data_5LR5 # _entry.id 5LR5 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.391 _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 5LR5 pdb_00005lr5 10.2210/pdb5lr5/pdb WWPDB D_1200001234 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2017-06-21 2 'Structure model' 1 1 2017-06-28 3 'Structure model' 1 2 2017-09-13 4 'Structure model' 2 0 2019-02-20 5 'Structure model' 2 1 2019-07-10 6 'Structure model' 2 2 2024-05-08 # _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' 'Database references' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Derived calculations' 5 4 'Structure model' 'Polymer sequence' 6 5 'Structure model' 'Data collection' 7 6 'Structure model' 'Data collection' 8 6 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author 3 3 'Structure model' citation 4 4 'Structure model' diffrn_source 5 4 'Structure model' entity_poly 6 4 'Structure model' ndb_struct_conf_na 7 4 'Structure model' ndb_struct_na_base_pair 8 4 'Structure model' ndb_struct_na_base_pair_step 9 4 'Structure model' pdbx_seq_map_depositor_info 10 4 'Structure model' struct_conn 11 5 'Structure model' diffrn_source 12 6 'Structure model' chem_comp_atom 13 6 'Structure model' chem_comp_bond 14 6 'Structure model' database_2 # 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.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.pdbx_database_id_DOI' 4 2 'Structure model' '_citation.pdbx_database_id_PubMed' 5 2 'Structure model' '_citation.title' 6 3 'Structure model' '_citation.journal_volume' 7 3 'Structure model' '_citation.page_first' 8 3 'Structure model' '_citation.page_last' 9 4 'Structure model' '_diffrn_source.pdbx_synchrotron_site' 10 4 'Structure model' '_entity_poly.pdbx_seq_one_letter_code_can' 11 4 'Structure model' '_pdbx_seq_map_depositor_info.one_letter_code' 12 5 'Structure model' '_diffrn_source.pdbx_synchrotron_site' 13 6 'Structure model' '_database_2.pdbx_DOI' 14 6 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 5LR5 _pdbx_database_status.recvd_initial_deposition_date 2016-08-18 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _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 'Huang, L.' 1 'Lilley, D.M.J.' 2 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'EMBO Rep.' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 1469-3178 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 18 _citation.language ? _citation.page_first 1631 _citation.page_last 1645 _citation.title 'Control of box C/D snoRNP assembly by N(6)-methylation of adenine.' _citation.year 2017 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.15252/embr.201743967 _citation.pdbx_database_id_PubMed 28623187 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Huang, L.' 1 ? primary 'Ashraf, S.' 2 ? primary 'Wang, J.' 3 ? primary 'Lilley, D.M.' 4 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;RNA (5'-R(*GP*GP*(6MZ)P*CP*UP*AP*GP*UP*(CBV)P*C)-3') ; 3269.872 4 ? ? ? ? 2 non-polymer syn 'SULFATE ION' 96.063 1 ? ? ? ? 3 water nat water 18.015 10 ? ? ? ? # _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 'GG(6MZ)CUAGU(CBV)C' _entity_poly.pdbx_seq_one_letter_code_can GGACUAGUCC _entity_poly.pdbx_strand_id A,B,C,D _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'SULFATE ION' SO4 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 G n 1 3 6MZ n 1 4 C n 1 5 U n 1 6 A n 1 7 G n 1 8 U n 1 9 CBV n 1 10 C 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 10 _pdbx_entity_src_syn.organism_scientific 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details ? # 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 6MZ 'RNA linking' n "N6-METHYLADENOSINE-5'-MONOPHOSPHATE" ? 'C11 H16 N5 O7 P' 361.248 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 CBV 'RNA linking' n ;5-BROMOCYTIDINE 5'-(DIHYDROGEN PHOSPHATE) ; ? 'C9 H13 Br N3 O8 P' 402.093 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 SO4 non-polymer . 'SULFATE ION' ? 'O4 S -2' 96.063 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 G 1 1 1 G G A . n A 1 2 G 2 2 2 G G A . n A 1 3 6MZ 3 3 3 6MZ 6MZ A . n A 1 4 C 4 4 4 C C A . n A 1 5 U 5 5 5 U U A . n A 1 6 A 6 6 6 A A A . n A 1 7 G 7 7 7 G G A . n A 1 8 U 8 8 8 U U A . n A 1 9 CBV 9 9 9 CBV CBV A . n A 1 10 C 10 10 10 C C A . n B 1 1 G 1 1 1 G G B . n B 1 2 G 2 2 2 G G B . n B 1 3 6MZ 3 3 3 6MZ 6MZ B . n B 1 4 C 4 4 4 C C B . n B 1 5 U 5 5 5 U U B . n B 1 6 A 6 6 6 A A B . n B 1 7 G 7 7 7 G G B . n B 1 8 U 8 8 8 U U B . n B 1 9 CBV 9 9 9 CBV CBV B . n B 1 10 C 10 10 10 C C B . n C 1 1 G 1 1 1 G G C . n C 1 2 G 2 2 2 G G C . n C 1 3 6MZ 3 3 3 6MZ 6MZ C . n C 1 4 C 4 4 4 C C C . n C 1 5 U 5 5 5 U U C . n C 1 6 A 6 6 6 A A C . n C 1 7 G 7 7 7 G G C . n C 1 8 U 8 8 8 U U C . n C 1 9 CBV 9 9 9 CBV CBV C . n C 1 10 C 10 10 10 C C C . n D 1 1 G 1 1 1 G G D . n D 1 2 G 2 2 2 G G D . n D 1 3 6MZ 3 3 3 6MZ 6MZ D . n D 1 4 C 4 4 4 C C D . n D 1 5 U 5 5 5 U U D . n D 1 6 A 6 6 6 A A D . n D 1 7 G 7 7 7 G G D . n D 1 8 U 8 8 8 U U D . n D 1 9 CBV 9 9 9 CBV CBV D . n D 1 10 C 10 10 10 C C D . