data_5DHB # _entry.id 5DHB # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 5DHB pdb_00005dhb 10.2210/pdb5dhb/pdb WWPDB D_1000213004 ? ? # 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 2016-12-07 2 'Structure model' 1 1 2017-01-18 3 'Structure model' 1 2 2024-03-06 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' # 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 3 'Structure model' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 '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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 '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 5DHB _pdbx_database_status.recvd_initial_deposition_date 2015-08-30 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _pdbx_database_related.content_type _pdbx_database_related.db_id _pdbx_database_related.db_name _pdbx_database_related.details unspecified 5DHC PDB . unspecified 5HBW PDB . unspecified 5HBX PDB . unspecified 5HBY PDB . unspecified 5KRG PDB . unspecified 5L00 PDB . # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Zhang, W.' 1 'Fahrenbach, A.C.' 2 'Tam, C.P.' 3 'Szostak, J.W.' 4 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'ACS Cent Sci' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2374-7943 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 2 _citation.language ? _citation.page_first 916 _citation.page_last 926 _citation.title 'Unusual Base-Pairing Interactions in Monomer-Template Complexes.' _citation.year 2016 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/acscentsci.6b00278 _citation.pdbx_database_id_PubMed 28058281 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Zhang, W.' 1 ? primary 'Tam, C.P.' 2 ? primary 'Wang, J.' 3 ? primary 'Szostak, J.W.' 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(*(LCC)P*(TLN)P*(LCG)P*UP*AP*CP*A)-3') ; 2245.440 4 ? ? ? ? 2 non-polymer syn "GUANOSINE-5'-MONOPHOSPHATE" 363.221 4 ? ? ? ? 3 water nat water 18.015 81 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(LCC)(TLN)(LCG)UACA' _entity_poly.pdbx_seq_one_letter_code_can NUGUACA _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 "GUANOSINE-5'-MONOPHOSPHATE" 5GP 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 LCC n 1 2 TLN n 1 3 LCG n 1 4 U n 1 5 A n 1 6 C n 1 7 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 7 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # 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 5GP non-polymer . "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 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 HOH non-polymer . WATER ? 'H2 O' 18.015 LCC 'RNA linking' . '[(1R,3R,4R,7S)-7-HYDROXY-3-(5-METHYLCYTOSIN-1-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE' ? 'C11 H16 N3 O8 P' 349.234 LCG 'RNA linking' n '[(1R,3R,4R,7S)-7-HYDROXY-3-(GUANIN-9-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE' ? 'C11 H14 N5 O8 P' 375.231 TLN 'RNA linking' n '[(1R,3R,4R,7S)-7-HYDROXY-3-(THYMIN-1-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE' ? 'C11 H15 N2 O9 P' 350.219 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 LCC 1 1 1 LCC LCC A . n A 1 2 TLN 2 2 2 TLN TLN A . n A 1 3 LCG 3 3 3 LCG LCG A . n A 1 4 U 4 4 4 U U A . n A 1 5 A 5 5 5 A A A . n A 1 6 C 6 6 6 C C A . n A 1 7 A 7 7 7 A A A . n B 1 1 LCC 1 1 1 LCC LCC B . n B 1 2 TLN 2 2 2 TLN TLN B . n B 1 3 LCG 3 3 3 LCG LCG B . n B 1 4 U 4 4 4 U U B . n B 1 5 A 5 5 5 A A B . n B 1 6 C 6 6 6 C C B . n B 1 7 A 7 7 7 A A B . n C 1 1 LCC 1 1 1 LCC LCC C . n C 1 2 TLN 2 2 2 TLN TLN C . n C 1 3 LCG 3 3 3 LCG LCG C . n C 1 4 U 4 4 4 U U C . n C 1 5 A 5 5 5 A A C . n C 1 6 C 6 6 6 C C C . n C 1 7 A 7 7 7 A A C . n D 1 1 LCC 1 1 1 LCC LCC D . n D 1 2 TLN 2 2 2 TLN TLN D . n D 1 3 LCG 3 3 3 LCG LCG D . n D 1 4 U 4 4 4 U U D . n D 1 5 A 5 5 5 A A D . n D 1 6 C 6 6 6 C C D . n D 1 7 A 7 7 7 A A 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 5GP 1 101 101 5GP 5GP A . F 2 5GP 1 101 101 5GP 5GP B . G 2 5GP 1 101 101 5GP 5GP C . H 2 5GP 1 101 101 5GP 5GP D . I 3 HOH 1 201 201 HOH HOH A . I 3 HOH 2 202 202 HOH HOH A . I 3 HOH 3 203 203 HOH HOH A . I 3 HOH 4 204 204 HOH HOH A . I 3 HOH 5 205 205 HOH HOH