data_8HBA # _entry.id 8HBA # _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 8HBA pdb_00008hba 10.2210/pdb8hba/pdb WWPDB D_1300033212 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8HBA _pdbx_database_status.recvd_initial_deposition_date 2022-10-27 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Peng, X.' 1 ? 'Lilley, D.M.J.' 2 ? 'Huang, L.' 3 ? # _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 51 _citation.language ? _citation.page_first 2904 _citation.page_last 2914 _citation.title 'Crystal structures of the NAD+-II riboswitch reveal two distinct ligand-binding pockets.' _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkad102 _citation.pdbx_database_id_PubMed 36840714 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Peng, X.' 1 ? primary 'Liao, W.' 2 0000-0001-9823-9949 primary 'Lin, X.' 3 ? primary 'Lilley, D.M.J.' 4 0000-0001-6882-2818 primary 'Huang, L.' 5 0000-0002-2121-365X # _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 8HBA _cell.details ? _cell.formula_units_Z ? _cell.length_a 37.756 _cell.length_a_esd ? _cell.length_b 68.640 _cell.length_b_esd ? _cell.length_c 114.009 _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 ? _cell.pdbx_esd_method ? # _symmetry.entry_id 8HBA _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' _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 (55-MER)' 18132.947 2 ? ? ? ? 2 non-polymer syn NICOTINAMIDE-ADENINE-DINUCLEOTIDE 663.425 3 ? ? ? ? 3 non-polymer syn 'BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE' 335.227 1 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code CGCGGCGUUGCGUCCGAAAGUCUAAACAGACACGGCCGCUUAAAAACAAAAGGAGA _entity_poly.pdbx_seq_one_letter_code_can CGCGGCGUUGCGUCCGAAAGUCUAAACAGACACGGCCGCUUAAAAACAAAAGGAGA _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 C n 1 2 G n 1 3 C n 1 4 G n 1 5 G n 1 6 C n 1 7 G n 1 8 U n 1 9 U n 1 10 G n 1 11 C n 1 12 G n 1 13 U n 1 14 C n 1 15 C n 1 16 G n 1 17 A n 1 18 A n 1 19 A n 1 20 G n 1 21 U n 1 22 C n 1 23 U n 1 24 A n 1 25 A n 1 26 A n 1 27 C n 1 28 A n 1 29 G n 1 30 A n 1 31 C n 1 32 A n 1 33 C n 1 34 G n 1 35 G n 1 36 C n 1 37 C n 1 38 G n 1 39 C n 1 40 U n 1 41 U n 1 42 A n 1 43 A n 1 44 A n 1 45 A n 1 46 A n 1 47 C n 1 48 A n 1 49 A n 1 50 A n 1 51 A n 1 52 G n 1 53 G n 1 54 A n 1 55 G n 1 56 A 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 56 _pdbx_entity_src_syn.organism_scientific 'Streptococcus parasanguinis' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 1318 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8HBA _struct_ref.pdbx_db_accession 8HBA _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 8HBA A 1 ? 56 ? 8HBA 0 ? 55 ? 0 55 2 1 8HBA B 1 ? 56 ? 8HBA 0 ? 55 ? 0 55 # 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 NAD non-polymer . NICOTINAMIDE-ADENINE-DINUCLEOTIDE ? 'C21 H27 N7 O14 P2' 663.425 NMN non-polymer . 'BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE' 'NICOTINAMIDE MONONUCLEOTIDE' 'C11 H16 N2 O8 P 1' 335.227 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 8HBA _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 2.16 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 43.16 _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.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_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 ? _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 ;0.012 M Sodium chloride, 0.08 M Potassium chloride 0.04 M Sodium cacodylate trihydrate pH 5.5 45% v/v (+/-)-2-Methyl-2,4-pentanediol 0.02 M Hexammine cobalt(III) chloride ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER X 16M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2021-09-20 _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 0.9785 _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 'SSRF BEAMLINE BL19U1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.9785 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL19U1 _diffrn_source.pdbx_synchrotron_site SSRF # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 8HBA _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.64 _reflns.d_resolution_low 19.61 _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 9135 _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 2.0 _reflns.percent_possible_obs 99.2 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 11.99 _reflns.pdbx_Rmerge_I_obs 0.052 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 23.3 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all 0.016 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.919 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? _reflns.pdbx_CC_split_method ? # _reflns_shell.d_res_high 2.64 _reflns_shell.d_res_low 2.74 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 2.0 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 847 _reflns_shell.percent_possible_all 94.3 _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 0.897 _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 ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all 0.292 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.919 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _refine.aniso_B[1][1] 10.64 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][2] -4.23 _refine.aniso_B[2][3] 0.00 _refine.aniso_B[3][3] -6.41 _refine.B_iso_max ? _refine.B_iso_mean 103.385 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.946 _refine.correlation_coeff_Fo_to_Fc_free 