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code E 2 SO4 1 101 1 SO4 SO4 C . F 3 HOH 1 101 2 HOH HOH A . F 3 HOH 2 102 4 HOH HOH A . F 3 HOH 3 103 3 HOH HOH A . G 3 HOH 1 101 10 HOH HOH B . G 3 HOH 2 102 7 HOH HOH B . G 3 HOH 3 103 6 HOH HOH B . G 3 HOH 4 104 5 HOH HOH B . H 3 HOH 1 201 1 HOH HOH C . H 3 HOH 2 202 8 HOH HOH C . H 3 HOH 3 203 9 HOH HOH C . # 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 ? ? ? '(dev_2481: ???)' 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? xia2 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? Aimless ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? . 4 # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 120.00 _cell.angle_gamma_esd ? _cell.entry_id 5LR5 _cell.details ? _cell.formula_units_Z ? _cell.length_a 50.470 _cell.length_a_esd ? _cell.length_b 50.470 _cell.length_b_esd ? _cell.length_c 108.625 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 24 _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 5LR5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' _symmetry.pdbx_full_space_group_name_H-M ? # _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 5LR5 _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 3.05 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 59.72 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '0.2 M Ammonium Sulfate 0.1 M Sodium Acetate trihydrate pH 4.6 25% w/v Polyethylene Glycol 4000' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS PILATUS 6M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2016-06-25 # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9193 _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 'DIAMOND BEAMLINE I02' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.9193 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline I02 _diffrn_source.pdbx_synchrotron_site Diamond # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 5LR5 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.27 _reflns.d_resolution_low 43.71 _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 5911 _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 1.4 _reflns.percent_possible_obs 98.4 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 41.7 _reflns.pdbx_Rmerge_I_obs 0.143 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 13.3 _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 ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 1.00 _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 2.27 _reflns_shell.d_res_low 2.31 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 1.4 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs ? _reflns_shell.percent_possible_all 97.6 _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 2.7 _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 38.7 _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 ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.545 _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 5LR5 _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 2.400 _refine.ls_d_res_low 43.708 _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 5910 _refine.ls_number_reflns_R_free 528 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 96.27 _refine.ls_percent_reflns_R_free 4.54 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2490 _refine.ls_R_factor_R_free 0.2873 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2474 _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 SAD _refine.pdbx_starting_model ? _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 38.71 _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 0.44 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 856 _refine_hist.pdbx_number_atoms_ligand 5 _refine_hist.number_atoms_solvent 10 _refine_hist.number_atoms_total 871 _refine_hist.d_res_high 2.400 _refine_hist.d_res_low 43.708 # 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' ? 0.020 ? 956 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 4.691 ? 1494 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 10.504 ? 404 ? f_dihedral_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.053 ? 