A . I 3 HOH 6 206 206 HOH HOH A . I 3 HOH 7 207 207 HOH HOH A . I 3 HOH 8 208 208 HOH HOH A . I 3 HOH 9 209 209 HOH HOH A . I 3 HOH 10 210 210 HOH HOH A . I 3 HOH 11 211 211 HOH HOH A . I 3 HOH 12 212 212 HOH HOH A . I 3 HOH 13 213 213 HOH HOH A . I 3 HOH 14 214 214 HOH HOH A . I 3 HOH 15 215 215 HOH HOH A . I 3 HOH 16 216 216 HOH HOH A . I 3 HOH 17 217 217 HOH HOH A . I 3 HOH 18 218 218 HOH HOH A . I 3 HOH 19 219 219 HOH HOH A . I 3 HOH 20 220 220 HOH HOH A . I 3 HOH 21 221 221 HOH HOH A . I 3 HOH 22 222 222 HOH HOH A . I 3 HOH 23 223 223 HOH HOH A . J 3 HOH 1 201 201 HOH HOH B . J 3 HOH 2 202 202 HOH HOH B . J 3 HOH 3 203 203 HOH HOH B . J 3 HOH 4 204 204 HOH HOH B . J 3 HOH 5 205 205 HOH HOH B . J 3 HOH 6 206 206 HOH HOH B . J 3 HOH 7 207 207 HOH HOH B . J 3 HOH 8 208 208 HOH HOH B . J 3 HOH 9 209 209 HOH HOH B . J 3 HOH 10 210 210 HOH HOH B . J 3 HOH 11 211 211 HOH HOH B . J 3 HOH 12 212 212 HOH HOH B . J 3 HOH 13 213 213 HOH HOH B . J 3 HOH 14 214 214 HOH HOH B . J 3 HOH 15 215 215 HOH HOH B . J 3 HOH 16 216 216 HOH HOH B . J 3 HOH 17 217 217 HOH HOH B . J 3 HOH 18 218 218 HOH HOH B . K 3 HOH 1 201 201 HOH HOH C . K 3 HOH 2 202 202 HOH HOH C . K 3 HOH 3 203 203 HOH HOH C . K 3 HOH 4 204 204 HOH HOH C . K 3 HOH 5 205 205 HOH HOH C . K 3 HOH 6 206 206 HOH HOH C . K 3 HOH 7 207 207 HOH HOH C . K 3 HOH 8 208 208 HOH HOH C . K 3 HOH 9 209 209 HOH HOH C . K 3 HOH 10 210 210 HOH HOH C . K 3 HOH 11 211 211 HOH HOH C . K 3 HOH 12 212 212 HOH HOH C . K 3 HOH 13 213 213 HOH HOH C . K 3 HOH 14 214 214 HOH HOH C . K 3 HOH 15 215 215 HOH HOH C . K 3 HOH 16 216 216 HOH HOH C . K 3 HOH 17 217 217 HOH HOH C . K 3 HOH 18 218 218 HOH HOH C . L 3 HOH 1 201 201 HOH HOH D . L 3 HOH 2 202 202 HOH HOH D . L 3 HOH 3 203 203 HOH HOH D . L 3 HOH 4 204 204 HOH HOH D . L 3 HOH 5 205 205 HOH HOH D . L 3 HOH 6 206 206 HOH HOH D . L 3 HOH 7 207 207 HOH HOH D . L 3 HOH 8 208 208 HOH HOH D . L 3 HOH 9 209 209 HOH HOH D . L 3 HOH 10 210 210 HOH HOH D . L 3 HOH 11 211 211 HOH HOH D . L 3 HOH 12 212 212 HOH HOH D . L 3 HOH 13 213 213 HOH HOH D . L 3 HOH 14 214 214 HOH HOH D . L 3 HOH 15 215 215 HOH HOH D . L 3 HOH 16 216 216 HOH HOH D . L 3 HOH 17 217 217 HOH HOH D . L 3 HOH 18 218 218 HOH HOH D . L 3 HOH 19 219 219 HOH HOH D . L 3 HOH 20 220 220 HOH HOH D . L 3 HOH 21 221 221 HOH HOH D . L 3 HOH 22 222 222 HOH HOH D . # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0069 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _cell.entry_id 5DHB _cell.length_a 51.248 _cell.length_b 51.248 _cell.length_c 38.764 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DHB _symmetry.space_group_name_H-M 'P 3' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 143 # _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 5DHB _exptl.crystals_number ? _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 3.27 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 56.63 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details 'Magnesium chloride hexahydrate, 30% v/v Polyethylene glycol monomethyl ether 550' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 99 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? # _diffrn_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'MAR CCD 130 mm' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2014-10-18 # _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 0.9795 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'ALS BEAMLINE 8.2.1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.9795 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 8.2.1 _diffrn_source.pdbx_synchrotron_site ALS # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 5DHB _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 44.380 _reflns.d_resolution_high 1.800 _reflns.number_obs 10344 _reflns.number_all ? _reflns.percent_possible_obs 98.3 _reflns.pdbx_Rmerge_I_obs 0.079 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 29.9500 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 10.70 # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 1.80 _reflns_shell.d_res_low 1.86 _reflns_shell.percent_possible_all 94.3 _reflns_shell.Rmerge_I_obs 0.587 