ? A A 19 N6 ? ? ? 1_555 A A 49 N1 ? ? A A 35 A A 65 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog44 hydrog ? ? A A 19 N7 ? ? ? 1_555 A A 49 N6 ? ? A A 35 A A 65 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog45 hydrog ? ? A G 21 N1 ? ? ? 1_555 A C 46 N3 ? ? A G 37 A C 62 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? A G 21 N2 ? ? ? 1_555 A C 46 O2 ? ? A G 37 A C 62 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? A G 21 O6 ? ? ? 1_555 A C 46 N4 ? ? A G 37 A C 62 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? A G 22 N1 ? ? ? 1_555 A C 45 N3 ? ? A G 38 A C 61 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? A G 22 N2 ? ? ? 1_555 A C 45 O2 ? ? A G 38 A C 61 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? A G 22 O6 ? ? ? 1_555 A C 45 N4 ? ? A G 38 A C 61 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? A G 22 N2 ? ? ? 1_555 A A 51 N1 ? ? A G 38 A A 67 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog52 hydrog ? ? A G 22 N3 ? ? ? 1_555 A A 51 N6 ? ? A G 38 A A 67 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog53 hydrog ? ? A G 30 O6 ? ? ? 1_555 A C 37 N4 ? ? A G 46 A C 53 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog54 hydrog ? ? A U 33 N3 ? ? ? 1_555 A A 64 N3 ? ? A U 49 A A 80 1_555 ? ? ? ? ? ? 'U-A PAIR' ? ? ? hydrog55 hydrog ? ? A C 34 N4 ? ? ? 1_555 A C 63 O2 ? ? A C 50 A C 79 1_555 ? ? ? ? ? ? 'C-C MISPAIR' ? ? ? hydrog56 hydrog ? ? A A 36 N3 ? ? ? 1_555 A A 61 N6 ? ? A A 52 A A 77 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog57 hydrog ? ? A C 38 N3 ? ? ? 1_555 A G 58 N1 ? ? A C 54 A G 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? A C 38 N4 ? ? ? 1_555 A G 58 O6 ? ? A C 54 A G 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? A C 38 O2 ? ? ? 1_555 A G 58 N2 ? ? A C 54 A G 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? A A 39 N1 ? ? ? 1_555 A U 57 N3 ? ? A A 55 A U 73 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? A A 39 N6 ? ? ? 1_555 A U 57 O4 ? ? A A 55 A U 73 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? A G 40 N1 ? ? ? 1_555 A C 56 N3 ? ? A G 56 A C 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? A G 40 N2 ? ? ? 1_555 A C 56 O2 ? ? A G 56 A C 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? A G 40 O6 ? ? ? 1_555 A C 56 N4 ? ? A G 56 A C 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? A U 41 N3 ? ? ? 1_555 A G 55 O6 ? ? A U 57 A G 71 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog66 hydrog ? ? A U 41 O2 ? ? ? 1_555 A G 55 N1 ? ? A U 57 A G 71 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog67 hydrog ? ? A G 42 N1 ? ? ? 1_555 A C 54 N3 ? ? A G 58 A C 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? A G 42 N2 ? ? ? 1_555 A C 54 O2 ? ? A G 58 A C 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? A G 42 O6 ? ? ? 1_555 A C 54 N4 ? ? A G 58 A C 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? A A 43 N1 ? ? ? 1_555 A U 53 N3 ? ? A A 59 A U 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog71 hydrog ? ? A A 43 N6 ? ? ? 1_555 A U 53 O4 ? ? A A 59 A U 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog72 hydrog ? ? A A 44 N6 ? ? ? 1_555 A A 52 N1 ? ? A A 60 A A 68 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog73 hydrog ? ? A C 46 O2 ? ? ? 1_555 A A 50 N6 ? ? A C 62 A A 66 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A GNG 101 ? 