0.931 _refine.details ;U VALUES : WITH TLS ADDED HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : RESIDUAL ONLY ; _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 8HBA _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 2.64 _refine.ls_d_res_low 19.61 _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 8168 _refine.ls_number_reflns_R_free 934 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.89 _refine.ls_percent_reflns_R_free 10.3 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.23390 _refine.ls_R_factor_R_free 0.27456 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.22940 _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 MASK _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _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 8HB1 _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free 0.397 _refine.pdbx_solvent_vdw_probe_radii 1.30 _refine.pdbx_solvent_ion_probe_radii 0.90 _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 ? _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 43.559 _refine.overall_SU_ML 0.404 _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 2.64 _refine_hist.d_res_low 19.61 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 2265 _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 2111 _refine_hist.pdbx_number_atoms_ligand 154 _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' ? 0.010 0.011 2600 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.003 0.020 1039 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 1.749 1.269 3935 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 1.677 2.909 2513 ? r_angle_other_deg ? ? 'X-RAY DIFFRACTION' ? 0.104 0.200 426 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.012 0.020 1361 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.002 0.020 580 ? r_gen_planes_other ? ? 'X-RAY DIFFRACTION' ? 2.500 7.030 2600 ? r_scbond_it ? ? 'X-RAY DIFFRACTION' ? 2.500 7.030 2601 ? r_scbond_other ? ? 'X-RAY DIFFRACTION' ? 4.045 10.561 3936 ? r_scangle_other ? ? 'X-RAY DIFFRACTION' ? 9.374 ? 10101 ? r_long_range_B_refined ? ? 'X-RAY DIFFRACTION' ? 9.374 ? 10102 ? r_long_range_B_other ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 2.642 _refine_ls_shell.d_res_low 2.710 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 66 _refine_ls_shell.number_reflns_R_work 557 _refine_ls_shell.percent_reflns_obs 92.30 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_obs ? _refine_ls_shell.R_factor_R_free 0.529 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 0.547 _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_R_complete ? _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 8HBA _struct.title 'Crystal structure of NAD-II riboswitch (single strand) with NAD' _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 8HBA _struct_keywords.text 'Riboswitch, NAD, NMN, Aptamer, RNA' _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 2 ? 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 hydrog1 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 39 N3 ? ? A G 1 A C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 39 O2 ? ? A G 1 A C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 39 N4 ? ? A G 1 A C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N2 ? ? ? 1_555 A U 40 O4 ? ? A G 1 A U 39 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog5 hydrog ? ? A C 3 N3 ? ? ? 1_555 A G 38 N1 ? ? A C 2 A G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 3 N4 ? ? ? 1_555 A G 38 O6 ? ? A C 2 A G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 3 O2 ? ? ? 1_555 A G 38 N2 ? ? A C 2 A G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 4 N1 ? ? ? 1_555 A C 37 N3 ? ? A G 3 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N2 ? ? ? 1_555 A C 37 O2 ? ? A G 3 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 O6 ? ? ? 1_555 A C 37 N4 ? ? A G 3 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 5 N1 ? ? ? 1_555 A C 36 N3 ? ? A G 4 A C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 5 N2 ? ? ? 1_555 A C 36 O2 ? ? A G 4 A C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A G 5 O6 ? ? ? 1_555 A C 36 N4 ? ? A G 4 A C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 5 N2 ? ? ? 1_555 A A 44 N1 ? ? A G 4 A A 43 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog15 hydrog ? ? A G 5 N3 ? ? ? 1_555 A A 44 N6 ? ? A G 4 A A 43 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog16 hydrog ? ? A C 6 N3 ? ? ? 1_555 A G 35 N1 ? ? A C 5 A G 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 6 N4 ? ? ? 1_555 A G 35 O6 ? ? A C 5 A G 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 6 O2 ? ? ? 1_555 A G 35 N2 ? ? A C 5 A G 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 6 O2 ? ? ? 1_555 A A 46 N6 ? ? A C 5 A A 45 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog20 hydrog ? ? A G 7 N2 ? ? ? 1_555 A U 9 O4 ? ? A G 6 A U 8 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog21 hydrog ? ? A G 7 N1 ? ? ? 1_555 A C 33 N3 ? ? A G 6 A C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A G 7 N2 ? ? ? 1_555 A C 33 O2 ? ? A G 6 A C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 7 O6 ? ? ? 1_555 A C 33 N4 ? ? A G 6 A C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A U 8 N3 ? ? ? 1_555 A A 48 N7 ? ? A U 7 A A 47 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog25 hydrog ? ? A U 8 O4 ? ? ? 