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.13 _reflns_shell.pdbx_redundancy 6.4 _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_all ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 5DHB _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 9719 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 44.38 _refine.ls_d_res_high 1.80 _refine.ls_percent_reflns_obs 98.1 _refine.ls_R_factor_obs 0.188 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.187 _refine.ls_R_factor_R_free 0.192 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 6.000 _refine.ls_number_reflns_R_free 621 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.970 _refine.correlation_coeff_Fo_to_Fc_free 0.974 _refine.B_iso_mean 31.38 _refine.aniso_B[1][1] 0.00000 _refine.aniso_B[2][2] 0.00000 _refine.aniso_B[3][3] 0.01000 _refine.aniso_B[1][2] 0.00000 _refine.aniso_B[1][3] 0.00000 _refine.aniso_B[2][3] 0.00000 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ;HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS ; _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.118 _refine.pdbx_overall_ESU_R_Free 0.100 _refine.overall_SU_ML 0.084 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 2.940 _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _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 596 _refine_hist.pdbx_number_atoms_ligand 96 _refine_hist.number_atoms_solvent 81 _refine_hist.number_atoms_total 773 _refine_hist.d_res_high 1.80 _refine_hist.d_res_low 44.38 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.025 0.018 ? 764 'X-RAY DIFFRACTION' ? r_bond_other_d 0.038 0.023 ? 344 'X-RAY DIFFRACTION' ? r_angle_refined_deg 3.362 2.210 ? 1176 'X-RAY DIFFRACTION' ? r_angle_other_deg 4.143 3.259 ? 828 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_chiral_restr 0.157 0.200 ? 136 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.019 0.021 ? 384 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.002 0.022 ? 136 'X-RAY DIFFRACTION' ? r_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it 2.894 3.344 ? 764 'X-RAY DIFFRACTION' ? r_scbond_other 2.893 3.344 ? 765 'X-RAY DIFFRACTION' ? r_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_scangle_other 3.954 5.013 ? 1177 'X-RAY DIFFRACTION' ? r_long_range_B_refined 4.584 33.061 ? 1238 'X-RAY DIFFRACTION' ? r_long_range_B_other 4.498 33.055 ? 1226 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.80 _refine_ls_shell.d_res_low 1.85 _refine_ls_shell.number_reflns_R_work 656 _refine_ls_shell.R_factor_R_work 0.3240 _refine_ls_shell.percent_reflns_obs 89.63 _refine_ls_shell.R_factor_R_free 0.3410 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 53 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_obs ? _refine_ls_shell.number_reflns_obs ? # _struct.entry_id 5DHB _struct.title 'Cooperativity and Downstream Binding in RNA Replication' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag ? # _struct_keywords.entry_id 5DHB _struct_keywords.text 'RNA, cooperativity, monomer' _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 2 ? G N N 2 ? H N N 2 ? I N N 3 ? J N N 3 ? K N N 3 ? L N N 3 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 5DHB _struct_ref.pdbx_db_accession 5DHB _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 5DHB A 1 ? 7 ? 5DHB 1 ? 7 ? 1 7 2 1 5DHB B 1 ? 7 ? 5DHB 1 ? 7 ? 1 7 3 1 5DHB C 1 ? 7 ? 5DHB 1 ? 7 ? 1 7 4 1 5DHB D 1 ? 7 ? 5DHB 1 ? 7 ? 1 7 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 # 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)' 6690 ? 1 MORE 48 ? 1 'SSA (A^2)' 5060 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L # _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 LCC 1 "O3'" ? ? ? 1_555 A TLN 2 P ? ? A LCC 1 A TLN 2 1_555 ? ? ? ? ? ? ? 1.672 ? ? covale2 covale both ? A TLN 2 "O3'" ? ? ? 1_555 A LCG 3 P ? ? A TLN 2 A LCG 3 1_555 ? ? ? ? ? ? ? 1.687 ? ? covale3 covale both ? A LCG 3 "O3'" ? ? ? 1_555 A U 4 P ? ? A LCG 3 A U 4 1_555 ? ? ? ? ? ? ? 1.650 ? ? covale4 covale both ? B LCC 1 "O3'" ? ? ? 1_555 B TLN 2 P ? ? B LCC 1 B TLN 2 1_555 ? ? ? ? ? ? ? 1.690 ? ? covale5 covale both ? B TLN 2 "O3'" ? ? ? 1_555 B LCG 3 P ? ? B TLN 2 B LCG 3 1_555 ? ? ? ? ? ? ? 