12 'binding site for residue GNG A 101' AC2 Software A NCO 102 ? 5 'binding site for residue NCO A 102' AC3 Software A NCO 103 ? 5 'binding site for residue NCO A 103' AC4 Software A NCO 104 ? 5 'binding site for residue NCO A 104' AC5 Software A NCO 105 ? 3 'binding site for residue NCO A 105' AC6 Software A NCO 106 ? 3 'binding site for residue NCO A 106' AC7 Software A MG 107 ? 3 'binding site for residue MG A 107' AC8 Software A MG 108 ? 3 'binding site for residue MG A 108' AC9 Software A MG 109 ? 1 'binding site for residue MG A 109' AD1 Software A MG 110 ? 5 'binding site for residue MG A 110' # 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 12 G A 5 ? G A 21 . ? 1_555 ? 2 AC1 12 U A 6 ? U A 22 . ? 1_555 ? 3 AC1 12 C A 31 ? C A 47 . ? 1_555 ? 4 AC1 12 C A 32 ? C A 48 . ? 1_555 ? 5 AC1 12 U A 33 ? U A 49 . ? 1_555 ? 6 AC1 12 C A 34 ? C A 50 . ? 1_555 ? 7 AC1 12 C A 35 ? C A 51 . ? 1_555 ? 8 AC1 12 A A 36 ? A A 52 . ? 1_555 ? 9 AC1 12 C A 62 ? C A 78 . ? 1_555 ? 10 AC1 12 C A 63 ? C A 79 . ? 1_555 ? 11 AC1 12 NCO D . ? NCO A 103 . ? 1_555 ? 12 AC1 12 MG K . ? MG A 110 . ? 1_555 ? 13 AC2 5 U A 11 ? U A 27 . ? 1_555 ? 14 AC2 5 G A 26 ? G A 42 . ? 1_555 ? 15 AC2 5 G A 27 ? G A 43 . ? 1_555 ? 16 AC2 5 G A 28 ? G A 44 . ? 1_555 ? 17 AC2 5 C A 38 ? C A 54 . ? 1_555 ? 18 AC3 5 G A 30 ? G A 46 . ? 1_555 ? 19 AC3 5 C A 31 ? C A 47 . ? 1_555 ? 20 AC3 5 C A 32 ? C A 48 . ? 1_555 ? 21 AC3 5 C A 34 ? C A 50 . ? 1_555 ? 22 AC3 5 GNG B . ? GNG A 101 . ? 1_555 ? 23 AC4 5 U A 4 ? U A 20 . ? 1_555 ? 24 AC4 5 G A 5 ? G A 21 . ? 1_555 ? 25 AC4 5 U A 6 ? U A 22 . ? 1_555 ? 26 AC4 5 A A 7 ? A A 23 . ? 1_555 ? 27 AC4 5 MG K . ? MG A 110 . ? 1_555 ? 28 AC5 3 GTP A 1 ? GTP A 17 . ? 1_555 ? 29 AC5 3 G A 2 ? G A 18 . ? 1_555 ? 30 AC5 3 C A 60 ? C A 76 . ? 1_555 ? 31 AC6 3 U A 24 ? U A 40 . ? 1_555 ? 32 AC6 3 A A 39 ? A A 55 . ? 1_555 ? 33 AC6 3 G A 40 ? G A 56 . ? 1_555 ? 34 AC7 3 A A 8 ? A A 24 . ? 1_555 ? 35 AC7 3 HOH M . ? HOH A 205 . ? 1_555 ? 36 AC7 3 HOH M . ? HOH A 209 . ? 1_555 ? 37 AC8 3 A A 7 ? A A 23 . ? 1_555 ? 38 AC8 3 A A 8 ? A A 24 . ? 1_555 ? 39 AC8 3 MG K . ? MG A 110 . ? 1_555 ? 40 AC9 1 U A 41 ? U A 57 . ? 1_555 ? 41 AD1 5 U A 6 ? U A 22 . ? 1_555 ? 42 AD1 5 A A 7 ? A A 23 . ? 1_555 ? 43 AD1 5 GNG B . ? GNG A 101 . ? 1_555 ? 44 AD1 5 NCO E . ? NCO A 104 . ? 1_555 ? 45 AD1 5 MG I . ? MG A 108 . ? 1_555 ? # _atom_sites.entry_id 6P2H _atom_sites.fract_transf_matrix[1][1] 0.010893 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.010893 _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] 0.012861 _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 _atom_type.scat_dispersion_real _atom_type.scat_dispersion_imag _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_c _atom_type.scat_source _atom_type.scat_dispersion_source C ? ? 3.54356 2.42580 25.62398 1.50364 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? CO ? ? 21.85313 5.04979 2.45200 36.11361 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? MG ? ? 9.41153 2.53737 2.59044 63.03566 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? N ? ? 4.01032 2.96436 19.97189 1.75589 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 7.96527 ? 9.05267 ? 0.0 ;1-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? P ? ? 