1_555 A A 48 N6 ? ? A U 7 A A 47 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog26 hydrog ? ? A U 9 O4 ? ? ? 1_555 A G 16 N1 ? ? A U 8 A G 15 1_555 ? ? ? ? ? ? 'U-G MISPAIR' ? ? ? hydrog27 hydrog ? ? A U 9 N3 ? ? ? 1_555 A A 51 N1 ? ? A U 8 A A 50 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog28 hydrog ? ? A U 9 O2 ? ? ? 1_555 A A 51 N6 ? ? A U 8 A A 50 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog29 hydrog ? ? A C 11 N3 ? ? ? 1_555 A G 55 N1 ? ? A C 10 A G 54 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 11 N4 ? ? ? 1_555 A G 55 O6 ? ? A C 10 A G 54 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A C 11 O2 ? ? ? 1_555 A G 55 N2 ? ? A C 10 A G 54 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A U 13 N3 ? ? ? 1_555 A A 54 N1 ? ? A U 12 A A 53 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A U 13 O4 ? ? ? 1_555 A A 54 N6 ? ? A U 12 A A 53 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 14 N3 ? ? ? 1_555 A G 53 N1 ? ? A C 13 A G 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A C 14 N4 ? ? ? 1_555 A G 53 O6 ? ? A C 13 A G 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A C 14 O2 ? ? ? 1_555 A G 53 N2 ? ? A C 13 A G 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A C 15 N3 ? ? ? 1_555 A G 52 N1 ? ? A C 14 A G 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A C 15 N4 ? ? ? 1_555 A G 52 O6 ? ? A C 14 A G 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A C 15 O2 ? ? ? 1_555 A G 52 N2 ? ? A C 14 A G 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A G 16 N2 ? ? ? 1_555 A A 32 N1 ? ? A G 15 A A 31 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog41 hydrog ? ? A G 16 N3 ? ? ? 1_555 A A 32 N6 ? ? A G 15 A A 31 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog42 hydrog ? ? A A 17 N1 ? ? ? 1_555 B U 41 N3 ? ? A A 16 B U 40 1_555 ? ? ? ? ? ? 'A-U PAIR' ? ? ? hydrog43 hydrog ? ? A G 20 N1 ? ? ? 1_555 A C 31 N3 ? ? A G 19 A C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A G 20 N2 ? ? ? 1_555 A C 31 O2 ? ? A G 19 A C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? A G 20 O6 ? ? ? 1_555 A C 31 N4 ? ? A G 19 A C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? A U 21 N3 ? ? ? 1_555 A A 30 N1 ? ? A U 20 A A 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? A U 21 O4 ? ? ? 1_555 A A 30 N6 ? ? A U 20 A A 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? A C 33 O2 ? ? ? 1_555 A A 48 N6 ? ? A C 32 A A 47 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog49 hydrog ? ? A G 34 N2 ? ? ? 1_555 A C 47 O2 ? ? A G 33 A C 46 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog50 hydrog ? ? A G 35 N2 ? ? ? 1_555 A A 46 N1 ? ? A G 34 A A 45 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog51 hydrog ? ? A C 36 O2 ? ? ? 1_555 A A 45 N6 ? ? A C 35 A A 44 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog52 hydrog ? ? A C 37 O2 ? ? ? 1_555 A A 43 N6 ? ? A C 36 A A 42 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog53 hydrog ? ? A G 38 N2 ? ? ? 1_555 A U 41 O4 ? ? A G 37 A U 40 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog54 hydrog ? ? A G 38 N3 ? ? ? 1_555 A A 42 N6 ? ? A G 37 A A 41 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog55 hydrog ? ? A A 49 N6 ? ? ? 1_555 A G 52 O6 ? ? A A 48 A G 51 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? hydrog56 hydrog ? ? B G 2 N1 ? ? ? 1_555 B C 39 N3 ? ? B G 1 B C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? B G 2 N2 ? ? ? 1_555 B C 39 O2 ? ? B G 1 B C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? B G 2 O6 ? ? ? 1_555 B C 39 N4 ? ? B G 1 B C 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? B G 2 N2 ? ? ? 1_555 B U 40 O4 ? ? B G 1 B U 39 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog60 hydrog ? ? B C 3 N3 ? ? ? 1_555 B G 38 N1 ? ? B C 2 B G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? B C 3 N4 ? ? ? 1_555 B G 38 O6 ? ? B C 2 B G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog62 hydrog ? ? B C 3 O2 ? ? ? 1_555 B G 38 N2 ? ? B C 2 B G 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog63 hydrog ? ? B G 4 N1 ? ? ? 1_555 B C 37 N3 ? ? B G 3 B C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog64 hydrog ? ? B G 4 N2 ? ? ? 1_555 B C 37 O2 ? ? B G 3 B C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog65 hydrog ? ? B G 4 O6 ? ? ? 1_555 B C 37 N4 ? ? B G 3 B C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? B G 5 N1 ? ? ? 1_555 B C 36 N3 ? ? B G 4 B C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? B G 5 N2 ? ? ? 1_555 B C 36 O2 ? ? B G 4 B C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? B G 5 O6 ? ? ? 1_555 B C 36 N4 ? ? B G 4 B C 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? B G 5 N2 ? ? ? 1_555 B A 44 N1 ? ? B G 4 B A 43 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog70 hydrog ? ? B G 5 N3 ? ? ? 1_555 B A 44 N6 ? ? B G 4 B A 43 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog71 hydrog ? ? B C 6 N3 ? ? ? 1_555 B G 35 N1 ? ? B C 5 B G 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog72 hydrog ? ? B C 6 N4 ? ? ? 1_555 B G 35 O6 ? ? B C 5 B G 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog73 hydrog ? ? B C 6 O2 ? ? ? 1_555 B G 35 N2 ? ? B C 5 B G 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog74 hydrog ? ? B C 6 O2 ? ? ? 1_555 B A 46 N6 ? ? B C 5 B A 45 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog75 hydrog ? ? B G 7 N2 ? ? ? 