188 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.003 ? 40 ? 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' 2.4001 2.6416 . . 120 2802 96.00 . . . 0.4358 . 0.4235 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.6416 3.0237 . . 182 2765 98.00 . . . 0.4142 . 0.3858 . . . . . . . . . . 'X-RAY DIFFRACTION' 3.0237 3.8093 . . 105 2677 92.00 . . . 0.2830 . 0.2847 . . . . . . . . . . 'X-RAY DIFFRACTION' 3.8093 43.7155 . . 121 2865 99.00 . . . 0.2177 . 0.1720 . . . . . . . . . . # _struct.entry_id 5LR5 _struct.title 'N6-methyladenine is accommodated in a conventional A-U basepair' _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 5LR5 _struct_keywords.text 'N6-methyladenine, RNA folding, Watson-Crick basepairs, RNA' _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 1 ? D N N 1 ? E N N 2 ? F N N 3 ? G N N 3 ? H N N 3 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 5LR5 _struct_ref.pdbx_db_accession 5LR5 _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 5LR5 A 1 ? 10 ? 5LR5 1 ? 10 ? 1 10 2 1 5LR5 B 1 ? 10 ? 5LR5 1 ? 10 ? 1 10 3 1 5LR5 C 1 ? 10 ? 5LR5 1 ? 10 ? 1 10 4 1 5LR5 D 1 ? 10 ? 5LR5 1 ? 10 ? 1 10 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 software_defined_assembly PISA dimeric 2 2 software_defined_assembly PISA dimeric 2 # 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)' 3470 ? 1 MORE 5 ? 1 'SSA (A^2)' 3230 ? 2 'ABSA (A^2)' 3700 ? 2 MORE -12 ? 2 'SSA (A^2)' 3220 ? # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,F,G 2 1 C,D,E,H # _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_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A G 2 "O3'" ? ? ? 1_555 A 6MZ 3 P ? ? A G 2 A 6MZ 3 1_555 ? ? ? ? ? ? ? 1.698 ? ? covale2 covale both ? A 6MZ 3 "O3'" ? ? ? 1_555 A C 4 P ? ? A 6MZ 3 A C 4 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale3 covale both ? A U 8 "O3'" ? ? ? 1_555 A CBV 9 P ? ? A U 8 A CBV 9 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale4 covale one ? A CBV 9 "O3'" ? ? ? 1_555 A C 10 P ? ? A CBV 9 A C 10 1_555 ? ? ? ? ? ? ? 1.601 ? ? covale5 covale both ? B G 2 "O3'" ? ? ? 1_555 B 6MZ 3 P ? ? B G 2 B 6MZ 3 1_555 ? ? ? ? ? ? ? 1.698 ? ? covale6 covale both ? B 6MZ 3 "O3'" ? ? ? 1_555 B C 4 P ? ? B 6MZ 3 B C 4 1_555 ? ? ? ? ? ? ? 1.598 ? ? covale7 covale both ? B U 8 "O3'" ? ? ? 1_555 B CBV 9 P ? ? B U 8 B CBV 9 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale8 covale one ? B CBV 9 "O3'" ? ? ? 1_555 B C 10 P ? ? B CBV 9 B C 10 1_555 ? ? ? ? ? ? ? 1.602 ? ? covale9 covale both ? C G 2 "O3'" ? ? ? 1_555 C 6MZ 3 P ? ? C G 2 C 6MZ 3 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale10 covale both ? C 6MZ 3 "O3'" ? ? ? 1_555 C C 4 P ? ? C 6MZ 3 C C 4 1_555 ? ? ? ? ? ? ? 1.610 ? ? covale11 covale both ? C U 8 "O3'" ? ? ? 1_555 C CBV 9 P ? ? C U 8 C CBV 9 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale12 covale one ? C CBV 9 "O3'" ? ? ? 1_555 C C 10 P ? ? C CBV 9 C C 10 1_555 ? ? ? ? ? ? ? 1.601 ? ? covale13 covale both ? D G 2 "O3'" ? ? ? 1_555 D 6MZ 3 P ? ? D G 2 D 6MZ 3 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale14 covale both ? D 6MZ 3 "O3'" ? ? ? 1_555 D C 4 P ? ? D 6MZ 3 D C 4 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale15 covale both ? D U 8 "O3'" ? ? ? 1_555 D CBV 9 P ? ? D U 8 D CBV 9 1_555 ? ? ? ? ? ? ? 1.702 ? ? covale16 covale one ? D CBV 9 "O3'" ? ? ? 1_555 D C 10 P ? ? D CBV 9 D C 10 1_555 ? ? ? ? ? ? ? 1.595 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 B C 10 N3 ? ? A G 1 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 10 O2 ? ? A G 1 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 10 N4 ? ? A G 1 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 B CBV 9 N3 ? ? A G 2 B CBV 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 B CBV 9 O2 ? ? A G 2 B CBV 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 B CBV 9 N4 ? ? A G 2 B CBV 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A 6MZ 3 N1 ? ? ? 1_555 B U 8 N3 ? ? A 6MZ 3 B U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A 6MZ 3 N6 ? ? ? 1_555 B U 8 O4 ? ? A 6MZ 3 B U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 4 N3 ? ? ? 1_555 B G 7 N1 ? ? A C 4 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 4 N4 ? ? ? 1_555 B G 7 O6 ? ? A C 4 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 4 O2 ? ? ? 1_555 B G 7 N2 ? ? A C 4 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A U 5 N3 ? ? ? 1_555 B A 6 N1 ? ? A U 5 B A 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A U 5 O4 ? ? ? 1_555 B A 6 N6 ? ? A U 5 B A 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A 6 N1 ? ? ? 