1.710 ? ? covale6 covale both ? B LCG 3 "O3'" ? ? ? 1_555 B U 4 P ? ? B LCG 3 B U 4 1_555 ? ? ? ? ? ? ? 1.687 ? ? covale7 covale both ? C LCC 1 "O3'" ? ? ? 1_555 C TLN 2 P ? ? C LCC 1 C TLN 2 1_555 ? ? ? ? ? ? ? 1.673 ? ? covale8 covale both ? C TLN 2 "O3'" ? ? ? 1_555 C LCG 3 P ? ? C TLN 2 C LCG 3 1_555 ? ? ? ? ? ? ? 1.687 ? ? covale9 covale both ? C LCG 3 "O3'" ? ? ? 1_555 C U 4 P ? ? C LCG 3 C U 4 1_555 ? ? ? ? ? ? ? 1.686 ? ? covale10 covale both ? D LCC 1 "O3'" ? ? ? 1_555 D TLN 2 P ? ? D LCC 1 D TLN 2 1_555 ? ? ? ? ? ? ? 1.678 ? ? covale11 covale both ? D TLN 2 "O3'" ? ? ? 1_555 D LCG 3 P ? ? D TLN 2 D LCG 3 1_555 ? ? ? ? ? ? ? 1.707 ? ? covale12 covale both ? D LCG 3 "O3'" ? ? ? 1_555 D U 4 P ? ? D LCG 3 D U 4 1_555 ? ? ? ? ? ? ? 1.635 ? ? hydrog1 hydrog ? ? A TLN 2 N3 ? ? ? 1_555 B A 7 N1 ? ? A TLN 2 B A 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A TLN 2 O4 ? ? ? 1_555 B A 7 N6 ? ? A TLN 2 B A 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A LCG 3 N1 ? ? ? 1_555 B C 6 N3 ? ? A LCG 3 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A LCG 3 N2 ? ? ? 1_555 B C 6 O2 ? ? A LCG 3 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A LCG 3 O6 ? ? ? 1_555 B C 6 N4 ? ? A LCG 3 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A U 4 N3 ? ? ? 1_555 B A 5 N1 ? ? A U 4 B A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A U 4 O4 ? ? ? 1_555 B A 5 N6 ? ? A U 4 B A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 5 N1 ? ? ? 1_555 B U 4 N3 ? ? A A 5 B U 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A A 5 N6 ? ? ? 1_555 B U 4 O4 ? ? A A 5 B U 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 6 N3 ? ? ? 1_555 B LCG 3 N1 ? ? A C 6 B LCG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 6 N4 ? ? ? 1_555 B LCG 3 O6 ? ? A C 6 B LCG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 6 O2 ? ? ? 1_555 B LCG 3 N2 ? ? A C 6 B LCG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 7 N1 ? ? ? 1_555 B TLN 2 N3 ? ? A A 7 B TLN 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A 7 N6 ? ? ? 1_555 B TLN 2 O4 ? ? A A 7 B TLN 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? C TLN 2 N3 ? ? ? 1_555 D A 7 N1 ? ? C TLN 2 D A 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? C TLN 2 O4 ? ? ? 1_555 D A 7 N6 ? ? C TLN 2 D A 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? C LCG 3 N1 ? ? ? 1_555 D C 6 N3 ? ? C LCG 3 D C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? C LCG 3 N2 ? ? ? 1_555 D C 6 O2 ? ? C LCG 3 D C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? C LCG 3 O6 ? ? ? 1_555 D C 6 N4 ? ? C LCG 3 D C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? C U 4 N3 ? ? ? 1_555 D A 5 N1 ? ? C U 4 D A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? C U 4 O4 ? ? ? 1_555 D A 5 N6 ? ? C U 4 D A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? C A 5 N1 ? ? ? 1_555 D U 4 N3 ? ? C A 5 D U 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? C A 5 N6 ? ? ? 1_555 D U 4 O4 ? ? C A 5 D U 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? C C 6 N3 ? ? ? 1_555 D LCG 3 N1 ? ? C C 6 D LCG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? C C 6 N4 ? ? ? 1_555 D LCG 3 O6 ? ? C C 6 D LCG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? C C 6 O2 ? ? ? 1_555 D LCG 3 N2 ? ? C C 6 D LCG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C A 7 N1 ? ? ? 1_555 D TLN 2 N3 ? ? C A 7 D TLN 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C A 7 N6 ? ? ? 1_555 D TLN 2 O4 ? ? C A 7 D TLN 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A 5GP 101 ? 5 'binding site for residue 5GP A 101' AC2 Software B 5GP 101 ? 4 'binding site for residue 5GP B 101' AC3 Software C 5GP 101 ? 3 'binding site for residue 5GP C 101' AC4 Software D 5GP 101 ? 5 'binding site for residue 5GP D 101' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 5 A A 7 ? A A 7 . ? 1_555 ? 2 AC1 5 HOH I . ? HOH A 208 . ? 1_555 ? 3 AC1 5 HOH I . ? HOH A 215 . ? 1_555 ? 4 AC1 5 C C 6 ? C C 6 . ? 3_545 ? 5 AC1 5 A C 7 ? A C 7 . ? 3_545 ? 6 AC2 4 A B 7 ? A B 7 . ? 1_555 ? 7 AC2 4 A B 7 ? A B 7 . ? 3_555 ? 8 AC2 4 HOH J . ? HOH B 206 . ? 