9.51135 5.44231 1.42069 35.72801 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # 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 GTP 1 17 17 GTP GTP A . n A 1 2 G 2 18 18 G G A . n A 1 3 G 3 19 19 G G A . n A 1 4 U 4 20 20 U U A . n A 1 5 G 5 21 21 G G A . n A 1 6 U 6 22 22 U U A . n A 1 7 A 7 23 23 A A A . n A 1 8 A 8 24 24 A A A . n A 1 9 U 9 25 25 U U A . n A 1 10 C 10 26 26 C C A . n A 1 11 U 11 27 27 U U A . n A 1 12 C 12 28 28 C C A . n A 1 13 C 13 29 29 C C A . n A 1 14 A 14 30 30 A A A . n A 1 15 A 15 31 31 A A A . n A 1 16 A 16 32 32 A A A . n A 1 17 A 17 33 33 A A A . n A 1 18 U 18 34 34 U U A . n A 1 19 A 19 35 35 A A A . n A 1 20 U 20 36 36 U U A . n A 1 21 G 21 37 37 G G A . n A 1 22 G 22 38 38 G G A . n A 1 23 U 23 39 39 U U A . n A 1 24 U 24 40 40 U U A . n A 1 25 G 25 41 41 G G A . n A 1 26 G 26 42 42 G G A . n A 1 27 G 27 43 43 G G A . n A 1 28 G 28 44 44 G G A . n A 1 29 A 29 45 45 A A A . n A 1 30 G 30 46 46 G G A . n A 1 31 C 31 47 47 C C A . n A 1 32 C 32 48 48 C C A . n A 1 33 U 33 49 49 U U A . n A 1 34 C 34 50 50 C C A . n A 1 35 C 35 51 51 C C A . n A 1 36 A 36 52 52 A A A . n A 1 37 C 37 53 53 C C A . n A 1 38 C 38 54 54 C C A . n A 1 39 A 39 55 55 A A A . n A 1 40 G 40 56 56 G G A . n A 1 41 U 41 57 57 U U A . n A 1 42 G 42 58 58 G G A . n A 1 43 A 43 59 59 A A A . n A 1 44 A 44 60 60 A A A . n A 1 45 C 45 61 61 C C A . n A 1 46 C 46 62 62 C C A . n A 1 47 G 47 63 63 G G A . n A 1 48 U 48 64 64 U U A . n A 1 49 A 49 65 65 A A A . n A 1 50 A 50 66 66 A A A . n A 1 51 A 51 67 67 A A A . n A 1 52 A 52 68 68 A A A . n A 1 53 U 53 69 69 U U A . n A 1 54 C 54 70 70 C C A . n A 1 55 G 55 71 71 G G A . n A 1 56 C 56 72 72 C C A . n A 1 57 U 57 73 73 U U A . n A 1 58 G 58 74 74 G G A . n A 1 59 U 59 75 75 U U A . n A 1 60 C 60 76 76 C C A . n A 1 61 A 61 77 77 A A A . n A 1 62 C 62 78 78 C C A . n A 1 63 C 63 79 79 C C A . n A 1 64 A 64 80 80 A A A . n A 1 65 C 65 81 81 C C A . n A 1 66 C 66 82 82 C C A . n A 1 67 C 67 83 83 C C A . n A 1 68 A 68 84 84 A A A . n A 1 69 G 69 85 85 G G A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 GNG 1 101 1 GNG GNG A . C 3 NCO 1 102 1 NCO NCO A . D 3 NCO 1 103 3 NCO NCO A . E 3 NCO 1 104 5 NCO NCO A . F 3 NCO 1 105 6 NCO NCO A . G 3 NCO 1 106 7 NCO NCO A . H 4 MG 1 107 1 MG MG A . I 4 MG 1 108 2 MG MG A . J 4 MG 1 109 3 MG MG A . K 4 MG 1 110 4 MG MG A . L 4 MG 1 111 5 MG MG A . M 5 HOH 1 201 12 HOH HOH A . M 5 HOH 2 202 7 HOH HOH A . M 5 HOH 3 203 9 HOH HOH A . M 5 HOH 4 204 10 HOH HOH A . M 5 HOH 5 205 5 HOH HOH A . M 5 HOH 6 206 11 HOH HOH A . M 5 HOH 7 207 6 HOH HOH A . M 5 HOH 8 208 2 HOH HOH A . M 5 HOH 9 209 13 HOH HOH A . M 5 HOH 10 210 1 HOH HOH A . M 5 HOH 11 211 4 HOH HOH A . M 5 HOH 12 212 3 HOH HOH A . # _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 # _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,G,H,I,J,K,L,M # _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 207 ? M HOH . 2 1 A HOH 212 ? M HOH . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 "O3'" ? A U 6 ? A U 22 ? 1_555 MG ? K MG . ? A MG 110 ? 1_555 "O2'" ? A U 6 ? A U 22 ? 1_555 63.2 ? 2 "O3'" ? A U 6 ? A U 22 ? 1_555 MG ? K MG . ? A MG 110 ? 1_555 O6 ? B GNG . ? A GNG 101 ? 1_555 126.6 ? 3 "O2'" ? A U 6 ? A U 22 ? 1_555 MG ? K MG . ? A MG 110 ? 1_555 O6 ? B GNG . ? A GNG 101 ? 1_555 66.2 ? 4 OP2 ? A A 7 ? A A 23 ? 1_555 MG ? I MG . ? A MG 108 ? 1_555 OP2 ? A A 8 ? A A 24 ? 1_555 85.3 ? 5 OP1 ? A A 8 ? A A 24 ? 1_555 MG ? H MG . ? A MG 107 ? 1_555 O ? M HOH . ? A HOH 205 ? 1_555 78.5 ? 