1_555 B U 5 N3 ? ? A A 6 B U 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A A 6 N6 ? ? ? 1_555 B U 5 O4 ? ? A A 6 B U 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 7 N1 ? ? ? 1_555 B C 4 N3 ? ? A G 7 B C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 7 N2 ? ? ? 1_555 B C 4 O2 ? ? A G 7 B C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 7 O6 ? ? ? 1_555 B C 4 N4 ? ? A G 7 B C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A U 8 N3 ? ? ? 1_555 B 6MZ 3 N1 ? ? A U 8 B 6MZ 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A U 8 O4 ? ? ? 1_555 B 6MZ 3 N6 ? ? A U 8 B 6MZ 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A CBV 9 N3 ? ? ? 1_555 B G 2 N1 ? ? A CBV 9 B G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A CBV 9 N4 ? ? ? 1_555 B G 2 O6 ? ? A CBV 9 B G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A CBV 9 O2 ? ? ? 1_555 B G 2 N2 ? ? A CBV 9 B G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 10 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 10 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A C 10 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 10 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 10 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 10 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C G 1 N1 ? ? ? 1_555 D C 10 N3 ? ? C G 1 D C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C G 1 N2 ? ? ? 1_555 D C 10 O2 ? ? C G 1 D C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? C G 1 O6 ? ? ? 1_555 D C 10 N4 ? ? C G 1 D C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? C G 2 N1 ? ? ? 1_555 D CBV 9 N3 ? ? C G 2 D CBV 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? C G 2 N2 ? ? ? 1_555 D CBV 9 O2 ? ? C G 2 D CBV 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? C G 2 O6 ? ? ? 1_555 D CBV 9 N4 ? ? C G 2 D CBV 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? C 6MZ 3 N1 ? ? ? 1_555 D U 8 N3 ? ? C 6MZ 3 D U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? C 6MZ 3 N6 ? ? ? 1_555 D U 8 O4 ? ? C 6MZ 3 D U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? C C 4 N3 ? ? ? 1_555 D G 7 N1 ? ? C C 4 D G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? C C 4 N4 ? ? ? 1_555 D G 7 O6 ? ? C C 4 D G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? C C 4 O2 ? ? ? 1_555 D G 7 N2 ? ? C C 4 D G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? C U 5 N3 ? ? ? 1_555 D A 6 N1 ? ? C U 5 D A 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? C U 5 O4 ? ? ? 1_555 D A 6 N6 ? ? C U 5 D A 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? C A 6 N1 ? ? ? 1_555 D U 5 N3 ? ? C A 6 D U 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? C A 6 N6 ? ? ? 1_555 D U 5 O4 ? ? C A 6 D U 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? C G 7 N1 ? ? ? 1_555 D C 4 N3 ? ? C G 7 D C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C G 7 N2 ? ? ? 1_555 D C 4 O2 ? ? C G 7 D C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? C G 7 O6 ? ? ? 1_555 D C 4 N4 ? ? C G 7 D C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? C U 8 N3 ? ? ? 1_555 D 6MZ 3 N1 ? ? C U 8 D 6MZ 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? C U 8 O4 ? ? ? 1_555 D 6MZ 3 N6 ? ? C U 8 D 6MZ 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? C CBV 9 N3 ? ? ? 1_555 D G 2 N1 ? ? C CBV 9 D G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? C CBV 9 N4 ? ? ? 1_555 D G 2 O6 ? ? C CBV 9 D G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? C CBV 9 O2 ? ? ? 1_555 D G 2 N2 ? ? C CBV 9 D G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? C C 10 N3 ? ? ? 1_555 D G 1 N1 ? ? C C 10 D G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? C C 10 N4 ? ? ? 1_555 D G 1 O6 ? ? C C 10 D G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? C C 10 O2 ? ? ? 1_555 D G 1 N2 ? ? C C 10 D G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software C SO4 101 ? 3 'binding site for residue SO4 C 101' AC2 Software B G 2 ? 7 'binding site for Di-nucleotide G B 2 and 6MZ B 3' AC3 Software B 6MZ 3 ? 6 'binding site for Di-nucleotide 6MZ B 3 and C B 4' AC4 Software B CBV 9 ? 5 'binding site for Di-nucleotide CBV B 9 and C B 10' AC5 Software C G 2 ? 6 'binding site for Di-nucleotide G C 2 and 6MZ C 3' AC6 Software C 6MZ 3 ? 7 'binding site for Di-nucleotide 6MZ C 3 and C C 4' AC7 Software C CBV 9 ? 9 'binding site for Di-nucleotide CBV C 9 and C C 10' AC8 Software D G 2 ? 6 'binding site for Di-nucleotide G D 2 and 6MZ D 3' AC9 Software D 6MZ 3 ? 7 'binding site for Di-nucleotide 6MZ D 3 and C D 4' AD1 Software D CBV 9 ? 