1_555 B U 9 O4 ? ? B G 6 B U 8 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog76 hydrog ? ? B G 7 N1 ? ? ? 1_555 B C 33 N3 ? ? B G 6 B C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog77 hydrog ? ? B G 7 N2 ? ? ? 1_555 B C 33 O2 ? ? B G 6 B C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog78 hydrog ? ? B G 7 O6 ? ? ? 1_555 B C 33 N4 ? ? B G 6 B C 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog79 hydrog ? ? B U 8 N3 ? ? ? 1_555 B A 48 N7 ? ? B U 7 B A 47 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog80 hydrog ? ? B U 8 O4 ? ? ? 1_555 B A 48 N6 ? ? B U 7 B A 47 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ? hydrog81 hydrog ? ? B U 9 O4 ? ? ? 1_555 B G 16 N1 ? ? B U 8 B G 15 1_555 ? ? ? ? ? ? 'U-G MISPAIR' ? ? ? hydrog82 hydrog ? ? B U 9 N3 ? ? ? 1_555 B A 51 N1 ? ? B U 8 B A 50 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog83 hydrog ? ? B U 9 O2 ? ? ? 1_555 B A 51 N6 ? ? B U 8 B A 50 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog84 hydrog ? ? B C 11 N3 ? ? ? 1_555 B G 55 N1 ? ? B C 10 B G 54 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog85 hydrog ? ? B C 11 N4 ? ? ? 1_555 B G 55 O6 ? ? B C 10 B G 54 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog86 hydrog ? ? B C 11 O2 ? ? ? 1_555 B G 55 N2 ? ? B C 10 B G 54 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog87 hydrog ? ? B U 13 N3 ? ? ? 1_555 B A 54 N1 ? ? B U 12 B A 53 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog88 hydrog ? ? B U 13 O4 ? ? ? 1_555 B A 54 N6 ? ? B U 12 B A 53 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog89 hydrog ? ? B C 14 N3 ? ? ? 1_555 B G 53 N1 ? ? B C 13 B G 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog90 hydrog ? ? B C 14 N4 ? ? ? 1_555 B G 53 O6 ? ? B C 13 B G 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog91 hydrog ? ? B C 14 O2 ? ? ? 1_555 B G 53 N2 ? ? B C 13 B G 52 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog92 hydrog ? ? B C 15 N3 ? ? ? 1_555 B G 52 N1 ? ? B C 14 B G 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog93 hydrog ? ? B C 15 N4 ? ? ? 1_555 B G 52 O6 ? ? B C 14 B G 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog94 hydrog ? ? B C 15 O2 ? ? ? 1_555 B G 52 N2 ? ? B C 14 B G 51 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog95 hydrog ? ? B G 16 N2 ? ? ? 1_555 B A 32 N1 ? ? B G 15 B A 31 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog96 hydrog ? ? B G 16 N3 ? ? ? 1_555 B A 32 N6 ? ? B G 15 B A 31 1_555 ? ? ? ? ? ? TYPE_10_PAIR ? ? ? hydrog97 hydrog ? ? B G 20 N1 ? ? ? 1_555 B C 31 N3 ? ? B G 19 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog98 hydrog ? ? B G 20 N2 ? ? ? 1_555 B C 31 O2 ? ? B G 19 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog99 hydrog ? ? B G 20 O6 ? ? ? 1_555 B C 31 N4 ? ? B G 19 B C 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog100 hydrog ? ? B U 21 N3 ? ? ? 1_555 B A 30 N1 ? ? B U 20 B A 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog101 hydrog ? ? B U 21 O4 ? ? ? 1_555 B A 30 N6 ? ? B U 20 B A 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog102 hydrog ? ? B C 22 N3 ? ? ? 1_555 B G 29 N1 ? ? B C 21 B G 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog103 hydrog ? ? B C 22 N4 ? ? ? 1_555 B G 29 O6 ? ? B C 21 B G 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog104 hydrog ? ? B C 22 O2 ? ? ? 1_555 B G 29 N2 ? ? B C 21 B G 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog105 hydrog ? ? B C 33 O2 ? ? ? 1_555 B A 48 N6 ? ? B C 32 B A 47 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog106 hydrog ? ? B G 34 N2 ? ? ? 1_555 B C 47 O2 ? ? B G 33 B C 46 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog107 hydrog ? ? B G 35 N2 ? ? ? 1_555 B A 46 N1 ? ? B G 34 B A 45 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog108 hydrog ? ? B C 36 O2 ? ? ? 1_555 B A 45 N6 ? ? B C 35 B A 44 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog109 hydrog ? ? B C 37 O2 ? ? ? 1_555 B A 43 N6 ? ? B C 36 B A 42 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog110 hydrog ? ? B G 38 N3 ? ? ? 1_555 B A 42 N6 ? ? B G 37 B A 41 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog111 hydrog ? ? B A 49 N6 ? ? ? 1_555 B G 52 O6 ? ? B A 48 B G 51 1_555 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 8HBA _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] 0.026486 _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] 0.014569 _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] 0.008771 _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 C 1 0 ? ? ? A . n A 1 2 G 2 1 1 G G A . n A 1 3 C 3 2 2 C C A . n A 1 4 G 4 3 3 G G A . n A 1 5 G 5 4 4 G G A . n A 1 6 C 6 5 5 C C A . n A 1 7 G 7 6 6 G G A . n A 1 8 U 8 7 7 U U A . n A 1 9 U 9 8 8 U U A . n A 1 10 G 10 9 9 G G A . n A 1 11 C 11 10 10 C C A . n A 1 12 G 12 11 11 G G A . n A 1 13 U 13 12 12 U U A . n A 1 14 C 14 13 13 C C A . n A 1 15 C 15 14 14 C C A . n A 1 16 G 16 15 15 G G A . n A 1 17 A 17 16 16 A A A . n A 1 18 A 18 17 17 A A A . n A 1 19 A 19 18 18 A A A . n A 1 20 G 20 19 19 G G A . n A 1 21 U 21 20 20 U U A . n A 1 22 C 22 21 ? ? ? A . n A 1 23 U 23 22 ? ? ? A . n A 1 24 A 24 23 ? ? ? A . n A 1 25 A 25 24 ? ? ? A . n A 1 26 A 26 25 ? ? ? A . n A 1 27 C 27 26 ? ? ? A . n A 1 28 A 28 27 ? ? ? A . n A 1 29 G 29 28 28 G G A . n A 1 30 A 30 29 29 A A A . n A 1 31 C 31 30 30 C C A . n A 1 32 A 32 31 31 A A A . n A 1 33 C 33 32 32 C C A . n A 1 34 G 34 