6 OP1 ? A A 8 ? A A 24 ? 1_555 MG ? H MG . ? A MG 107 ? 1_555 O ? M HOH . ? A HOH 209 ? 1_555 162.1 ? 7 O ? M HOH . ? A HOH 205 ? 1_555 MG ? H MG . ? A MG 107 ? 1_555 O ? M HOH . ? A HOH 209 ? 1_555 89.3 ? # 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 2019-10-23 2 'Structure model' 1 1 2019-11-27 3 'Structure model' 1 2 2020-01-01 4 'Structure model' 1 3 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' 'Author supporting evidence' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 4 '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' pdbx_audit_support 3 4 'Structure model' chem_comp_atom 4 4 'Structure model' chem_comp_bond 5 4 'Structure model' database_2 6 4 'Structure model' pdbx_initial_refinement_model 7 4 'Structure model' pdbx_struct_conn_angle 8 4 'Structure model' struct_conn # 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 3 'Structure model' '_pdbx_audit_support.funding_organization' 5 4 'Structure model' '_database_2.pdbx_DOI' 6 4 'Structure model' '_database_2.pdbx_database_accession' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.value' 10 4 'Structure model' '_struct_conn.conn_type_id' 11 4 'Structure model' '_struct_conn.id' 12 4 'Structure model' '_struct_conn.pdbx_dist_value' 13 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 14 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 15 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 16 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 17 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 18 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 19 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 20 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 21 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 22 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 23 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 -y,x,z+1/4 3 y,-x,z+3/4 4 x,-y,-z+1/2 5 -x,y,-z 6 -x,-y,z+1/2 7 y,x,-z+3/4 8 -y,-x,-z+1/4 # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.14-3260 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-3000 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-3000 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # 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 GTP 17 ? ? "O3'" A GTP 17 ? ? P A G 18 ? ? 95.78 119.70 -23.92 1.20 Y 2 1 "O3'" A GTP 17 ? ? P A G 18 ? ? OP2 A G 18 ? ? 134.65 110.50 24.15 1.10 Y 3 1 "O3'" A GTP 17 ? ? P A G 18 ? ? OP1 A G 18 ? ? 76.74 105.20 -28.46 2.20 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 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 GNG "O5'" O N N 111 GNG "C5'" C N N 112 GNG "C4'" C N R 113 GNG "O4'" O N N 114 GNG "C1'" C N R 115 GNG N9 N Y N 116 GNG C8 C Y N 117 GNG N7 N Y N 118 GNG C5 C Y N 119 GNG C4 C Y N 120 GNG N3 N N N 121 GNG C2 C N N 122 GNG N1 N N N 123 GNG C6 C N N 124 GNG O6 O N N 125 GNG N2 N N N 126 GNG "C2'" C N N 127 GNG "C3'" C N S 128 GNG "O3'" O N N 129 GNG "H5'" H N N 130 GNG "H5'1" H N N 131 GNG "H5'2" H N N 132 GNG "H4'" H N N 133 GNG "H1'" H N N 134 GNG H8 H N N 135 GNG HN3 H N N 136 GNG HN21 H N N 137 GNG HN22 H N N 138 GNG "H2'1" H N N 139 GNG "H2'2" H N N 140 GNG "H3'" H N N 141 GNG H1 H N N 142 GTP PG P N N 143 GTP O1G O N N 144 GTP O2G O N N 145 GTP O3G O N N 146 GTP O3B O N N 147 GTP PB P N N 148 GTP O1B O N N 149 GTP O2B O N N 150 GTP O3A O N N 151 GTP PA P N N 152 GTP O1A O N N 153 GTP