1_555 ? 9 AC2 4 HOH J . ? HOH B 208 . ? 1_555 ? 10 AC3 3 A C 7 ? A C 7 . ? 1_555 ? 11 AC3 3 A C 7 ? A C 7 . ? 3_545 ? 12 AC3 3 HOH K . ? HOH C 209 . ? 1_555 ? 13 AC4 5 C B 6 ? C B 6 . ? 3_554 ? 14 AC4 5 A B 7 ? A B 7 . ? 3_554 ? 15 AC4 5 A D 7 ? A D 7 . ? 1_555 ? 16 AC4 5 HOH L . ? HOH D 209 . ? 1_555 ? 17 AC4 5 HOH L . ? HOH D 213 . ? 1_555 ? # 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 TLN 2 ? ? P A LCG 3 ? ? 1.687 1.607 0.080 0.012 Y 2 1 "O3'" B LCC 1 ? ? P B TLN 2 ? ? 1.690 1.607 0.083 0.012 Y 3 1 "O3'" B TLN 2 ? ? P B LCG 3 ? ? 1.710 1.607 0.103 0.012 Y 4 1 "O3'" B LCG 3 ? ? P B U 4 ? ? 1.687 1.607 0.080 0.012 Y 5 1 "O3'" C TLN 2 ? ? P C LCG 3 ? ? 1.687 1.607 0.080 0.012 Y 6 1 "O3'" C LCG 3 ? ? P C U 4 ? ? 1.686 1.607 0.079 0.012 Y 7 1 "O3'" D TLN 2 ? ? P D LCG 3 ? ? 1.707 1.607 0.100 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 "O3'" A LCC 1 ? ? P A TLN 2 ? ? OP2 A TLN 2 ? ? 120.56 110.50 10.06 1.10 Y 2 1 "C3'" B TLN 2 ? ? "O3'" B TLN 2 ? ? P B LCG 3 ? ? 127.25 119.70 7.55 1.20 Y 3 1 "O3'" C LCC 1 ? ? P C TLN 2 ? ? OP1 C TLN 2 ? ? 90.16 105.20 -15.04 2.20 Y 4 1 "C3'" C TLN 2 ? ? "O3'" C TLN 2 ? ? P C LCG 3 ? ? 127.32 119.70 7.62 1.20 Y 5 1 "O3'" D LCC 1 ? ? P D TLN 2 ? ? OP2 D TLN 2 ? ? 125.26 110.50 14.76 1.10 Y 6 1 "C3'" D LCG 3 ? ? "O3'" D LCG 3 ? ? P D U 4 ? ? 111.46 119.70 -8.24 1.20 Y 7 1 "O3'" D LCG 3 ? ? P D U 4 ? ? OP2 D U 4 ? ? 122.02 110.50 11.52 1.10 Y 8 1 "O5'" D A 7 ? ? P D A 7 ? ? OP2 D A 7 ? ? 99.99 105.70 -5.71 0.90 N # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A HOH 223 ? I HOH . 2 1 D HOH 222 ? L HOH . # 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 5GP P P N N 1 5GP O1P O N N 2 5GP O2P O N N 3 5GP O3P O N N 4 5GP "O5'" O N N 5 5GP "C5'" C N N 6 5GP "C4'" C N R 7 5GP "O4'" O N N 8 5GP "C3'" C N S 9 5GP "O3'" O N N 10 5GP "C2'" C N R 11 5GP "O2'" O N N 12 5GP "C1'" C N R 13 5GP N9 N Y N 14 5GP C8 C Y N 15 5GP N7 N Y N 16 5GP C5 C Y N 17 5GP C6 C N N 18 5GP O6 O N N 19 5GP N1 N N N 20 5GP C2 C N N 21 5GP N2 N N N 22 5GP N3 N N N 23 5GP C4 C Y N 24 5GP HOP2 H N N 25 5GP HOP3 H N N 26 5GP "H5'1" H N N 27 5GP "H5'2" H N N 28 5GP "H4'" H N N 29 5GP "H3'" H N N 30 5GP "HO3'" H N N 31 5GP "H2'" H N N 32 5GP "HO2'" H N N 33 5GP "H1'" H N N 34 5GP H8 H N N 35 5GP HN1 H N N 36 5GP HN21 H N N 37 5GP HN22 H N N 38 A OP3 O N N 39 A P P N N 40 A OP1 O N N 41 A OP2 O N N 42 A "O5'" O N N 43 A "C5'" C N N 44 A "C4'" C N R 45 A "O4'" O N N 46 A "C3'" C N S 47 A "O3'" O N N 48 A "C2'" C N R 49 A "O2'" O N N 50 A "C1'" C N R 51 A N9 N Y N 52 A C8 C Y N 53 A N7 N Y N 54 A C5 C Y N 55 A C6 C Y N 56 A N6 N N N 57 A N1 N Y N 58 A C2 C Y N 59 A N3 N Y N 60 A C4 C Y N 61 A HOP3 H N N 62 A HOP2 H N N 63 A "H5'" H N N 64 A "H5''" H N N 65 A "H4'" H N N 66 A "H3'" H N N 67 A "HO3'" H N N 68 A "H2'" H N N 69 A "HO2'" H N N 70 A "H1'" H N N 71 A H8 H N N 72 A H61 H N N 73 A H62 H N N 74 A H2 H N N 75 C OP3 O N N 76 C P P N N 77 C OP1 O N N 78 C OP2 O N N 79 C "O5'" O N N 80 C "C5'" C N N 81 C "C4'" C N R 82 C "O4'" O N N 83 C "C3'" C N S 84 C "O3'" O N N 85 C "C2'" C N R 86 C "O2'" O N N 87 C "C1'" C N R 88 C N1 N N N 89 C C2 C N N 90 C O2 O N N 91 C N3 N N N 92 C C4 C N N 93 C N4 N N N 94 C C5 C N N 95 C C6 C N N 96 C HOP3 H N N 97 C HOP2 H N N 98 C "H5'" H N N 99 C "H5''" H N N 100 C "H4'" H N N 101 C "H3'" H N N 102 C "HO3'" H N N 103 C "H2'" H N N 104 C "HO2'" H N N 105 C "H1'" H N N 106 C H41 H N N 107 C H42 H N N 108 C H5 H N N 109 C H6 H N N 110 HOH O O N N 111 HOH H1 H N N 112 HOH H2 H N N 113 LCC "O5'" O N N 114 LCC "C5'" C N N 115 LCC "C4'" C N R 116 LCC "O4'" O N N 117 LCC "C1'" C N R 118 LCC N1 N N N 119 LCC C6 C N N 120 LCC C5 C N N 121 LCC C5M C N N 122 LCC C4 C N N 123 LCC N4 N N N 124 LCC N3 N N N 125 LCC C2 C N N 126 LCC O2 O N N 127 LCC "C3'" C N S 128 LCC "C2'" C N R 129 LCC "O2'" O N N 130 LCC "O3'" O N N 131 LCC "C6'" C N N 132 LCC P P N N 133 LCC O1P O N N 134 LCC O2P O N N 135 LCC OXT O N N 136 LCC "H5'1" H N N 137 LCC "H5'2" H N N 138 LCC "H1'" H N N 139 LCC H6 H N N 140 LCC H5M1 H N N 141 LCC H5M2 H N N 142 LCC H5M3 H N N 143 LCC H41 H N N 144 LCC H42 H N N 145 LCC "H3'" H N N 146 LCC "H2'1" H N N 147 LCC