33 33 G G A . n A 1 35 G 35 34 34 G G A . n A 1 36 C 36 35 35 C C A . n A 1 37 C 37 36 36 C C A . n A 1 38 G 38 37 37 G G A . n A 1 39 C 39 38 38 C C A . n A 1 40 U 40 39 39 U U A . n A 1 41 U 41 40 40 U U A . n A 1 42 A 42 41 41 A A A . n A 1 43 A 43 42 42 A A A . n A 1 44 A 44 43 43 A A A . n A 1 45 A 45 44 44 A A A . n A 1 46 A 46 45 45 A A A . n A 1 47 C 47 46 46 C C A . n A 1 48 A 48 47 47 A A A . n A 1 49 A 49 48 48 A A A . n A 1 50 A 50 49 49 A A A . n A 1 51 A 51 50 50 A A A . n A 1 52 G 52 51 51 G G A . n A 1 53 G 53 52 52 G G A . n A 1 54 A 54 53 53 A A A . n A 1 55 G 55 54 54 G G A . n A 1 56 A 56 55 55 A A A . n B 1 1 C 1 0 0 C C B . n B 1 2 G 2 1 1 G G B . n B 1 3 C 3 2 2 C C B . n B 1 4 G 4 3 3 G G B . n B 1 5 G 5 4 4 G G B . n B 1 6 C 6 5 5 C C B . n B 1 7 G 7 6 6 G G B . n B 1 8 U 8 7 7 U U B . n B 1 9 U 9 8 8 U U B . n B 1 10 G 10 9 9 G G B . n B 1 11 C 11 10 10 C C B . n B 1 12 G 12 11 11 G G B . n B 1 13 U 13 12 12 U U B . n B 1 14 C 14 13 13 C C B . n B 1 15 C 15 14 14 C C B . n B 1 16 G 16 15 15 G G B . n B 1 17 A 17 16 16 A A B . n B 1 18 A 18 17 17 A A B . n B 1 19 A 19 18 18 A A B . n B 1 20 G 20 19 19 G G B . n B 1 21 U 21 20 20 U U B . n B 1 22 C 22 21 21 C C B . n B 1 23 U 23 22 ? ? ? B . n B 1 24 A 24 23 ? ? ? B . n B 1 25 A 25 24 ? ? ? B . n B 1 26 A 26 25 ? ? ? B . n B 1 27 C 27 26 ? ? ? B . n B 1 28 A 28 27 ? ? ? B . n B 1 29 G 29 28 28 G G B . n B 1 30 A 30 29 29 A A B . n B 1 31 C 31 30 30 C C B . n B 1 32 A 32 31 31 A A B . n B 1 33 C 33 32 32 C C B . n B 1 34 G 34 33 33 G G B . n B 1 35 G 35 34 34 G G B . n B 1 36 C 36 35 35 C C B . n B 1 37 C 37 36 36 C C B . n B 1 38 G 38 37 37 G G B . n B 1 39 C 39 38 38 C C B . n B 1 40 U 40 39 39 U U B . n B 1 41 U 41 40 40 U U B . n B 1 42 A 42 41 41 A A B . n B 1 43 A 43 42 42 A A B . n B 1 44 A 44 43 43 A A B . n B 1 45 A 45 44 44 A A B . n B 1 46 A 46 45 45 A A B . n B 1 47 C 47 46 46 C C B . n B 1 48 A 48 47 47 A A B . n B 1 49 A 49 48 48 A A B . n B 1 50 A 50 49 49 A A B . n B 1 51 A 51 50 50 A A B . n B 1 52 G 52 51 51 G G B . n B 1 53 G 53 52 52 G G B . n B 1 54 A 54 53 53 A A B . n B 1 55 G 55 54 54 G G B . n B 1 56 A 56 55 55 A A B . n # loop_ _pdbx_contact_author.id _pdbx_contact_author.email _pdbx_contact_author.name_first _pdbx_contact_author.name_last _pdbx_contact_author.name_mi _pdbx_contact_author.role _pdbx_contact_author.identifier_ORCID 2 huanglin36@mail.sysu.edu.cn Lin Huang ? 'principal investigator/group leader' 0000-0002-2121-365X 3 d.m.j.lilley@dundee.ac.uk David Lilley M.J 'principal investigator/group leader' 0000-0001-6882-2818 # 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 NAD 1 101 101 NAD NAD A . D 2 NAD 1 102 102 NAD NAD A . E 2 NAD 1 101 101 NAD NAD B . F 3 NMN 1 102 102 NMN NMN B . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _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)' 4030 ? 1 MORE -11 ? 1 'SSA (A^2)' 15120 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2023-03-22 2 'Structure model' 1 1 2023-04-19 3 'Structure model' 1 2 2023-11-29 # _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' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 3 'Structure model' chem_comp_atom 3 3 'Structure model' chem_comp_bond 4 3 'Structure model' 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' # loop_ _pdbx_refine_tls.id _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[1][1]_esd _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][2]_esd _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[1][3]_esd _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[2][2]_esd _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.T[2][3]_esd _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[3][3]_esd _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[1][1]_esd _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][2]_esd _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[1][3]_esd _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[2][2]_esd _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.L[2][3]_esd _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[3][3]_esd _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][1]_esd _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][2]_esd _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[1][3]_esd _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][1]_esd _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][2]_esd _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[2][3]_esd _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][1]_esd _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][2]_esd _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.S[3][3]_esd 1 'X-RAY DIFFRACTION' ? refined -2.1800 0.2440 -41.6340 0.2654 ? -0.0748 ? -0.1146 ? 0.0363 ? 0.0402 ? 0.0924 ? 3.4776 ? -1.9641 ? 1.3342 ? 11.9889 ? -2.3379 ? 7.1930 ? -0.2364 ? -0.0300 ? 0.3217 ? -0.7950 ? 0.0432 ? -0.0058 ? -0.0602 ? 0.0002 ? 0.1932 ? 2 'X-RAY DIFFRACTION' ? refined 1.5280 -0.3050 -15.4000 0.1929 ? 0.0012 ? 0.0624 ? 0.0277 ? 0.0421 ? 0.1016 ? 2.3872 ? 1.2511 ? -1.5301 ? 12.1638 ? -2.6044 ? 8.0228 ? -0.1360 ? 0.1871 ? 0.1112 ? 0.6163 ? -0.1656 ? -0.3599 ? -0.1141 ? 0.0092 ? 0.3017 ? # loop_ _pdbx_refine_tls_group.id _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_PDB_ins_code _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_PDB_ins_code _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 1 'X-RAY DIFFRACTION' 1 ? ? A 1 ? ? ? A 55 ? ? ? 