O2A O N N 154 GTP "O5'" O N N 155 GTP "C5'" C N N 156 GTP "C4'" C N R 157 GTP "O4'" O N N 158 GTP "C3'" C N S 159 GTP "O3'" O N N 160 GTP "C2'" C N R 161 GTP "O2'" O N N 162 GTP "C1'" C N R 163 GTP N9 N Y N 164 GTP C8 C Y N 165 GTP N7 N Y N 166 GTP C5 C Y N 167 GTP C6 C N N 168 GTP O6 O N N 169 GTP N1 N N N 170 GTP C2 C N N 171 GTP N2 N N N 172 GTP N3 N N N 173 GTP C4 C Y N 174 GTP HOG2 H N N 175 GTP HOG3 H N N 176 GTP HOB2 H N N 177 GTP HOA2 H N N 178 GTP "H5'" H N N 179 GTP "H5''" H N N 180 GTP "H4'" H N N 181 GTP "H3'" H N N 182 GTP "HO3'" H N N 183 GTP "H2'" H N N 184 GTP "HO2'" H N N 185 GTP "H1'" H N N 186 GTP H8 H N N 187 GTP HN1 H N N 188 GTP HN21 H N N 189 GTP HN22 H N N 190 HOH O O N N 191 HOH H1 H N N 192 HOH H2 H N N 193 MG MG MG N N 194 NCO CO CO N N 195 NCO N1 N N N 196 NCO N2 N N N 197 NCO N3 N N N 198 NCO N4 N N N 199 NCO N5 N N N 200 NCO N6 N N N 201 NCO HN11 H N N 202 NCO HN12 H N N 203 NCO HN13 H N N 204 NCO HN21 H N N 205 NCO HN22 H N N 206 NCO HN23 H N N 207 NCO HN31 H N N 208 NCO HN32 H N N 209 NCO HN33 H N N 210 NCO HN41 H N N 211 NCO HN42 H N N 212 NCO HN43 H N N 213 NCO HN51 H N N 214 NCO HN52 H N N 215 NCO HN53 H N N 216 NCO HN61 H N N 217 NCO HN62 H N N 218 NCO HN63 H N N 219 U OP3 O N N 220 U P P N N 221 U OP1 O N N 222 U OP2 O N N 223 U "O5'" O N N 224 U "C5'" C N N 225 U "C4'" C N R 226 U "O4'" O N N 227 U "C3'" C N S 228 U "O3'" O N N 229 U "C2'" C N R 230 U "O2'" O N N 231 U "C1'" C N R 232 U N1 N N N 233 U C2 C N N 234 U O2 O N N 235 U N3 N N N 236 U C4 C N N 237 U O4 O N N 238 U C5 C N N 239 U C6 C N N 240 U HOP3 H N N 241 U HOP2 H N N 242 U "H5'" H N N 243 U "H5''" H N N 244 U "H4'" H N N 245 U "H3'" H N N 246 U "HO3'" H N N 247 U "H2'" H N N 248 U "HO2'" H N N 249 U "H1'" H N N 250 U H3 H N N 251 U H5 H N N 252 U H6 H N N 253 # 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 GNG "O5'" "C5'" sing N N 116 GNG "O5'" "H5'" sing N N 117 GNG "C5'" "C4'" sing N N 118 GNG "C5'" "H5'1" sing N N 119 GNG "C5'" "H5'2" sing N N 120 GNG "C4'" "O4'" sing N N 121 GNG "C4'" "C3'" sing N N 122 GNG "C4'" "H4'" sing N N 123 GNG "O4'" "C1'" sing N N 124 GNG "C1'" N9 sing N N 125 GNG "C1'" "C2'" sing N N 126 GNG "C1'" "H1'" sing N N 127 GNG N9 C8 sing Y N 128 GNG N9 C4 sing Y N 129 GNG C8 N7 doub Y N 130 GNG C8 H8 sing N N 131 GNG N7 C5 sing Y N 132 GNG C5 C4 doub Y N 133 GNG C5 C6 sing N N 134 GNG C4 N3 sing N N 135 GNG N3 C2 sing N N 136 GNG N3 HN3 sing N N 137 GNG C2 N1 doub N N 138 GNG C2 N2 sing N N 139 GNG N1 C6 sing N N 140 GNG C6 O6 doub N N 141 GNG N2 HN21 sing N N 142 GNG N2 HN22 sing N N 143 GNG "C2'" "C3'" sing N N 144 GNG "C2'" "H2'1" sing N N 145 GNG "C2'" "H2'2" sing N N 146 GNG "C3'" "O3'" sing N N 147 GNG "C3'" "H3'" sing N N 148 GNG "O3'" H1 sing N N 149 GTP PG O1G doub N N 150 GTP PG O2G sing N N 151 GTP PG O3G sing N N 152 GTP PG O3B sing N N 153 GTP O2G HOG2 sing N N 154 GTP O3G HOG3 sing N N 155 GTP O3B PB sing N N 156 GTP PB O1B doub N N 157 GTP PB O2B sing N N 158 GTP PB O3A sing N N 159 GTP O2B HOB2 sing N N 160 GTP O3A PA sing N N 161 GTP PA O1A doub N N 162 GTP PA O2A sing N N 163 GTP PA "O5'" sing N N 164 GTP O2A HOA2 sing N N 165 GTP "O5'" "C5'" sing N N 166 GTP "C5'" "C4'" sing N N 167 GTP "C5'" "H5'" sing N N 168 GTP "C5'" "H5''" sing N N 169 GTP "C4'" "O4'" sing N N 170 GTP "C4'" "C3'" sing N N 171 GTP "C4'" "H4'" sing N N 172 GTP "O4'" "C1'" sing N N 173 GTP "C3'" "O3'" sing