7 'binding site for Di-nucleotide CBV D 9 and C D 10' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 3 G C 7 ? G C 7 . ? 1_555 ? 2 AC1 3 U C 8 ? U C 8 . ? 1_555 ? 3 AC1 3 U D 5 ? U D 5 . ? 1_555 ? 4 AC2 7 U A 8 ? U A 8 . ? 1_555 ? 5 AC2 7 CBV A 9 ? CBV A 9 . ? 1_555 ? 6 AC2 7 C A 10 ? C A 10 . ? 1_555 ? 7 AC2 7 G B 1 ? G B 1 . ? 1_555 ? 8 AC2 7 C B 4 ? C B 4 . ? 1_555 ? 9 AC2 7 HOH G . ? HOH B 101 . ? 1_555 ? 10 AC2 7 HOH G . ? HOH B 103 . ? 1_555 ? 11 AC3 6 G A 7 ? G A 7 . ? 1_555 ? 12 AC3 6 U A 8 ? U A 8 . ? 1_555 ? 13 AC3 6 CBV A 9 ? CBV A 9 . ? 1_555 ? 14 AC3 6 G B 2 ? G B 2 . ? 1_555 ? 15 AC3 6 U B 5 ? U B 5 . ? 1_555 ? 16 AC3 6 HOH G . ? HOH B 103 . ? 1_555 ? 17 AC4 5 G A 1 ? G A 1 . ? 1_555 ? 18 AC4 5 G A 2 ? G A 2 . ? 1_555 ? 19 AC4 5 6MZ A 3 ? 6MZ A 3 . ? 1_555 ? 20 AC4 5 U B 8 ? U B 8 . ? 1_555 ? 21 AC4 5 G C 1 ? G C 1 . ? 6_544 ? 22 AC5 6 U A 5 ? U A 5 . ? 1_555 ? 23 AC5 6 G C 1 ? G C 1 . ? 1_555 ? 24 AC5 6 C C 4 ? C C 4 . ? 1_555 ? 25 AC5 6 U D 8 ? U D 8 . ? 1_555 ? 26 AC5 6 CBV D 9 ? CBV D 9 . ? 1_555 ? 27 AC5 6 C D 10 ? C D 10 . ? 1_555 ? 28 AC6 7 U A 5 ? U A 5 . ? 1_555 ? 29 AC6 7 U B 8 ? U B 8 . ? 1_555 ? 30 AC6 7 G C 2 ? G C 2 . ? 1_555 ? 31 AC6 7 U C 5 ? U C 5 . ? 1_555 ? 32 AC6 7 G D 7 ? G D 7 . ? 1_555 ? 33 AC6 7 U D 8 ? U D 8 . ? 1_555 ? 34 AC6 7 CBV D 9 ? CBV D 9 . ? 1_555 ? 35 AC7 9 G B 1 ? G B 1 . ? 2_544 ? 36 AC7 9 U C 5 ? U C 5 . ? 6_554 ? 37 AC7 9 U C 8 ? U C 8 . ? 1_555 ? 38 AC7 9 HOH H . ? HOH C 201 . ? 1_555 ? 39 AC7 9 G D 1 ? G D 1 . ? 1_555 ? 40 AC7 9 G D 2 ? G D 2 . ? 1_555 ? 41 AC7 9 6MZ D 3 ? 6MZ D 3 . ? 1_555 ? 42 AC7 9 G D 7 ? G D 7 . ? 6_554 ? 43 AC7 9 U D 8 ? U D 8 . ? 6_554 ? 44 AC8 6 A B 6 ? A B 6 . ? 6_554 ? 45 AC8 6 U C 8 ? U C 8 . ? 1_555 ? 46 AC8 6 CBV C 9 ? CBV C 9 . ? 1_555 ? 47 AC8 6 C C 10 ? C C 10 . ? 1_555 ? 48 AC8 6 G D 1 ? G D 1 . ? 1_555 ? 49 AC8 6 C D 4 ? C D 4 . ? 1_555 ? 50 AC9 7 G C 7 ? G C 7 . ? 1_555 ? 51 AC9 7 U C 8 ? U C 8 . ? 1_555 ? 52 AC9 7 CBV C 9 ? CBV C 9 . ? 1_555 ? 53 AC9 7 G D 2 ? G D 2 . ? 1_555 ? 54 AC9 7 U D 5 ? U D 5 . ? 1_555 ? 55 AC9 7 CBV D 9 ? CBV D 9 . ? 6_554 ? 56 AC9 7 C D 10 ? C D 10 . ? 6_554 ? 57 AD1 7 G A 1 ? G A 1 . ? 5_665 ? 58 AD1 7 A A 6 ? A A 6 . ? 1_555 ? 59 AD1 7 G C 1 ? G C 1 . ? 1_555 ? 60 AD1 7 G C 2 ? G C 2 . ? 1_555 ? 61 AD1 7 6MZ C 3 ? 6MZ C 3 . ? 1_555 ? 62 AD1 7 C D 4 ? C D 4 . ? 5_555 ? 63 AD1 7 U D 8 ? U D 8 . ? 1_555 ? # 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 "O3'" A C 4 ? ? O A HOH 101 ? ? 1.86 2 1 "O2'" B G 2 ? ? O B HOH 101 ? ? 1.88 3 1 "O5'" B G 7 ? ? O B HOH 102 ? ? 1.91 4 1 "C3'" B G 7 ? ? O B HOH 102 ? ? 1.92 5 1 O1P B 6MZ 3 ? ? O B HOH 103 ? ? 1.93 6 1 "O2'" A CBV 9 ? ? O A HOH 102 ? ? 1.99 7 1 "O4'" A 6MZ 3 ? ? O A HOH 103 ? ? 2.10 8 1 "C1'" B G 2 ? ? O B HOH 101 ? ? 2.14 9 1 "C2'" B G 2 ? ? O B HOH 101 ? ? 2.18 10 1 "O3'" B A 6 ? ? O B HOH 104 ? ? 2.19 # 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 G 2 ? ? P A 6MZ 3 ? ? 1.698 1.607 0.091 0.012 Y 2 1 "O3'" B G 2 ? ? P B 6MZ 3 ? ? 1.698 1.607 0.091 0.012 Y 3 1 "O3'" D U 8 ? ? P D CBV 9 ? ? 1.702 1.607 0.095 0.012 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 6MZ C2 C Y N 1 6MZ C4 C Y N 2 6MZ C5 C Y N 3 6MZ O1P O N N 4 6MZ O2P O N N 5 6MZ N9 N Y N 6 6MZ N3 N Y N 7 6MZ N1 N Y N 8 6MZ C6 C Y N 9 6MZ N6 N N N 10 6MZ C9 C N N 11 6MZ N7 N Y N 12 6MZ C8 C Y N 13 6MZ "O5'" O N N 14 6MZ "C5'" C N N 15 6MZ "C4'" C N R 16 6MZ "O4'" O N N 17 6MZ "C1'" C N R 18 6MZ "C2'" C N R 19 6MZ "O2'" O N N 20 6MZ "C3'" C N S 21 6MZ "O3'" O N N 22 6MZ P P N N 23 6MZ O3P O N N 24 6MZ H2 H N N 25 6MZ H1P H N N 26 6MZ H8 H N N 27 6MZ "H1'" H N N 28 6MZ H9C1 H N N 29 6MZ H9C2 H N N 30 6MZ "H5'1" H N N 31 6MZ "H5'2" H N N 32 6MZ "H4'" H N N 33 6MZ "H3'" H N N 34 6MZ "H2'" H N N 35 6MZ HA H N N 36 6MZ HB H N N 37 6MZ H3P H N N 38 6MZ H6 H N N 39 6MZ H9 H N N 40 A OP3 O N N 41 A P P N N 42 A OP1 O N N 43 A OP2 O N N 44 A "O5'" O N N 45 A "C5'" C N N 46 A "C4'" C N R 47 A "O4'" O N N 48 A "C3'" C N S 49 A "O3'" O N N 50 A "C2'" C N R 51 A "O2'" O N N 52 A "C1'" C N R 53 A N9 N Y N 54 A C8 C Y N 55 A N7 N Y N 56 A C5 C Y N 57 A C6 C Y N 58 A N6 N N N 59 A N1 N Y N 60 A C2 C Y N 61 A N3 N Y N 62 A C4 C Y N 63 A HOP3 H N N 64 A HOP2 H N N 65 A "H5'" H N N 66 A "H5''" H N N 67 A "H4'" H N N 68 A "H3'" H N N 69 A "HO3'" H N N 70 A "H2'" H N N 71 A "HO2'" H N N 72 A "H1'" H N N 73 A H8 H N N 74 A H61 H N N 75 A H62 H N N 76 A H2 H N N 77 C OP3 O N N 78 C P P N N 79 C OP1 O N N 80 C OP2 O N N 81 C "O5'" O N N 82 C "C5'" C N N 83 C "C4'" C N R 84 C "O4'" O N N 85 C "C3'" C N S 86 C "O3'" O N N 87 C "C2'" C