2 'X-RAY DIFFRACTION' 2 ? ? B 0 ? ? ? B 55 ? ? ? # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.5 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _pdbx_entry_details.entry_id 8HBA _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 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 C2 A A 16 ? ? O4 B U 40 ? ? 2.00 2 1 OP2 B A 31 ? ? O2B B NAD 101 ? ? 2.14 3 1 N1 A A 16 ? ? C5 B U 40 ? ? 2.18 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "O3'" A A 16 ? ? P A A 17 ? ? 1.524 1.607 -0.083 0.012 Y 2 1 "O3'" A C 35 ? ? P A C 36 ? ? 1.533 1.607 -0.074 0.012 Y # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O5'" B C 32 ? ? P B C 32 ? ? OP2 B C 32 ? ? 100.30 105.70 -5.40 0.90 N 2 1 "O5'" B A 50 ? ? P B A 50 ? ? OP1 B A 50 ? ? 99.43 105.70 -6.27 0.90 N # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A C 0 ? A C 1 2 1 Y 1 A C 21 ? A C 22 3 1 Y 1 A U 22 ? A U 23 4 1 Y 1 A A 23 ? A A 24 5 1 Y 1 A A 24 ? A A 25 6 1 Y 1 A A 25 ? A A 26 7 1 Y 1 A C 26 ? A C 27 8 1 Y 1 A A 27 ? A A 28 9 1 Y 1 B U 22 ? B U 23 10 1 Y 1 B A 23 ? B A 24 11 1 Y 1 B A 24 ? B A 25 12 1 Y 1 B A 25 ? B A 26 13 1 Y 1 B C 26 ? B C 27 14 1 Y 1 B A 27 ? B A 28 # 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 NAD PA P N S 111 NAD O1A O N N 112 NAD O2A O N N 113 NAD O5B O N N 114 NAD C5B C N N 115 NAD C4B C N R 116 NAD O4B O N N 117 NAD C3B C N S 118 NAD O3B O N N 119 NAD C2B C N R 120 NAD O2B O N N 121 NAD C1B C N R 122 NAD N9A N Y N 123 NAD C8A C Y N 124 NAD N7A N Y N 125 NAD C5A C Y N 126 NAD C6A C Y N 127 NAD N6A N N N 128 NAD N1A N Y N 129 NAD C2A C Y N 130 NAD N3A N Y N 131 NAD C4A C Y N 132 NAD O3 O N N 133 NAD PN P N N 134 NAD O1N O N N 135 NAD O2N O N N 136 NAD O5D O N N 137 NAD C5D C N N 138 NAD C4D C N R 139 NAD O4D O N N 140 NAD C3D C N S 141 NAD O3D O N N 142 NAD C2D C N R 143 NAD O2D O N N 144 NAD C1D C N R 145 NAD N1N N Y N 146 NAD C2N C Y N 147 NAD C3N C Y N 148 NAD C7N C N N 149 NAD O7N O N N 150 NAD N7N N N N 151 NAD C4N C Y N 152 NAD C5N C Y N 153 NAD C6N C Y N 154 NAD HOA2 H N N 155 NAD H51A H N N 156 NAD H52A H N N 157 NAD H4B H N N 158 NAD H3B H N N 159 NAD HO3A H N N 160 NAD H2B H N N 161 NAD HO2A H N N 162 NAD H1B H N N 163 NAD H8A H N N 164 NAD H61A H N N 165 NAD H62A H N N 166 NAD H2A H N N 167 NAD H51N H N N 168 NAD H52N H N N 169 NAD H4D H N N 170 NAD H3D H N N 171 NAD HO3N H N N 172 NAD H2D H N N 173 NAD HO2N H N N 174 NAD H1D H N N 175 NAD H2N H N N 176 NAD H71N H N N 177 NAD H72N H N N 178 NAD H4N H N N 179 NAD H5N H N N 180 NAD H6N H N N 181 NMN O3P O N N 182 NMN P P N N 183 NMN O1P O N N 184 NMN O2P O N N 185 NMN O5R O N N 186 NMN C5R C N N 187 NMN C4R C N R 188 NMN O4R O N N 189 NMN C3R C N S 190 NMN O3R O N N 191 NMN C2R C N R 192 NMN O2R O N N 193 NMN C1R C N R 194 NMN N1 N Y N 195 NMN C2 C Y N 196 NMN C3 C Y N 197 NMN C7 C N N 198 NMN O7 O N N 199 NMN N7 N N N 200 NMN C4 C Y N 201 NMN C5 C Y N 202 NMN C6 C Y N 203 NMN H1PO H N N 204 NMN H2PO H N N 205 NMN H5R1 H N N 206 NMN H5R2 H N N 207 NMN H4RC H N N 208 NMN H3RC H N N 209 NMN H3RO H N N 210 NMN H2RC H N N 211 NMN H2RO H N N 212 NMN H1RC H N N 213 NMN HC2 H N N 214 NMN HN71 H N N 215 NMN HN72 H N N 216 NMN HC4 H N N 217 NMN HC5 H N N 218 NMN HC6 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 NAD PA O1A doub N N 116 NAD PA O2A sing N N 117 NAD PA O5B sing N N 118 NAD PA O3 sing N N 119 NAD O2A HOA2 sing N N 120 NAD O5B C5B sing N N 121 NAD C5B C4B sing N N 122 NAD C5B H51A sing N N 123 NAD C5B H52A sing N N 124 NAD C4B O4B sing N N 125 NAD C4B C3B sing N N 126 NAD C4B H4B sing N N 127 NAD O4B C1B sing N N 128 NAD C3B O3B sing N N 129 NAD C3B C2B sing N N 130 NAD C3B H3B sing N N 131 NAD O3B HO3A sing N N 132 NAD C2B O2B sing N N 133 NAD C2B C1B sing N N 134 NAD C2B H2B sing N N 135 NAD O2B HO2A sing N N 136 NAD C1B N9A sing N N 137 NAD C1B H1B sing N N 138 NAD N9A C8A sing Y N 139 NAD N9A C4A sing Y N 140 NAD C8A N7A doub Y N 141 NAD C8A H8A sing N N 142 NAD N7A C5A sing Y N 143 NAD C5A C6A sing Y N 144 NAD C5A C4A doub Y N 145 NAD C6A N6A sing N N 146 NAD C6A N1A doub Y N 147 NAD N6A H61A sing N N 148 NAD N6A H62A sing N N 149 NAD N1A C2A sing Y N 150 NAD C2A N3A doub Y N 151 NAD C2A H2A sing N N 152 NAD N3A C4A sing Y N 153 NAD O3 PN sing N N 154 NAD PN O1N doub N N 155 NAD PN O2N sing N N 156 NAD PN O5D sing N N 157 NAD O5D C5D sing N N 158 NAD C5D C4D sing N N 159 NAD C5D H51N sing N N 160 NAD C5D H52N sing N N 161 NAD C4D O4D sing N N 162 NAD C4D C3D sing N N 163 NAD C4D H4D sing N N 164 NAD O4D C1D sing N N 165 NAD C3D O3D sing N N 166 NAD C3D C2D sing N N 167 NAD C3D H3D sing N N 168 NAD O3D HO3N sing N N 169 NAD C2D O2D sing N N 170 NAD C2D C1D sing N N 171 NAD C2D H2D sing N N 172 NAD O2D HO2N sing N N 173 NAD C1D N1N sing N N 174 NAD C1D H1D sing N N 175 NAD N1N C2N sing Y N 176 NAD N1N C6N doub Y N 177 NAD C2N C3N doub Y N 178 NAD C2N H2N sing N N 179 NAD C3N C7N sing N N 180 NAD C3N C4N sing Y N 181 NAD C7N O7N doub N N 182 NAD C7N N7N sing N N 183 NAD N7N H71N sing N N 184 NAD N7N H72N sing N N 185 NAD C4N C5N doub Y N 186 NAD C4N H4N sing N N 187 NAD C5N C6N sing Y N 188 NAD C5N H5N sing N N 189 NAD C6N H6N sing N N 190 NMN O3P P doub N N 191 NMN P O1P sing N N 192 NMN P O2P sing N N 193 NMN P O5R sing N N 194 NMN O1P H1PO sing N N 195 NMN O2P H2PO sing N N 196 NMN O5R C5R sing N N 197 NMN C5R C4R sing N N 198 NMN C5R H5R1 sing N N 199 NMN C5R H5R2 sing N N 200 NMN C4R O4R sing N