N N 174 GTP "C3'" "C2'" sing N N 175 GTP "C3'" "H3'" sing N N 176 GTP "O3'" "HO3'" sing N N 177 GTP "C2'" "O2'" sing N N 178 GTP "C2'" "C1'" sing N N 179 GTP "C2'" "H2'" sing N N 180 GTP "O2'" "HO2'" sing N N 181 GTP "C1'" N9 sing N N 182 GTP "C1'" "H1'" sing N N 183 GTP N9 C8 sing Y N 184 GTP N9 C4 sing Y N 185 GTP C8 N7 doub Y N 186 GTP C8 H8 sing N N 187 GTP N7 C5 sing Y N 188 GTP C5 C6 sing N N 189 GTP C5 C4 doub Y N 190 GTP C6 O6 doub N N 191 GTP C6 N1 sing N N 192 GTP N1 C2 sing N N 193 GTP N1 HN1 sing N N 194 GTP C2 N2 sing N N 195 GTP C2 N3 doub N N 196 GTP N2 HN21 sing N N 197 GTP N2 HN22 sing N N 198 GTP N3 C4 sing N N 199 HOH O H1 sing N N 200 HOH O H2 sing N N 201 NCO CO N1 sing N N 202 NCO CO N2 sing N N 203 NCO CO N3 sing N N 204 NCO CO N4 sing N N 205 NCO CO N5 sing N N 206 NCO CO N6 sing N N 207 NCO N1 HN11 sing N N 208 NCO N1 HN12 sing N N 209 NCO N1 HN13 sing N N 210 NCO N2 HN21 sing N N 211 NCO N2 HN22 sing N N 212 NCO N2 HN23 sing N N 213 NCO N3 HN31 sing N N 214 NCO N3 HN32 sing N N 215 NCO N3 HN33 sing N N 216 NCO N4 HN41 sing N N 217 NCO N4 HN42 sing N N 218 NCO N4 HN43 sing N N 219 NCO N5 HN51 sing N N 220 NCO N5 HN52 sing N N 221 NCO N5 HN53 sing N N 222 NCO N6 HN61 sing N N 223 NCO N6 HN62 sing N N 224 NCO N6 HN63 sing N N 225 U OP3 P sing N N 226 U OP3 HOP3 sing N N 227 U P OP1 doub N N 228 U P OP2 sing N N 229 U P "O5'" sing N N 230 U OP2 HOP2 sing N N 231 U "O5'" "C5'" sing N N 232 U "C5'" "C4'" sing N N 233 U "C5'" "H5'" sing N N 234 U "C5'" "H5''" sing N N 235 U "C4'" "O4'" sing N N 236 U "C4'" "C3'" sing N N 237 U "C4'" "H4'" sing N N 238 U "O4'" "C1'" sing N N 239 U "C3'" "O3'" sing N N 240 U "C3'" "C2'" sing N N 241 U "C3'" "H3'" sing N N 242 U "O3'" "HO3'" sing N N 243 U "C2'" "O2'" sing N N 244 U "C2'" "C1'" sing N N 245 U "C2'" "H2'" sing N N 246 U "O2'" "HO2'" sing N N 247 U "C1'" N1 sing N N 248 U "C1'" "H1'" sing N N 249 U N1 C2 sing N N 250 U N1 C6 sing N N 251 U C2 O2 doub N N 252 U C2 N3 sing N N 253 U N3 C4 sing N N 254 U N3 H3 sing N N 255 U C4 O4 doub N N 256 U C4 C5 sing N N 257 U C5 C6 doub N N 258 U C5 H5 sing N N 259 U C6 H6 sing N N 260 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 6P2H 'double helix' 6P2H 'a-form double helix' 6P2H 'mismatched base pair' 6P2H 'internal loop' 6P2H 'triple helix' 6P2H 'three-way junction' # 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 GTP 1 1_555 A C 67 1_555 -0.434 -0.172 -0.058 3.216 -2.150 -1.615 1 A_GTP17:C83_A A 17 ? A 83 ? 19 1 1 A G 2 1_555 A C 66 1_555 -0.102 -0.226 -0.281 -7.994 -16.133 1.410 2 A_G18:C82_A A 18 ? A 82 ? 19 1 1 A G 3 1_555 A C 65 1_555 -0.529 -0.112 -0.143 -22.637 -10.111 -0.332 3 A_G19:C81_A A 19 ? A 81 ? 19 1 1 A U 4 1_555 A A 64 1_555 0.012 -0.127 0.366 -13.797 -4.036 -7.350 4 A_U20:A80_A A 20 ? A 80 ? 20 1 1 A G 5 1_555 A C 63 1_555 0.050 -0.041 -0.262 6.545 3.401 -1.990 5 A_G21:C79_A A 21 ? A 79 ? 19 1 1 A U 6 1_555 A A 36 1_555 0.231 0.047 -0.069 8.108 0.791 0.356 6 A_U22:A52_A A 22 ? A 52 ? 20 1 1 A A 7 1_555 A G 30 1_555 -4.619 3.228 1.012 -21.952 -12.585 60.308 7 A_A23:G46_A A 23 ? A 46 ? 10 6 1 A U 9 1_555 A A 29 1_555 0.217 -0.226 -0.301 6.663 -1.902 -6.542 8 A_U25:A45_A A 25 ? A 45 ? 20 1 1 A C 10 1_555 A G 28 1_555 0.499 -0.128 -0.054 3.045 -5.617 1.508 9 A_C26:G44_A A 26 ? A 44 ? 19 1 1 A U 11 1_555 A G 27 1_555 2.462 -0.569 -0.353 2.467 -3.907 0.183 10 A_U27:G43_A A 27 ? A 43 ? 