H3T H N N 148 LCC "H6'1" H N N 149 LCC "H6'2" H N N 150 LCC H1P H N N 151 LCC HXT H N N 152 LCG P P N N 153 LCG OP1 O N N 154 LCG "O5'" O N N 155 LCG "C5'" C N N 156 LCG "C3'" C N S 157 LCG "C6'" C N N 158 LCG N9 N Y N 159 LCG C8 C Y N 160 LCG C4 C Y N 161 LCG N7 N Y N 162 LCG C5 C Y N 163 LCG C6 C N N 164 LCG "C2'" C N R 165 LCG O6 O N N 166 LCG "C4'" C N R 167 LCG "C1'" C N R 168 LCG C2 C N N 169 LCG N1 N N N 170 LCG "O4'" O N N 171 LCG OP2 O N N 172 LCG N2 N N N 173 LCG N3 N N N 174 LCG "O2'" O N N 175 LCG "O3'" O N N 176 LCG OP3 O N N 177 LCG "H5'" H N N 178 LCG "H5''" H N N 179 LCG "H3'" H N N 180 LCG "H6'1" H N N 181 LCG "H6'2" H N N 182 LCG H8 H N N 183 LCG "H2'" H N N 184 LCG "H1'" H N N 185 LCG H1 H N N 186 LCG HOP2 H N N 187 LCG H21 H N N 188 LCG H22 H N N 189 LCG "HO3'" H N N 190 LCG HOP3 H N N 191 TLN P P N N 192 TLN OP1 O N N 193 TLN OP2 O N N 194 TLN OP3 O N N 195 TLN "O5'" O N N 196 TLN "C5'" C N N 197 TLN "C4'" C N R 198 TLN "O4'" O N N 199 TLN "C1'" C N R 200 TLN N1 N N N 201 TLN C6 C N N 202 TLN C5 C N N 203 TLN C5M C N N 204 TLN C4 C N N 205 TLN O4 O N N 206 TLN N3 N N N 207 TLN C2 C N N 208 TLN O2 O N N 209 TLN "C3'" C N S 210 TLN "C2'" C N R 211 TLN "O2'" O N N 212 TLN "O3'" O N N 213 TLN "C6'" C N N 214 TLN HOP2 H N N 215 TLN HOP3 H N N 216 TLN "H5'" H N N 217 TLN "H5''" H N N 218 TLN "H1'" H N N 219 TLN H6 H N N 220 TLN H71 H N N 221 TLN H72 H N N 222 TLN H73 H N N 223 TLN H3 H N N 224 TLN "H3'" H N N 225 TLN "H2'" H N N 226 TLN "HO3'" H N N 227 TLN "H6'1" H N N 228 TLN "H6'2" H N N 229 U OP3 O N N 230 U P P N N 231 U OP1 O N N 232 U OP2 O N N 233 U "O5'" O N N 234 U "C5'" C N N 235 U "C4'" C N R 236 U "O4'" O N N 237 U "C3'" C N S 238 U "O3'" O N N 239 U "C2'" C N R 240 U "O2'" O N N 241 U "C1'" C N R 242 U N1 N N N 243 U C2 C N N 244 U O2 O N N 245 U N3 N N N 246 U C4 C N N 247 U O4 O N N 248 U C5 C N N 249 U C6 C N N 250 U HOP3 H N N 251 U HOP2 H N N 252 U "H5'" H N N 253 U "H5''" H N N 254 U "H4'" H N N 255 U "H3'" H N N 256 U "HO3'" H N N 257 U "H2'" H N N 258 U "HO2'" H N N 259 U "H1'" H N N 260 U H3 H N N 261 U H5 H N N 262 U H6 H N N 263 # 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 5GP P O1P doub N N 1 5GP P O2P sing N N 2 5GP P O3P sing N N 3 5GP P "O5'" sing N N 4 5GP O2P HOP2 sing N N 5 5GP O3P HOP3 sing N N 6 5GP "O5'" "C5'" sing N N 7 5GP "C5'" "C4'" sing N N 8 5GP "C5'" "H5'1" sing N N 9 5GP "C5'" "H5'2" sing N N 10 5GP "C4'" "O4'" sing N N 11 5GP "C4'" "C3'" sing N N 12 5GP "C4'" "H4'" sing N N 13 5GP "O4'" "C1'" sing N N 14 5GP "C3'" "O3'" sing N N 15 5GP "C3'" "C2'" sing N N 16 5GP "C3'" "H3'" sing N N 17 5GP "O3'" "HO3'" sing N N 18 5GP "C2'" "O2'" sing N N 19 5GP "C2'" "C1'" sing N N 20 5GP "C2'" "H2'" sing N N 21 5GP "O2'" "HO2'" sing N N 22 5GP "C1'" N9 sing N N 23 5GP "C1'" "H1'" sing N N 24 5GP N9 C8 sing Y N 25 5GP N9 C4 sing Y N 26 5GP C8 N7 doub Y N 27 5GP C8 H8 sing N N 28 5GP N7 C5 sing Y N 29 5GP C5 C6 sing N N 30 5GP C5 C4 doub Y N 31 5GP C6 O6 doub N N 32 5GP C6 N1 sing N N 33 5GP N1 C2 sing N N 34 5GP N1 HN1 sing N N 35 5GP C2 N2 sing N N 36 5GP C2 N3 doub N N 37 5GP N2 HN21 sing N N 38 5GP N2 HN22 sing N N 39 5GP N3 C4 sing N N 40 A OP3 P sing N N 41 A OP3 HOP3 sing N N 42 A P OP1 doub N N 43 A P OP2 sing N N 44 A P "O5'" sing N N 45 A OP2 HOP2 sing N N 46 A "O5'" "C5'" sing N N 47 A "C5'" "C4'" sing N N 48 A "C5'" "H5'" sing N N 49 A "C5'" "H5''" sing N N 50 A "C4'" "O4'" sing N N 51 A "C4'" "C3'" sing N N 52 A "C4'" "H4'" sing N N 53 A "O4'" "C1'" sing N N 54 A "C3'" "O3'" sing N N 55 A "C3'" "C2'" sing N N 56 A "C3'" "H3'" sing N N 57 A "O3'" "HO3'" sing N N 58 A "C2'" "O2'" sing N N 59 A "C2'" "C1'" sing N N 60 A "C2'" "H2'" sing N N 61 A "O2'" "HO2'" sing N N 62 A "C1'" N9 sing N N 63 A "C1'" "H1'" sing N N 64 A N9 C8 sing Y N 65 A N9 C4 sing Y N 66 A C8 N7 doub Y N 67 A C8 H8 sing N N 68 A N7 C5 sing Y N 69 A C5 C6 sing Y N 70 A C5 C4 doub Y N 71 A C6 N6 sing N N 72 A C6 N1 doub Y N 73 A N6 H61 sing N N 74 A N6 H62 sing N N 75 A N1 C2 sing Y N 76 A C2 N3 doub Y N 77 A C2 H2 sing N N 78 A N3 C4 sing Y N 79 C OP3 P sing N N 80 C OP3 HOP3 sing N N 81 C P OP1 doub N N 82 C P OP2 sing N N 83 C P "O5'" sing N N 84 C OP2 HOP2 sing N N 85 C "O5'" "C5'" sing N N 86 C "C5'" "C4'" sing N N 87 C "C5'" "H5'" sing N N 88 C "C5'" "H5''" sing N N 89 C "C4'" "O4'" sing N N 90 C "C4'" "C3'" sing N N 91 C "C4'" "H4'" sing N N 92 C "O4'" "C1'" sing N N 93 C "C3'" "O3'" sing N N 94 C "C3'" "C2'" sing N N 95 C "C3'" "H3'" sing N N 96 C "O3'" "HO3'" sing N N 97 C "C2'" "O2'" sing N N 98 C "C2'" "C1'" sing N N 99 C "C2'" "H2'" sing N N 100 C "O2'" "HO2'" sing N N 101 C "C1'" N1 sing N N 102 C "C1'" "H1'" sing N N 103 C N1 C2 sing N N 104 C N1 C6 sing N N 105 C C2 O2 doub N N 106 C C2 N3 sing N N 107 C N3 C4 doub N N 108 C C4 N4 sing N N 109 C C4 C5 sing N N 110 C N4 H41 sing N N 111 C N4 H42 sing N N 112 C C5 C6 doub N N 113 C C5 H5 sing N N 114 C C6 H6 sing N N 115 HOH O H1 sing N N 116 HOH O H2 sing N N 117 LCC "O5'" "C5'" sing N N 118 LCC "O5'" P sing N N 119 LCC "C5'" "C4'" sing N N 120 LCC "C5'" "H5'1" sing N N 121 LCC "C5'" "H5'2" sing N N 122 LCC "C4'" "O4'" sing N N 123 LCC "C4'" "C3'" sing N N 124 LCC "C4'" "C6'" sing N N 125 LCC "O4'" "C1'" sing N N 126 LCC "C1'" N1 sing N N 127 LCC "C1'" "C2'" sing N N 128 LCC "C1'" "H1'" sing N N 129 LCC N1 C6 sing N N 130 LCC N1 C2 sing N N 131 LCC C6 C5 doub N N 132 LCC C6 H6 sing N N 133 LCC C5 C5M sing N N 134 LCC C5 C4 sing N N 135 LCC C5M H5M1 sing N N 136 LCC C5M H5M2 sing N N 137 LCC C5M H5M3 sing N N 138 LCC C4 N4 sing N N 139 LCC C4 N3 doub N N 140 LCC N4 H41 sing N N 141 LCC N4 H42 sing N N 142 LCC N3 C2 sing N N 143 LCC C2 O2 doub N N 144 LCC "C3'" "C2'" sing N N 145 LCC "C3'" "O3'" sing N N 146 LCC "C3'" "H3'" sing N N 147 LCC "C2'" "O2'" sing N N 148 LCC "C2'" "H2'1" sing N N 149 LCC "O2'" "C6'" sing N N 150 LCC "O3'" H3T sing N N 151 LCC "C6'" "H6'1" sing N N 152 LCC "C6'" "H6'2" sing N N 153 LCC P O1P sing N N 154 LCC P O2P doub N N 155 LCC P OXT sing N N 156 LCC O1P H1P sing N N 157 LCC OXT HXT sing N N 158 LCG P OP1 doub N N 159 LCG P "O5'" sing N N 160 LCG P OP2 sing N N 161 LCG P OP3 sing N N 162 LCG "O5'" "C5'" sing N N 163 LCG "C5'" "C4'" sing N N 164 LCG "C5'" "H5'" sing N N 165 LCG "C5'" "H5''" sing N N 166 LCG "C3'" "C2'" sing N N 167 LCG "C3'" "C4'" sing N N 168 LCG "C3'" "O3'" sing N N 169 LCG "C3'" "H3'" sing N N 170 LCG "C6'" "C4'" sing N N 171 LCG "C6'" "O2'" sing N N 172 LCG "C6'" "H6'1" sing N N 173 LCG "C6'" "H6'2" sing N N 174 LCG N9 C8 sing Y N 175 LCG N9 C4 sing Y N 176 LCG N9 "C1'" sing N N 177 LCG C8 N7 doub Y N 178 LCG C8 H8 sing N N 179 LCG C4 C5 doub Y N 180 LCG C4 N3 sing N N 181 LCG N7 C5 sing Y N 182 LCG C5 C6 sing N N 183 LCG C6 O6 doub N N 184 LCG C6 N1 sing N N 185 LCG "C2'" "C1'" sing N N 186 LCG "C2'" "O2'" sing N N 187 LCG "C2'" "H2'" sing N N 188 LCG "C4'" "O4'" sing N N 189 LCG "C1'" "O4'" sing N N 190 LCG "C1'" "H1'" sing N N 191 LCG C2 N1 sing N N 192 LCG C2 N2 sing N N 193 LCG C2 N3 doub N N 194 LCG N1 H1 sing N N 195 LCG OP2 HOP2 sing N N 196 LCG N2 H21 sing N N 197 LCG N2 H22 sing N N 198 LCG "O3'" "HO3'" sing N N 199 LCG OP3 HOP3 sing N N 200 TLN P OP1 doub N N 201 TLN P OP2 sing N N 202 TLN P OP3 sing N N 203 TLN P "O5'" sing N N 204 TLN OP2 HOP2 sing N N 205 TLN OP3 HOP3 sing N N 206 TLN "O5'" "C5'" sing N N 207 TLN "C5'" "C4'" sing N N 208 TLN "C5'" "H5'" sing N N 209 TLN "C5'" "H5''" sing N N 210 TLN "C4'" "O4'" sing N N 211 TLN "C4'" "C3'" sing N N 212 TLN "C4'" "C6'" sing N N 213 TLN "O4'" "C1'" sing N N 214 TLN "C1'" N1 sing N N 215 TLN "C1'" "C2'" sing N N 216 TLN "C1'" "H1'" sing N N 217 TLN N1 C6 sing N N 218 TLN N1 C2 sing N N 219 TLN C6 C5 doub N N 220 TLN C6 H6 sing N N 221 TLN C5 C5M sing N N 222 TLN C5 C4 sing N N 223 TLN C5M H71 sing N N 224 TLN C5M H72 sing N N 225 TLN C5M H73 sing N N 226 TLN C4 O4 doub N N 227 TLN C4 N3 sing N N 228 TLN N3 C2 sing N N 229 TLN N3 H3 sing N N 230 TLN C2 O2 doub N N 231 TLN "C3'" "C2'" sing N N 232 TLN "C3'" "O3'" sing N N 233 TLN "C3'" "H3'" sing N N 234 TLN "C2'" "O2'" sing N N 235 TLN "C2'" "H2'" sing N N 236 TLN "O2'" "C6'" sing N N 237 TLN "O3'" "HO3'" sing N N 238 TLN "C6'" "H6'1" sing N N 239 TLN "C6'" "H6'2" sing N N 240 U OP3 P sing N N 241 U OP3 HOP3 sing N N 242 U P OP1 doub N N 243 U P OP2 sing N N 244 U P "O5'" sing