N 201 NMN C4R C3R sing N N 202 NMN C4R H4RC sing N N 203 NMN O4R C1R sing N N 204 NMN C3R O3R sing N N 205 NMN C3R C2R sing N N 206 NMN C3R H3RC sing N N 207 NMN O3R H3RO sing N N 208 NMN C2R O2R sing N N 209 NMN C2R C1R sing N N 210 NMN C2R H2RC sing N N 211 NMN O2R H2RO sing N N 212 NMN C1R N1 sing N N 213 NMN C1R H1RC sing N N 214 NMN N1 C2 doub Y N 215 NMN N1 C6 sing Y N 216 NMN C2 C3 sing Y N 217 NMN C2 HC2 sing N N 218 NMN C3 C7 sing N N 219 NMN C3 C4 doub Y N 220 NMN C7 O7 doub N N 221 NMN C7 N7 sing N N 222 NMN N7 HN71 sing N N 223 NMN N7 HN72 sing N N 224 NMN C4 C5 sing Y N 225 NMN C4 HC4 sing N N 226 NMN C5 C6 doub Y N 227 NMN C5 HC5 sing N N 228 NMN C6 HC6 sing N N 229 U OP3 P sing N N 230 U OP3 HOP3 sing N N 231 U P OP1 doub N N 232 U P OP2 sing N N 233 U P "O5'" sing N N 234 U OP2 HOP2 sing N N 235 U "O5'" "C5'" sing N N 236 U "C5'" "C4'" sing N N 237 U "C5'" "H5'" sing N N 238 U "C5'" "H5''" sing N N 239 U "C4'" "O4'" sing N N 240 U "C4'" "C3'" sing N N 241 U "C4'" "H4'" sing N N 242 U "O4'" "C1'" sing N N 243 U "C3'" "O3'" sing N N 244 U "C3'" "C2'" sing N N 245 U "C3'" "H3'" sing N N 246 U "O3'" "HO3'" sing N N 247 U "C2'" "O2'" sing N N 248 U "C2'" "C1'" sing N N 249 U "C2'" "H2'" sing N N 250 U "O2'" "HO2'" sing N N 251 U "C1'" N1 sing N N 252 U "C1'" "H1'" sing N N 253 U N1 C2 sing N N 254 U N1 C6 sing N N 255 U C2 O2 doub N N 256 U C2 N3 sing N N 257 U N3 C4 sing N N 258 U N3 H3 sing N N 259 U C4 O4 doub N N 260 U C4 C5 sing N N 261 U C5 C6 doub N N 262 U C5 H5 sing N N 263 U C6 H6 sing N N 264 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 8HBA 'double helix' 8HBA 'a-form double helix' 8HBA 'hairpin loop' 8HBA 'quadruple 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 G 2 1_555 A C 39 1_555 -0.216 -0.158 0.057 -2.209 -8.347 -0.899 1 A_G1:C38_A A 1 ? A 38 ? 19 1 1 A C 3 1_555 A G 38 1_555 0.328 -0.237 0.225 -1.650 -10.253 -2.483 2 A_C2:G37_A A 2 ? A 37 ? 19 1 1 A G 4 1_555 A C 37 1_555 0.062 -0.120 0.351 -3.578 -8.810 -0.942 3 A_G3:C36_A A 3 ? A 36 ? 19 1 1 A G 5 1_555 A C 36 1_555 0.042 -0.126 0.350 -5.721 -10.745 -2.126 4 A_G4:C35_A A 4 ? A 35 ? 19 1 1 A C 6 1_555 A G 35 1_555 0.111 -0.198 0.539 -6.311 -5.221 -2.440 5 A_C5:G34_A A 5 ? A 34 ? 19 1 1 A C 47 1_555 A G 34 1_555 2.983 1.138 0.303 2.309 -11.024 48.920 6 A_C46:G33_A A 46 ? A 33 ? ? 5 1 A U 8 1_555 A A 48 1_555 -0.909 3.503 -0.271 9.703 -1.698 -71.316 7 A_U7:A47_A A 7 ? A 47 ? 23 3 1 A U 9 1_555 A A 51 1_555 -0.166 -1.199 -0.212 1.862 -11.241 -168.196 8 A_U8:A50_A A 8 ? A 50 ? 21 2 1 A A 32 1_555 A G 16 1_555 -3.509 3.654 0.436 14.720 -3.407 71.455 9 A_A31:G15_A A 31 ? A 15 ? 10 6 1 A G 52 1_555 A C 15 1_555 -0.010 -0.145 -0.112 0.244 -17.126 0.405 10 A_G51:C14_A A 51 ? A 14 ? 19 1 1 A G 53 1_555 A C 14 1_555 -0.063 -0.122 -0.164 0.163 -6.579 0.745 11 A_G52:C13_A A 52 ? A 13 ? 19 1 1 A A 54 1_555 A U 13 1_555 0.467 -0.076 -0.133 6.494 -8.782 5.601 12 A_A53:U12_A A 53 ? A 12 ? 20 1 1 A G 55 1_555 A C 11 1_555 0.058 -0.071 0.312 14.193 3.052 -0.839 13 A_G54:C10_A A 54 ? A 10 ? 19 1 1 A A 17 1_555 B U 41 1_555 5.110 -1.493 0.413 14.816 -12.678 -88.758 14 A_A16:U40_B A 16 ? B 40 ? ? ? 1 B G 38 1_555 B C 3 1_555 -0.334 -0.242 0.204 1.314 -9.619 -2.285 15 B_G37:C2_B B 37 ? B 2 ? 19 1 1 B C 37 1_555 B G 4 1_555 -0.071 -0.094 0.345 4.819 -8.789 -0.070 16 B_C36:G3_B B 36 ? B 3 ? 19 1 1 B C 36 1_555 B G 5 1_555 -0.067 -0.109 0.328 6.825 -10.428 -2.033 17 B_C35:G4_B B 35 ? B 4 ? 19 1 1 B G 35 1_555 B C 6 1_555 -0.154 -0.171 0.557 6.353 -5.035 -1.786 18 B_G34:C5_B B 34 ? B 5 ? 19 1 1 B G 34 1_555 B C 47 1_555 -3.000 1.090 0.358 -1.572 -10.957 48.485 19 B_G33:C46_B B 33 ? B 46 ? ? 5 1 B U 8 1_555 B A 48 1_555 -0.901 3.502 -0.185 8.793 -2.384 -71.142 20 B_U7:A47_B B 7 ? B 47 ? 23 3 1 B U 9 1_555 B A 51 1_555 -0.192 -1.136 -0.212 1.716 -8.183 -168.949 21 B_U8:A50_B B 8 ? B 50 ? 21 2 1 B G 16 1_555 B A 32 1_555 3.495 -3.682 -0.435 -15.115 2.652 -71.227 22 B_G15:A31_B B 15 ? B 31 ? 10 6 1 B G 52 1_555 B C 15 1_555 -0.025 -0.121 -0.096 -0.566 -17.063 0.975 23 B_G51:C14_B B 51 ? B 14 ? 19 1 1 B G 53 1_555 B C 14 1_555 -0.020 -0.126 -0.183 0.629 -6.719 0.973 24 B_G52:C13_B B 52 ? B 13 ? 19 1 1 B A 54 1_555 B U 13 1_555 0.484 -0.096 -0.196 5.012 -9.299 5.601 25 B_A53:U12_B B 53 ? B 12 ? 20 1 1 B G 55 1_555 B C 11 1_555 0.052 -0.025 0.477 17.566 4.052 1.634 26 B_G54:C10_B B 54 ? B 10 ? 19 1 1 A G 20 1_555 A C 31 1_555 -0.030 -0.170 0.580 7.126 -15.931 -2.929 27 A_G19:C30_A A 19 ? A 30 ? 19 1 1 A U 21 1_555 A A 30 1_555 0.306 -0.221 0.435 4.422 -14.347 -2.456 28 A_U20:A29_A A 20 ? A 29 ? 20 1 1 B G 2 1_555 B C 39 1_555 -0.272 -0.181 0.110 -1.868 -8.113 -0.641 29 B_G1:C38_B B 1 ? B 38 ? 19 1 1 B G 20 1_555 B C 31 1_555 -0.027 -0.165 0.467 8.294 -19.307 -2.348 30 B_G19:C30_B B 19 ? B 30 ? 19 1 1 B U 21 1_555 B A 30 1_555 0.178 -0.147 0.311 3.372 -17.996 -0.098 31 B_U20:A29_B B 20 ? B 29 ? 20 1 1 B C 22 1_555 B G 29 1_555 1.406 -0.029 0.465 -1.409 -13.590 -1.504 32 B_C21:G28_B B 21 ? B 28 ? 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 G 2 1_555 A C 39 1_555 A C 3 1_555 A G 38 1_555 -0.092 -1.286 3.137 -2.273 7.756 36.027 -2.998 -0.138 2.810 12.349 3.619 36.893 1 AA_G1C2:G37C38_AA A 1 ? A 38 ? A 2 ? A 37 ? 1 A C 3 1_555 A G 38 1_555 A G 4 1_555 A C 37 1_555 0.417 -1.760 3.010 0.975 7.707 28.544 -4.845 -0.641 2.473 15.277 -1.932 29.561 2 AA_C2G3:C36G37_AA A 2 ? A 37 ? A 3 ? A 36 ? 