28 1 1 A C 12 1_555 A G 26 1_555 0.184 -0.515 -0.258 0.939 -3.618 2.520 11 A_C28:G42_A A 28 ? A 42 ? 19 1 1 A C 13 1_555 A G 25 1_555 0.597 -0.347 -0.034 -1.256 -4.812 1.942 12 A_C29:G41_A A 29 ? A 41 ? 19 1 1 A A 14 1_555 A U 24 1_555 0.129 -0.206 -0.023 1.535 -3.153 0.799 13 A_A30:U40_A A 30 ? A 40 ? 20 1 1 A A 15 1_555 A U 23 1_555 0.319 -0.309 0.286 11.898 -2.336 5.225 14 A_A31:U39_A A 31 ? A 39 ? 20 1 1 A A 8 1_555 A U 59 1_555 1.032 -3.762 -1.127 28.970 -14.701 72.827 15 A_A24:U75_A A 24 ? A 75 ? 23 3 1 A C 38 1_555 A G 58 1_555 0.596 0.270 0.252 2.796 -7.456 4.692 16 A_C54:G74_A A 54 ? A 74 ? 19 1 1 A A 39 1_555 A U 57 1_555 0.065 -0.182 -0.092 -3.306 -4.229 3.199 17 A_A55:U73_A A 55 ? A 73 ? 20 1 1 A G 40 1_555 A C 56 1_555 -0.193 -0.473 -0.029 -4.018 -11.179 -2.637 18 A_G56:C72_A A 56 ? A 72 ? 19 1 1 A U 41 1_555 A G 55 1_555 1.989 -0.904 -0.327 3.442 -11.305 -13.719 19 A_U57:G71_A A 57 ? A 71 ? 28 1 1 A G 42 1_555 A C 54 1_555 -0.418 -0.123 -0.156 -3.386 -2.266 4.906 20 A_G58:C70_A A 58 ? A 70 ? 19 1 1 A A 43 1_555 A U 53 1_555 0.532 -0.428 -0.078 3.157 -6.711 -9.416 21 A_A59:U69_A A 59 ? A 69 ? 20 1 1 A A 44 1_555 A A 52 1_555 -1.236 1.756 -0.316 -8.634 -27.579 18.712 22 A_A60:A68_A A 60 ? A 68 ? ? 1 1 A C 45 1_555 A G 22 1_555 -0.159 -0.020 0.242 -12.405 -13.383 -1.659 23 A_C61:G38_A A 61 ? A 38 ? 19 1 1 A C 46 1_555 A G 21 1_555 -0.068 -0.144 0.847 -1.897 -16.064 -4.598 24 A_C62:G37_A A 62 ? A 37 ? 19 1 1 A A 49 1_555 A A 19 1_555 4.662 1.231 -0.129 -1.499 1.920 -107.284 25 A_A65:A35_A A 65 ? A 35 ? 5 4 1 A A 17 1_555 A A 51 1_555 4.155 1.827 0.049 -5.163 -8.484 -114.360 26 A_A33:A67_A A 33 ? A 67 ? 5 4 1 A U 18 1_555 A A 50 1_555 3.776 -1.676 -0.683 -0.546 -6.553 -99.731 27 A_U34:A66_A A 34 ? A 66 ? 24 4 # 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 GTP 1 1_555 A C 67 1_555 A G 2 1_555 A C 66 1_555 0.341 -1.416 3.487 1.200 7.211 38.332 -3.018 -0.361 3.188 10.861 -1.807 38.997 1 AA_GTP17G18:C82C83_AA A 17 ? A 83 ? A 18 ? A 82 ? 1 A G 2 1_555 A C 66 1_555 A G 3 1_555 A C 65 1_555 -0.314 -1.885 3.406 -1.334 8.441 33.600 -4.431 0.327 2.873 14.316 2.262 34.640 2 AA_G18G19:C81C82_AA A 18 ? A 82 ? A 19 ? A 81 ? 1 A G 3 1_555 A C 65 1_555 A U 4 1_555 A A 64 1_555 -0.726 -1.407 3.102 -3.420 8.532 31.929 -3.761 0.751 2.707 15.123 6.061 33.192 3 AA_G19U20:A80C81_AA A 19 ? A 81 ? A 20 ? A 80 ? 1 A U 4 1_555 A A 64 1_555 A G 5 1_555 A C 63 1_555 0.908 -1.380 2.877 5.707 7.278 28.793 -3.913 -0.749 2.588 14.182 -11.120 30.212 4 AA_U20G21:C79A80_AA A 20 ? A 80 ? A 21 ? A 79 ? 1 A U 6 1_555 A A 36 1_555 A A 7 1_555 A G 30 1_555 0.456 1.982 -2.997 -4.652 -1.422 -16.934 -7.221 3.935 -2.604 4.703 -15.389 -17.614 5 AA_U22A23:G46A52_AA A 22 ? A 52 ? A 23 ? A 46 ? 1 A A 7 1_555 A G 30 1_555 A U 9 1_555 A A 29 1_555 1.022 3.318 0.943 -132.598 118.837 -122.900 -1.751 0.409 0.133 -59.497 -66.387 -179.072 6 AA_A23U25:A45G46_AA A 23 ? A 46 ? A 25 ? A 45 ? 1 A U 9 1_555 A A 29 1_555 A C 10 1_555 A G 28 1_555 0.575 -1.866 3.332 -0.281 3.785 35.610 -3.572 -0.975 3.119 6.168 0.459 35.805 7 AA_U25C26:G44A45_AA A 25 ? A 45 ? A 26 ? A 44 ? 1 A C 10 1_555 A G 28 1_555 A U 11 1_555 A G 27 1_555 0.043 -1.701 3.263 3.327 1.671 38.122 -2.799 0.346 3.181 2.551 -5.079 38.297 8 AA_C26U27:G43G44_AA A 26 ? A 44 ? A 27 ? A 43 ? 1 A U 11 1_555 A G 27 1_555 A C 12 1_555 A G 26 1_555 0.013 -1.943 3.238 3.047 4.864 22.817 -6.288 0.920 2.748 12.051 -7.549 23.518 9 AA_U27C28:G42G43_AA A 27 ? A 43 ? A 28 ? A 42 ? 