N R 88 C "O2'" O N N 89 C "C1'" C N R 90 C N1 N N N 91 C C2 C N N 92 C O2 O N N 93 C N3 N N N 94 C C4 C N N 95 C N4 N N N 96 C C5 C N N 97 C C6 C N N 98 C HOP3 H N N 99 C HOP2 H N N 100 C "H5'" H N N 101 C "H5''" H N N 102 C "H4'" H N N 103 C "H3'" H N N 104 C "HO3'" H N N 105 C "H2'" H N N 106 C "HO2'" H N N 107 C "H1'" H N N 108 C H41 H N N 109 C H42 H N N 110 C H5 H N N 111 C H6 H N N 112 CBV O3P O N N 113 CBV P P N N 114 CBV O1P O N N 115 CBV O2P O N N 116 CBV "O5'" O N N 117 CBV "C5'" C N N 118 CBV "C4'" C N R 119 CBV "O4'" O N N 120 CBV "C3'" C N S 121 CBV "O3'" O N N 122 CBV "C2'" C N R 123 CBV "O2'" O N N 124 CBV "C1'" C N R 125 CBV N1 N N N 126 CBV C2 C N N 127 CBV O2 O N N 128 CBV N3 N N N 129 CBV C4 C N N 130 CBV N4 N N N 131 CBV C5 C N N 132 CBV C6 C N N 133 CBV BR BR N N 134 CBV HO3P H N N 135 CBV HO1P H N N 136 CBV "H5'1" H N N 137 CBV "H5'2" H N N 138 CBV "H4'" H N N 139 CBV "H3'" H N N 140 CBV "HO3'" H N N 141 CBV "H2'" H N N 142 CBV "HO2'" H N N 143 CBV "H1'" H N N 144 CBV HN41 H N N 145 CBV HN42 H N N 146 CBV H6 H N N 147 G OP3 O N N 148 G P P N N 149 G OP1 O N N 150 G OP2 O N N 151 G "O5'" O N N 152 G "C5'" C N N 153 G "C4'" C N R 154 G "O4'" O N N 155 G "C3'" C N S 156 G "O3'" O N N 157 G "C2'" C N R 158 G "O2'" O N N 159 G "C1'" C N R 160 G N9 N Y N 161 G C8 C Y N 162 G N7 N Y N 163 G C5 C Y N 164 G C6 C N N 165 G O6 O N N 166 G N1 N N N 167 G C2 C N N 168 G N2 N N N 169 G N3 N N N 170 G C4 C Y N 171 G HOP3 H N N 172 G HOP2 H N N 173 G "H5'" H N N 174 G "H5''" H N N 175 G "H4'" H N N 176 G "H3'" H N N 177 G "HO3'" H N N 178 G "H2'" H N N 179 G "HO2'" H N N 180 G "H1'" H N N 181 G H8 H N N 182 G H1 H N N 183 G H21 H N N 184 G H22 H N N 185 HOH O O N N 186 HOH H1 H N N 187 HOH H2 H N N 188 SO4 S S N N 189 SO4 O1 O N N 190 SO4 O2 O N N 191 SO4 O3 O N N 192 SO4 O4 O N N 193 U OP3 O N N 194 U P P N N 195 U OP1 O N N 196 U OP2 O N N 197 U "O5'" O N N 198 U "C5'" C N N 199 U "C4'" C N R 200 U "O4'" O N N 201 U "C3'" C N S 202 U "O3'" O N N 203 U "C2'" C N R 204 U "O2'" O N N 205 U "C1'" C N R 206 U N1 N N N 207 U C2 C N N 208 U O2 O N N 209 U N3 N N N 210 U C4 C N N 211 U O4 O N N 212 U C5 C N N 213 U C6 C N N 214 U HOP3 H N N 215 U HOP2 H N N 216 U "H5'" H N N 217 U "H5''" H N N 218 U "H4'" H N N 219 U "H3'" H N N 220 U "HO3'" H N N 221 U "H2'" H N N 222 U "HO2'" H N N 223 U "H1'" H N N 224 U H3 H N N 225 U H5 H N N 226 U H6 H N N 227 # 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 6MZ C4 C5 sing Y N 1 6MZ C4 N9 sing Y N 2 6MZ C2 N3 sing Y N 3 6MZ C4 N3 doub Y N 4 6MZ C2 N1 doub Y N 5 6MZ C5 C6 doub Y N 6 6MZ N1 C6 sing Y N 7 6MZ C6 N6 sing N N 8 6MZ N6 C9 sing N N 9 6MZ C5 N7 sing Y N 10 6MZ N9 C8 sing Y N 11 6MZ N7 C8 doub Y N 12 6MZ "O5'" "C5'" sing N N 13 6MZ "C1'" "H1'" sing N N 14 6MZ C9 H9C1 sing N N 15 6MZ C9 H9C2 sing N N 16 6MZ "C5'" "H5'1" sing N N 17 6MZ "C5'" "H5'2" sing N N 18 6MZ "C4'" "H4'" sing N N 19 6MZ "C3'" "H3'" sing N N 20 6MZ "C2'" "H2'" sing N N 21 6MZ "O2'" HA sing N N 22 6MZ "O3'" HB sing N N 23 6MZ O3P H3P sing N N 24 6MZ "C5'" "C4'" sing N N 25 6MZ "C4'" "O4'" sing N N 26 6MZ N9 "C1'" sing N N 27 6MZ "O4'" "C1'" sing N N 28 6MZ "C1'" "C2'" sing N N 29 6MZ "C2'" "O2'" sing N N 30 6MZ "C4'" "C3'" sing N N 31 6MZ "C2'" "C3'" sing N N 32 6MZ "C3'" "O3'" sing N N 33 6MZ O1P P sing N N 34 6MZ O2P P doub N N 35 6MZ "O5'" P sing N N 36 6MZ P O3P sing N N 37 6MZ C2 H2 sing N N 38 6MZ O1P H1P sing N N 39 6MZ C8 H8 sing N N 40 6MZ N6 H6 sing N N 41 6MZ C9 H9 sing N N 42 A OP3 P sing N N 43 A OP3 HOP3 sing N N 44 A P OP1 doub N N 45 A P OP2 sing N N 46 A P "O5'" sing N N 47 A OP2 HOP2 sing N N 48 A "O5'" "C5'" sing N N 49 A "C5'" "C4'" sing N N 50 A "C5'" "H5'" sing N N 51 A "C5'" "H5''" sing N N 52 A "C4'" "O4'" sing N N 53 A "C4'" "C3'" sing N N 54 A "C4'" "H4'" sing N N 55 A "O4'" "C1'" sing N N 56 A "C3'" "O3'" sing N N 57 A "C3'" "C2'" sing N N 58 A "C3'" "H3'" sing N N 59 A "O3'" "HO3'" sing N N 60 A "C2'" "O2'" sing N N 61 A "C2'" "C1'" sing N N 62 A "C2'" "H2'" sing N N 63 A "O2'" "HO2'" sing N N 64 A "C1'" N9 sing N N 65 A "C1'" "H1'" sing N N 66 A N9 C8 sing Y N 67 A N9 C4 sing Y N 68 A C8 N7 doub Y N 69 A C8 H8 sing N N 70 A N7 C5 sing Y N 71 A C5 C6 sing Y N 72 A C5 C4 doub Y N 73 A C6 N6 sing N N 74 A C6 N1 doub Y N 75 A N6 H61 sing N N 76 A N6 H62 sing N N 77 A N1 C2 sing Y N 78 A C2 N3 doub Y N 79 A C2 H2 sing N N 80 A N3 C4 sing Y N 81 C OP3 P sing N N 82 C OP3 HOP3 sing N N 83 C P OP1 doub N N 84 C P OP2 sing N N 85 C P "O5'" sing N N 86 C OP2 HOP2 sing N N 87 C "O5'" "C5'" sing N N 88 C "C5'" "C4'" sing N N 89 C "C5'" "H5'" sing