1 A G 4 1_555 A C 37 1_555 A G 5 1_555 A C 36 1_555 -0.022 -1.816 3.089 2.669 5.314 34.794 -3.708 0.394 2.780 8.807 -4.423 35.283 3 AA_G3G4:C35C36_AA A 3 ? A 36 ? A 4 ? A 35 ? 1 A G 5 1_555 A C 36 1_555 A C 6 1_555 A G 35 1_555 0.978 -2.128 3.205 5.515 2.943 29.816 -4.625 -0.786 3.112 5.641 -10.572 30.450 4 AA_G4C5:G34C35_AA A 4 ? A 35 ? A 5 ? A 34 ? 1 A C 6 1_555 A G 35 1_555 A C 47 1_555 A G 34 1_555 -2.407 0.942 3.251 7.347 -1.382 78.040 0.782 2.102 3.037 -1.095 -5.822 78.341 5 AA_C5C46:G33G34_AA A 5 ? A 34 ? A 46 ? A 33 ? 1 A C 47 1_555 A G 34 1_555 A U 8 1_555 A A 48 1_555 -1.428 -3.167 3.280 0.164 2.425 -23.755 6.822 -3.394 3.590 -5.872 0.397 -23.878 6 AA_C46U7:A47G33_AA A 46 ? A 33 ? A 7 ? A 47 ? 1 A U 8 1_555 A A 48 1_555 A U 9 1_555 A A 51 1_555 -0.683 0.010 2.928 2.693 -0.373 85.756 0.015 0.556 2.910 -0.274 -1.978 85.791 7 AA_U7U8:A50A47_AA A 7 ? A 47 ? A 8 ? A 50 ? 1 A U 9 1_555 A A 51 1_555 A A 32 1_555 A G 16 1_555 3.360 -0.100 4.212 169.400 -37.132 -23.741 0.211 2.416 -2.365 19.125 87.251 -173.563 8 AA_U8A31:G15A50_AA A 8 ? A 50 ? A 31 ? A 15 ? 1 A A 32 1_555 A G 16 1_555 A G 52 1_555 A C 15 1_555 -2.873 -2.333 -1.275 113.413 -127.920 0.468 -1.709 0.964 -0.166 -67.330 -59.694 170.956 9 AA_A31G51:C14G15_AA A 31 ? A 15 ? A 51 ? A 14 ? 1 A G 52 1_555 A C 15 1_555 A G 53 1_555 A C 14 1_555 -1.316 -2.226 3.162 -5.345 8.883 25.726 -6.577 1.589 2.488 18.997 11.430 27.704 10 AA_G51G52:C13C14_AA A 51 ? A 14 ? A 52 ? A 13 ? 1 A G 53 1_555 A C 14 1_555 A A 54 1_555 A U 13 1_555 0.670 -1.034 3.182 0.799 -0.031 36.759 -1.636 -0.956 3.196 -0.049 -1.267 36.768 11 AA_G52A53:U12C13_AA A 52 ? A 13 ? A 53 ? A 12 ? 1 A A 54 1_555 A U 13 1_555 A G 55 1_555 A C 11 1_555 1.899 -0.779 2.710 2.122 14.582 46.372 -1.858 -2.178 2.453 17.992 -2.618 48.534 12 AA_A53G54:C10U12_AA A 53 ? A 12 ? A 54 ? A 10 ? 1 A A 17 1_555 B U 41 1_555 B G 38 1_555 B C 3 1_555 1.490 6.762 -0.406 -28.587 -1.113 136.492 3.622 -0.773 -0.576 -0.597 15.340 137.906 13 AB_A16G37:C2U40_BB A 16 ? B 40 ? B 37 ? B 2 ? 1 B G 38 1_555 B C 3 1_555 B C 37 1_555 B G 4 1_555 0.434 1.811 -3.036 0.924 -8.635 -28.365 -5.090 0.682 -2.405 17.120 1.832 -29.638 14 BB_G37C36:G3C2_BB B 37 ? B 2 ? B 36 ? B 3 ? 1 B C 37 1_555 B G 4 1_555 B C 36 1_555 B G 5 1_555 -0.013 1.864 -3.099 3.539 -5.362 -34.198 -3.859 -0.510 -2.769 9.019 5.952 -34.779 15 BB_C36C35:G4G3_BB B 36 ? B 3 ? B 35 ? B 4 ? 1 B C 36 1_555 B G 5 1_555 B G 35 1_555 B C 6 1_555 0.936 2.139 -3.191 5.312 -3.077 -29.793 -4.675 0.754 -3.077 5.905 10.195 -30.405 16 BB_C35G34:C5G4_BB B 35 ? B 4 ? B 34 ? B 5 ? 1 B G 35 1_555 B C 6 1_555 B G 34 1_555 B C 47 1_555 -2.424 -0.964 -3.239 7.091 0.461 -77.607 0.779 -2.120 -3.039 -0.367 5.646 -77.880 17 BB_G34G33:C46C5_BB B 34 ? B 5 ? B 33 ? B 46 ? 1 B G 34 1_555 B C 47 1_555 B U 8 1_555 B A 48 1_555 -3.969 2.530 -0.579 -174.474 -36.169 -150.883 -1.291 -1.860 -1.408 18.091 -87.266 -179.543 18 BB_G33U7:A47C46_BB B 33 ? B 46 ? B 7 ? B 47 ? 1 B U 8 1_555 B A 48 1_555 B U 9 1_555 B A 51 1_555 -0.648 0.041 2.971 3.382 -1.651 85.687 0.064 0.546 2.948 -1.214 -2.486 85.753 19 BB_U7U8:A50A47_BB B 7 ? B 47 ? B 8 ? B 50 ? 1 B U 9 1_555 B A 51 1_555 B G 16 1_555 B A 32 1_555 3.766 -0.379 3.830 168.824 -36.945 -37.107 0.304 2.409 -2.343 18.995 86.802 -173.193 20 BB_U8G15:A31A50_BB B 8 ? B 50 ? B 15 ? B 31 ? 1 B G 16 1_555 B A 32 1_555 B G 52 1_555 B C 15 1_555 -2.855 -2.368 -1.270 113.117 -127.941 1.104 -1.709 0.971 -0.129 -67.392 -59.584 170.776 21 BB_G15G51:C14A31_BB B 15 ? B 31 ? B 51 ? B 14 ? 1 B G 52 1_555 B C 15 1_555 B G 53 1_555 B C 14 1_555 -1.314 -2.239 3.134 -4.732 8.882 25.265 -6.738 1.747 2.423 19.355 10.313 27.165 22 BB_G51G52:C13C14_BB B 51 ? B 14 ? B 52 ? B 13 ? 1 B G 53 1_555 B C 14 1_555 B A 54 1_555 B U 13 1_555 0.730 -1.017 3.212 1.504 0.442 37.854 -1.622 -0.934 3.226 0.681 -2.317 37.885 23 BB_G52A53:U12C13_BB B 52 ? B 13 ? B 53 ? B 12 ? 1 B A 54 1_555 B U 13 1_555 B G 55 1_555 B C 11 1_555 1.972 -0.869 2.564 -0.637 13.109 45.647 -1.874 -2.492 2.222 16.499 0.802 47.399 24 BB_A53G54:C10U12_BB B 53 ? B 12 ? B 54 ? B 10 ? 1 A G 20 1_555 A C 31 1_555 A U 21 1_555 A A 30 1_555 0.300 -1.482 3.359 0.356 3.166 33.878 -3.041 -0.456 3.215 5.418 -0.609 34.023 25 AA_G19U20:A29C30_AA A 19 ? A 30 ? A 20 ? A 29 ? 1 B G 20 1_555 B C 31 1_555 B U 21 1_555 B A 30 1_555 0.337 -1.497 3.360 0.661 3.093 34.562 -2.988 -0.463 3.224 5.192 -1.109 34.702 26 BB_G19U20:A29C30_BB B 19 ? B 30 ? B 20 ? B 29 ? 1 B U 21 1_555 B A 30 1_555 B C 22 1_555 B G 29 1_555 0.445 -1.773 3.387 0.996 0.521 38.920 -2.724 -0.543 3.374 0.781 -1.494 38.936 27 BB_U20C21:G28A29_BB B 20 ? B 29 ? B 21 ? B 28 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Natural Science Foundation of China (NSFC)' China 32171191 1 'Cancer Research UK' 'United Kingdom' A18604 2 # loop_ _pdbx_entity_instance_feature.ordinal _pdbx_entity_instance_feature.comp_id _pdbx_entity_instance_feature.asym_id _pdbx_entity_instance_feature.seq_num _pdbx_entity_instance_feature.auth_comp_id _pdbx_entity_instance_feature.auth_asym_id _pdbx_entity_instance_feature.auth_seq_num _pdbx_entity_instance_feature.feature_type _pdbx_entity_instance_feature.details 1 NAD ? ? NAD ? ? 'SUBJECT OF INVESTIGATION' ? 2 NMN ? ? NMN ? ? 'SUBJECT OF INVESTIGATION' ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 NICOTINAMIDE-ADENINE-DINUCLEOTIDE NAD 3 'BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE' NMN # _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 8HB1 _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 ? #