1 A C 12 1_555 A G 26 1_555 A C 13 1_555 A G 25 1_555 0.059 -1.657 3.204 1.664 9.300 33.822 -4.025 0.131 2.669 15.610 -2.793 35.080 10 AA_C28C29:G41G42_AA A 28 ? A 42 ? A 29 ? A 41 ? 1 A C 13 1_555 A G 25 1_555 A A 14 1_555 A U 24 1_555 -0.178 -1.606 3.065 0.338 9.337 27.144 -5.049 0.424 2.389 19.187 -0.694 28.678 11 AA_C29A30:U40G41_AA A 29 ? A 41 ? A 30 ? A 40 ? 1 A A 14 1_555 A U 24 1_555 A A 15 1_555 A U 23 1_555 0.304 -1.426 2.887 -3.271 5.326 30.437 -3.523 -1.096 2.561 10.012 6.149 31.057 12 AA_A30A31:U39U40_AA A 30 ? A 40 ? A 31 ? A 39 ? 1 A A 8 1_555 A U 59 1_555 A C 38 1_555 A G 58 1_555 2.264 1.154 3.030 6.779 -6.351 159.151 0.602 -1.134 3.043 -3.229 -3.446 159.220 13 AA_A24C54:G74U75_AA A 24 ? A 75 ? A 54 ? A 74 ? 1 A C 38 1_555 A G 58 1_555 A A 39 1_555 A U 57 1_555 -0.062 -1.830 3.319 0.487 5.455 28.747 -4.763 0.225 2.928 10.863 -0.970 29.253 14 AA_C54A55:U73G74_AA A 54 ? A 74 ? A 55 ? A 73 ? 1 A A 39 1_555 A U 57 1_555 A G 40 1_555 A C 56 1_555 -0.280 -1.999 3.202 1.198 7.161 29.652 -5.091 0.749 2.644 13.735 -2.297 30.509 15 AA_A55G56:C72U73_AA A 55 ? A 73 ? A 56 ? A 72 ? 1 A G 40 1_555 A C 56 1_555 A U 41 1_555 A G 55 1_555 0.001 -1.575 3.054 3.055 0.885 41.150 -2.324 0.304 3.013 1.257 -4.338 41.268 16 AA_G56U57:G71C72_AA A 56 ? A 72 ? A 57 ? A 71 ? 1 A U 41 1_555 A G 55 1_555 A G 42 1_555 A C 54 1_555 -0.498 -2.813 3.461 -1.450 7.754 15.674 -13.308 0.870 1.901 26.369 4.929 17.536 17 AA_U57G58:C70G71_AA A 57 ? A 71 ? A 58 ? A 70 ? 1 A G 42 1_555 A C 54 1_555 A A 43 1_555 A U 53 1_555 -0.566 -1.421 3.132 -2.541 4.443 36.659 -2.800 0.571 2.977 7.021 4.016 37.002 18 AA_G58A59:U69C70_AA A 58 ? A 70 ? A 59 ? A 69 ? 1 A A 43 1_555 A U 53 1_555 A A 44 1_555 A A 52 1_555 1.675 -2.122 3.497 4.140 10.479 25.959 -6.749 -2.481 2.686 22.052 -8.712 28.260 19 AA_A59A60:A68U69_AA A 59 ? A 69 ? A 60 ? A 68 ? 1 A A 44 1_555 A A 52 1_555 A C 45 1_555 A G 22 1_555 1.743 0.484 3.136 0.429 3.368 55.161 0.331 -1.855 3.171 3.633 -0.463 55.257 20 AA_A60C61:G38A68_AA A 60 ? A 68 ? A 61 ? A 38 ? 1 A C 45 1_555 A G 22 1_555 A C 46 1_555 A G 21 1_555 -0.566 -1.000 3.253 -5.422 8.252 28.479 -3.561 0.015 2.912 16.171 10.625 30.109 21 AA_C61C62:G37G38_AA A 61 ? A 38 ? A 62 ? A 37 ? 1 A C 46 1_555 A G 21 1_555 A A 49 1_555 A A 19 1_555 -4.091 0.281 3.706 -60.832 157.160 123.576 -0.769 1.696 4.088 79.212 30.661 174.581 22 AA_C62A65:A35G37_AA A 62 ? A 37 ? A 65 ? A 35 ? 1 A A 17 1_555 A A 51 1_555 A U 18 1_555 A A 50 1_555 0.080 -1.400 3.177 12.741 0.077 34.903 -2.211 1.543 3.019 0.123 -20.419 37.088 23 AA_A33U34:A66A67_AA A 33 ? A 67 ? A 34 ? A 66 ? # _pdbx_audit_support.funding_organization 'National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number R01-GM073850 _pdbx_audit_support.ordinal 1 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id GNG _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id GNG _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 "2'-DEOXY-GUANOSINE" GNG 3 'COBALT HEXAMMINE(III)' NCO 4 'MAGNESIUM ION' MG 5 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 4FE5 _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 'isothermal titration calorimetry' _pdbx_struct_assembly_auth_evidence.details ? # _space_group.name_H-M_alt 'P 41 2 2' _space_group.name_Hall 'P 4w 2c' _space_group.IT_number 91 _space_group.crystal_system tetragonal _space_group.id 1 #