N N 90 C "C5'" "H5''" sing N N 91 C "C4'" "O4'" sing N N 92 C "C4'" "C3'" sing N N 93 C "C4'" "H4'" sing N N 94 C "O4'" "C1'" sing N N 95 C "C3'" "O3'" sing N N 96 C "C3'" "C2'" sing N N 97 C "C3'" "H3'" sing N N 98 C "O3'" "HO3'" sing N N 99 C "C2'" "O2'" sing N N 100 C "C2'" "C1'" sing N N 101 C "C2'" "H2'" sing N N 102 C "O2'" "HO2'" sing N N 103 C "C1'" N1 sing N N 104 C "C1'" "H1'" sing N N 105 C N1 C2 sing N N 106 C N1 C6 sing N N 107 C C2 O2 doub N N 108 C C2 N3 sing N N 109 C N3 C4 doub N N 110 C C4 N4 sing N N 111 C C4 C5 sing N N 112 C N4 H41 sing N N 113 C N4 H42 sing N N 114 C C5 C6 doub N N 115 C C5 H5 sing N N 116 C C6 H6 sing N N 117 CBV O3P P sing N N 118 CBV O3P HO3P sing N N 119 CBV P O1P sing N N 120 CBV P O2P doub N N 121 CBV P "O5'" sing N N 122 CBV O1P HO1P sing N N 123 CBV "O5'" "C5'" sing N N 124 CBV "C5'" "C4'" sing N N 125 CBV "C5'" "H5'1" sing N N 126 CBV "C5'" "H5'2" sing N N 127 CBV "C4'" "O4'" sing N N 128 CBV "C4'" "C3'" sing N N 129 CBV "C4'" "H4'" sing N N 130 CBV "O4'" "C1'" sing N N 131 CBV "C3'" "O3'" sing N N 132 CBV "C3'" "C2'" sing N N 133 CBV "C3'" "H3'" sing N N 134 CBV "O3'" "HO3'" sing N N 135 CBV "C2'" "O2'" sing N N 136 CBV "C2'" "C1'" sing N N 137 CBV "C2'" "H2'" sing N N 138 CBV "O2'" "HO2'" sing N N 139 CBV "C1'" N1 sing N N 140 CBV "C1'" "H1'" sing N N 141 CBV N1 C2 sing N N 142 CBV N1 C6 sing N N 143 CBV C2 O2 doub N N 144 CBV C2 N3 sing N N 145 CBV N3 C4 doub N N 146 CBV C4 N4 sing N N 147 CBV C4 C5 sing N N 148 CBV N4 HN41 sing N N 149 CBV N4 HN42 sing N N 150 CBV C5 C6 doub N N 151 CBV C5 BR sing N N 152 CBV C6 H6 sing N N 153 G OP3 P sing N N 154 G OP3 HOP3 sing N N 155 G P OP1 doub N N 156 G P OP2 sing N N 157 G P "O5'" sing N N 158 G OP2 HOP2 sing N N 159 G "O5'" "C5'" sing N N 160 G "C5'" "C4'" sing N N 161 G "C5'" "H5'" sing N N 162 G "C5'" "H5''" sing N N 163 G "C4'" "O4'" sing N N 164 G "C4'" "C3'" sing N N 165 G "C4'" "H4'" sing N N 166 G "O4'" "C1'" sing N N 167 G "C3'" "O3'" sing N N 168 G "C3'" "C2'" sing N N 169 G "C3'" "H3'" sing N N 170 G "O3'" "HO3'" sing N N 171 G "C2'" "O2'" sing N N 172 G "C2'" "C1'" sing N N 173 G "C2'" "H2'" sing N N 174 G "O2'" "HO2'" sing N N 175 G "C1'" N9 sing N N 176 G "C1'" "H1'" sing N N 177 G N9 C8 sing Y N 178 G N9 C4 sing Y N 179 G C8 N7 doub Y N 180 G C8 H8 sing N N 181 G N7 C5 sing Y N 182 G C5 C6 sing N N 183 G C5 C4 doub Y N 184 G C6 O6 doub N N 185 G C6 N1 sing N N 186 G N1 C2 sing N N 187 G N1 H1 sing N N 188 G C2 N2 sing N N 189 G C2 N3 doub N N 190 G N2 H21 sing N N 191 G N2 H22 sing N N 192 G N3 C4 sing N N 193 HOH O H1 sing N N 194 HOH O H2 sing N N 195 SO4 S O1 doub N N 196 SO4 S O2 doub N N 197 SO4 S O3 sing N N 198 SO4 S O4 sing N N 199 U OP3 P sing N N 200 U OP3 HOP3 sing N N 201 U P OP1 doub N N 202 U P OP2 sing N N 203 U P "O5'" sing N N 204 U OP2 HOP2 sing N N 205 U "O5'" "C5'" sing N N 206 U "C5'" "C4'" sing N N 207 U "C5'" "H5'" sing N N 208 U "C5'" "H5''" sing N N 209 U "C4'" "O4'" sing N N 210 U "C4'" "C3'" sing N N 211 U "C4'" "H4'" sing N N 212 U "O4'" "C1'" sing N N 213 U "C3'" "O3'" sing N N 214 U "C3'" "C2'" sing N N 215 U "C3'" "H3'" sing N N 216 U "O3'" "HO3'" sing N N 217 U "C2'" "O2'" sing N N 218 U "C2'" "C1'" sing N N 219 U "C2'" "H2'" sing N N 220 U "O2'" "HO2'" sing N N 221 U "C1'" N1 sing N N 222 U "C1'" "H1'" sing N N 223 U N1 C2 sing N N 224 U N1 C6 sing N N 225 U C2 O2 doub N N 226 U C2 N3 sing N N 227 U N3 C4 sing N N 228 U N3 H3 sing N N 229 U C4 O4 doub N N 230 U C4 C5 sing N N 231 U C5 C6 doub N N 232 U C5 H5 sing N N 233 U C6 H6 sing N N 234 # _ndb_struct_conf_na.entry_id 5LR5 _ndb_struct_conf_na.feature 'a-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A G 1 1_555 B C 10 1_555 -0.190 -0.138 -0.374 -4.839 -1.094 -0.039 1 A_G1:C10_B A 1 ? B 10 ? 19 1 1 A G 2 1_555 B CBV 9 1_555 -0.309 -0.153 -0.124 -7.085 -7.230 3.774 2 A_G2:CBV9_B A 2 ? B 9 ? 19 1 1 A 6MZ 3 1_555 B U 8 1_555 -0.151 0.060 -0.014 1.082 -8.367 9.960 3 A_6MZ3:U8_B A 3 ? B 8 ? 20 1 1 A C 4 1_555 B G 7 1_555 0.208 -0.097 0.135 1.612 -2.579 4.106 4 A_C4:G7_B A 4 ? B 7 ? 19 1 1 A U 5 1_555 B A 6 1_555 -0.088 -0.134 0.087 2.177 -1.821 4.967 5 A_U5:A6_B A 5 ? B 6 ? 20 1 1 A A 6 1_555 B U 5 1_555 0.804 0.099 0.105 -1.862 -2.835 9.774 6 A_A6:U5_B A 6 ? B 5 ? 20 1 1 A G 7 1_555 B C 4 1_555 -0.652 -0.092 -0.415 -7.848 -11.470 8.765 7 A_G7:C4_B A 7 ? B 4 ? 19 1 1 A U 8 1_555 B 6MZ 3 1_555 -0.316 -0.089 -0.072 1.186 -9.402 8.283 8 A_U8:6MZ3_B A 8 ? B 3 ? 20 1 1 A CBV 9 1_555 B G 2 1_555 0.429 -0.308 0.088 1.149 -9.317 1.081 9 A_CBV9:G2_B A 9 ? B 2 ? 