N N 245 U OP2 HOP2 sing N N 246 U "O5'" "C5'" sing N N 247 U "C5'" "C4'" sing N N 248 U "C5'" "H5'" sing N N 249 U "C5'" "H5''" sing N N 250 U "C4'" "O4'" sing N N 251 U "C4'" "C3'" sing N N 252 U "C4'" "H4'" sing N N 253 U "O4'" "C1'" sing N N 254 U "C3'" "O3'" sing N N 255 U "C3'" "C2'" sing N N 256 U "C3'" "H3'" sing N N 257 U "O3'" "HO3'" sing N N 258 U "C2'" "O2'" sing N N 259 U "C2'" "C1'" sing N N 260 U "C2'" "H2'" sing N N 261 U "O2'" "HO2'" sing N N 262 U "C1'" N1 sing N N 263 U "C1'" "H1'" sing N N 264 U N1 C2 sing N N 265 U N1 C6 sing N N 266 U C2 O2 doub N N 267 U C2 N3 sing N N 268 U N3 C4 sing N N 269 U N3 H3 sing N N 270 U C4 O4 doub N N 271 U C4 C5 sing N N 272 U C5 C6 doub N N 273 U C5 H5 sing N N 274 U C6 H6 sing N N 275 # _ndb_struct_conf_na.entry_id 5DHB _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 TLN 2 1_555 B A 7 1_555 -0.151 -0.090 0.087 -8.163 -12.482 1.510 1 A_TLN2:A7_B A 2 ? B 7 ? 20 1 1 A LCG 3 1_555 B C 6 1_555 -0.316 -0.217 -0.032 -7.383 -15.277 -1.036 2 A_LCG3:C6_B A 3 ? B 6 ? 19 1 1 A U 4 1_555 B A 5 1_555 -0.147 -0.116 -0.005 -0.542 -10.096 -3.571 3 A_U4:A5_B A 4 ? B 5 ? 20 1 1 A A 5 1_555 B U 4 1_555 0.017 -0.129 0.264 6.022 -14.269 0.714 4 A_A5:U4_B A 5 ? B 4 ? 20 1 1 A C 6 1_555 B LCG 3 1_555 0.423 -0.269 0.071 4.127 -18.320 0.573 5 A_C6:LCG3_B A 6 ? B 3 ? 19 1 1 A A 7 1_555 B TLN 2 1_555 0.173 -0.099 0.242 4.338 -10.180 4.310 6 A_A7:TLN2_B A 7 ? B 2 ? 20 1 1 C TLN 2 1_555 D A 7 1_555 -0.150 -0.118 0.244 -4.574 -10.020 4.517 7 C_TLN2:A7_D C 2 ? D 7 ? 20 1 1 C LCG 3 1_555 D C 6 1_555 -0.424 -0.230 0.132 -3.625 -17.945 0.435 8 C_LCG3:C6_D C 3 ? D 6 ? 19 1 1 C U 4 1_555 D A 5 1_555 -0.048 -0.161 0.261 -5.852 -14.222 0.398 9 C_U4:A5_D C 4 ? D 5 ? 20 1 1 C A 5 1_555 D U 4 1_555 0.100 -0.141 0.003 0.566 -9.334 -3.274 10 C_A5:U4_D C 5 ? D 4 ? 20 1 1 C C 6 1_555 D LCG 3 1_555 0.263 -0.202 -0.015 7.283 -14.919 -0.397 11 C_C6:LCG3_D C 6 ? D 3 ? 19 1 1 C A 7 1_555 D TLN 2 1_555 0.101 -0.091 0.086 7.682 -12.639 1.501 12 C_A7:TLN2_D C 7 ? D 2 ? 20 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 TLN 2 1_555 B A 7 1_555 A LCG 3 1_555 B C 6 1_555 0.282 -1.533 3.155 1.257 13.988 29.452 -4.850 -0.313 2.228 25.750 -2.314 32.562 1 AA_TLN2LCG3:C6A7_BB A 2 ? B 7 ? A 3 ? B 6 ? 1 A LCG 3 1_555 B C 6 1_555 A U 4 1_555 B A 5 1_555 -0.421 -1.122 3.119 -1.339 5.818 30.755 -3.094 0.546 2.879 10.842 2.496 31.315 2 AA_LCG3U4:A5C6_BB A 3 ? B 6 ? A 4 ? B 5 ? 1 A U 4 1_555 B A 5 1_555 A A 5 1_555 B U 4 1_555 0.050 -1.354 2.998 -2.920 8.307 33.225 -3.421 -0.481 2.581 14.219 4.997 34.340 3 AA_U4A5:U4A5_BB A 4 ? B 5 ? A 5 ? B 4 ? 1 A A 5 1_555 B U 4 1_555 A C 6 1_555 B LCG 3 1_555 0.023 -1.264 3.277 2.608 5.659 34.645 -2.911 0.340 3.033 9.409 -4.337 35.184 4 AA_A5C6:LCG3U4_BB A 5 ? B 4 ? A 6 ? B 3 ? 1 A C 6 1_555 B LCG 3 1_555 A A 7 1_555 B TLN 2 1_555 0.365 -1.749 3.140 -0.054 9.750 27.955 -5.229 -0.726 2.406 19.449 0.108 29.574 5 AA_C6A7:TLN2LCG3_BB A 6 ? B 3 ? A 7 ? B 2 ? 1 C TLN 2 1_555 D A 7 1_555 C LCG 3 1_555 D C 6 1_555 -0.366 -1.728 3.114 -0.250 9.283 28.015 -5.118 0.674 2.432 18.543 0.499 29.485 6 CC_TLN2LCG3:C6A7_DD C 2 ? D 7 ? C 3 ? D 6 ? 1 C LCG 3 1_555 D C 6 1_555 C U 4 1_555 D A 5 1_555 -0.023 -1.325 3.275 -2.101 5.576 34.338 -3.036 -0.271 3.026 9.357 3.526 34.836 7 CC_LCG3U4:A5C6_DD C 3 ? D 6 ? C 4 ? D 5 ? 1 C U 4 1_555 D A 5 1_555 C A 5 1_555 D U 4 1_555 -0.054 -1.327 3.002 2.570 8.277 32.992 -3.408 0.447 2.591 14.271 -4.430 34.081 8 CC_U4A5:U4A5_DD C 4 ? D 5 ? C 5 ? D 4 ? 1 C A 5 1_555 D U 4 1_555 C C 6 1_555 D LCG 3 1_555 0.427 -1.134 3.121 1.348 5.886 30.829 -3.117 -0.556 2.877 10.940 -2.505 31.400 9 CC_A5C6:LCG3U4_DD C 5 ? D 4 ? C 6 ? D 3 ? 1 C C 6 1_555 D LCG 3 1_555 C A 7 1_555 D TLN 2 1_555 -0.271 -1.528 3.166 -1.175 13.555 29.438 -4.830 0.305 2.270 25.057 2.173 32.367 10 CC_C6A7:TLN2LCG3_DD C 6 ? D 3 ? C 7 ? D 2 ? # _atom_sites.entry_id 5DHB _atom_sites.fract_transf_matrix[1][1] 0.019513 _atom_sites.fract_transf_matrix[1][2] 0.011266 _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] 0.022532 _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] 0.025797 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P # loop_