19 1 1 A C 10 1_555 B G 1 1_555 0.214 -0.163 0.216 4.179 -1.939 1.480 10 A_C10:G1_B A 10 ? B 1 ? 19 1 1 C G 1 1_555 D C 10 1_555 -0.206 -0.120 -0.184 -4.093 -1.896 1.446 11 C_G1:C10_D C 1 ? D 10 ? 19 1 1 C G 2 1_555 D CBV 9 1_555 -0.380 -0.337 -0.522 -12.416 -11.337 -1.654 12 C_G2:CBV9_D C 2 ? D 9 ? 19 1 1 C 6MZ 3 1_555 D U 8 1_555 0.205 -0.309 0.419 -3.382 -5.862 13.344 13 C_6MZ3:U8_D C 3 ? D 8 ? 20 1 1 C C 4 1_555 D G 7 1_555 0.243 0.009 0.136 -0.565 -3.103 4.698 14 C_C4:G7_D C 4 ? D 7 ? 19 1 1 C U 5 1_555 D A 6 1_555 -0.044 -0.071 0.100 2.478 -0.994 2.788 15 C_U5:A6_D C 5 ? D 6 ? 20 1 1 C A 6 1_555 D U 5 1_555 0.059 -0.093 -0.029 -0.799 -4.097 2.589 16 C_A6:U5_D C 6 ? D 5 ? 20 1 1 C G 7 1_555 D C 4 1_555 -0.200 -0.107 -0.024 -1.026 -4.874 1.711 17 C_G7:C4_D C 7 ? D 4 ? 19 1 1 C U 8 1_555 D 6MZ 3 1_555 -0.575 0.090 0.167 1.599 -5.452 13.799 18 C_U8:6MZ3_D C 8 ? D 3 ? 20 1 1 C CBV 9 1_555 D G 2 1_555 0.112 -0.112 -0.073 5.480 -3.687 1.147 19 C_CBV9:G2_D C 9 ? D 2 ? 19 1 1 C C 10 1_555 D G 1 1_555 0.228 -0.127 -0.144 5.333 -2.458 2.304 20 C_C10:G1_D C 10 ? D 1 ? 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 1 1_555 B C 10 1_555 A G 2 1_555 B CBV 9 1_555 0.028 -1.638 3.366 -2.712 2.993 30.776 -3.640 -0.577 3.182 5.609 5.083 31.034 1 AA_G1G2:CBV9C10_BB A 1 ? B 10 ? A 2 ? B 9 ? 1 A G 2 1_555 B CBV 9 1_555 A 6MZ 3 1_555 B U 8 1_555 -0.064 -1.474 3.149 -0.417 1.893 34.590 -2.752 0.047 3.067 3.180 0.701 34.642 2 AA_G26MZ3:U8CBV9_BB A 2 ? B 9 ? A 3 ? B 8 ? 1 A 6MZ 3 1_555 B U 8 1_555 A C 4 1_555 B G 7 1_555 -0.118 -1.531 3.202 -3.504 7.373 30.149 -4.144 -0.398 2.755 13.859 6.585 31.210 3 AA_6MZ3C4:G7U8_BB A 3 ? B 8 ? A 4 ? B 7 ? 1 A C 4 1_555 B G 7 1_555 A U 5 1_555 B A 6 1_555 -0.446 -1.974 3.110 -0.347 5.917 29.265 -4.932 0.801 2.673 11.563 0.678 29.846 4 AA_C4U5:A6G7_BB A 4 ? B 7 ? A 5 ? B 6 ? 1 A U 5 1_555 B A 6 1_555 A A 6 1_555 B U 5 1_555 0.169 -1.451 2.978 2.336 17.768 37.341 -3.629 -0.033 2.111 25.999 -3.418 41.280 5 AA_U5A6:U5A6_BB A 5 ? B 6 ? A 6 ? B 5 ? 1 A A 6 1_555 B U 5 1_555 A G 7 1_555 B C 4 1_555 0.393 -1.866 3.335 5.323 7.473 21.916 -6.864 0.702 2.589 18.641 -13.276 23.737 6 AA_A6G7:C4U5_BB A 6 ? B 5 ? A 7 ? B 4 ? 1 A G 7 1_555 B C 4 1_555 A U 8 1_555 B 6MZ 3 1_555 -0.334 -1.467 3.189 -4.922 -0.019 29.837 -2.809 -0.341 3.202 -0.037 9.479 30.231 7 AA_G7U8:6MZ3C4_BB A 7 ? B 4 ? A 8 ? B 3 ? 1 A U 8 1_555 B 6MZ 3 1_555 A CBV 9 1_555 B G 2 1_555 -0.375 -1.345 3.344 -1.062 1.040 37.861 -2.207 0.439 3.316 1.602 1.636 37.889 8 AA_U8CBV9:G26MZ3_BB A 8 ? B 3 ? A 9 ? B 2 ? 1 A CBV 9 1_555 B G 2 1_555 A C 10 1_555 B G 1 1_555 0.127 -1.895 3.147 -0.770 2.128 28.545 -4.284 -0.420 2.996 4.308 1.559 28.633 9 AA_CBV9C10:G1G2_BB A 9 ? B 2 ? A 10 ? B 1 ? 1 C G 1 1_555 D C 10 1_555 C G 2 1_555 D CBV 9 1_555 -0.635 -1.762 3.372 -1.106 12.859 29.784 -5.262 0.957 2.444 23.667 2.036 32.402 10 CC_G1G2:CBV9C10_DD C 1 ? D 10 ? C 2 ? D 9 ? 1 C G 2 1_555 D CBV 9 1_555 C 6MZ 3 1_555 D U 8 1_555 0.675 -1.422 2.953 -5.835 5.115 37.568 -2.716 -1.656 2.614 7.840 8.943 38.333 11 CC_G26MZ3:U8CBV9_DD C 2 ? D 9 ? C 3 ? D 8 ? 1 C 6MZ 3 1_555 D U 8 1_555 C C 4 1_555 D G 7 1_555 0.004 -1.927 3.236 3.343 3.713 27.782 -4.775 0.733 2.938 7.655 -6.892 28.219 12 CC_6MZ3C4:G7U8_DD C 3 ? D 8 ? C 4 ? D 7 ? 1 C C 4 1_555 D G 7 1_555 C U 5 1_555 D A 6 1_555 -0.259 -1.978 3.111 1.236 4.572 26.725 -5.253 0.832 2.727 9.793 -2.647 27.134 13 CC_C4U5:A6G7_DD C 4 ? D 7 ? C 5 ? D 6 ? 1 C U 5 1_555 D A 6 1_555 C A 6 1_555 D U 5 1_555 -0.023 -1.543 3.081 0.186 14.154 33.359 -4.186 0.060 2.263 23.390 -0.308 36.159 14 CC_U5A6:U5A6_DD C 5 ? D 6 ? C 6 ? D 5 ? 1 C A 6 1_555 D U 5 1_555 C G 7 1_555 D C 4 1_555 0.059 -1.846 3.301 -1.554 2.296 28.593 -4.231 -0.463 3.138 4.635 3.137 28.725 15 CC_A6G7:C4U5_DD C 6 ? D 5 ? C 7 ? D 4 ? 1 C G 7 1_555 D C 4 1_555 C U 8 1_555 D 6MZ 3 1_555 0.472 -1.849 3.144 -2.219 3.023 26.410 -4.738 -1.558 2.870 6.573 4.826 26.670 16 CC_G7U8:6MZ3C4_DD C 7 ? D 4 ? C 8 ? D 3 ? 1 C U 8 1_555 D 6MZ 3 1_555 C CBV 9 1_555 D G 2 1_555 -0.833 -1.544 3.135 -0.358 5.043 38.067 -2.934 1.225 2.922 7.691 0.546 38.389 17 CC_U8CBV9:G26MZ3_DD C 8 ? D 3 ? C 9 ? D 2 ? 1 C CBV 9 1_555 D G 2 1_555 C C 10 1_555 D G 1 1_555 0.611 -1.728 3.163 1.545 7.496 30.878 -4.404 -0.859 2.706 13.814 -2.847 31.790 18 CC_CBV9C10:G1G2_DD C 9 ? D 2 ? C 10 ? D 1 ? # _atom_sites.entry_id 5LR5 _atom_sites.fract_transf_matrix[1][1] 0.019814 _atom_sites.fract_transf_matrix[1][2] 0.011439 _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] 0.022879 _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] 0.009206 _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 BR C N O P S # loop_