data_1CSL # _entry.id 1CSL # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.385 _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 1CSL pdb_00001csl 10.2210/pdb1csl/pdb NDB AR0023 ? ? RCSB RCSB009528 ? ? WWPDB D_1000009528 ? ? # 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 2000-02-14 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2011-12-28 5 'Structure model' 1 4 2024-02-07 # _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' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' Advisory 4 5 'Structure model' 'Data collection' 5 5 '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 5 'Structure model' chem_comp_atom 2 5 'Structure model' chem_comp_bond 3 5 '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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' # _database_PDB_caveat.id 1 _database_PDB_caveat.text ;CHIRALITY OF C2' U 78 B IS INCORRECT ; # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1CSL _pdbx_database_status.recvd_initial_deposition_date 1999-08-18 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Ippolito, J.A.' 1 'Steitz, T.A.' 2 # _citation.id primary _citation.title 'The structure of the HIV-1 RRE high affinity rev binding site at 1.6 A resolution.' _citation.journal_abbrev J.Mol.Biol. _citation.journal_volume 295 _citation.page_first 711 _citation.page_last 717 _citation.year 2000 _citation.journal_id_ASTM JMOBAK _citation.country UK _citation.journal_id_ISSN 0022-2836 _citation.journal_id_CSD 0070 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 10656783 _citation.pdbx_database_id_DOI 10.1006/jmbi.1999.3405 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ippolito, J.A.' 1 ? primary 'Steitz, T.A.' 2 ? # 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 "5'-R(*AP*AP*CP*GP*GP*GP*CP*GP*CP*AP*GP*AP*A)-3'" 4242.646 1 ? ? 'HIGH AFFINITY REV BINDING SITE' ? 2 polymer syn "5'-R(*UP*CP*UP*GP*AP*CP*GP*GP*UP*AP*CP*GP*UP*UP*U)-3'" 4746.817 1 ? ? ? ? 3 water nat water 18.015 144 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no no AACGGGCGCAGAA AACGGGCGCAGAA A ? 2 polyribonucleotide no no UCUGACGGUACGUUU UCUGACGGUACGUUU B ? # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 A n 1 2 A n 1 3 C n 1 4 G n 1 5 G n 1 6 G n 1 7 C n 1 8 G n 1 9 C n 1 10 A n 1 11 G n 1 12 A n 1 13 A n 2 1 U n 2 2 C n 2 3 U n 2 4 G n 2 5 A n 2 6 C n 2 7 G n 2 8 G n 2 9 U n 2 10 A n 2 11 C n 2 12 G n 2 13 U n 2 14 U n 2 15 U n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'SEQUENCE NATURALLY OCCURS IN RRE OF HIV-1' # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 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 A 1 43 43 A A A . n A 1 2 A 2 44 44 A A A . n A 1 3 C 3 45 45 C C A . n A 1 4 G 4 46 46 G G A . n A 1 5 G 5 47 47 G G A . n A 1 6 G 6 48 48 G G A . n A 1 7 C 7 49 49 C C A . n A 1 8 G 8 50 50 G G A . n A 1 9 C 9 51 51 C C A . n A 1 10 A 10 52 52 A A A . n A 1 11 G 11 53 53 G G A . n A 1 12 A 12 54 54 A A A . n A 1 13 A 13 55 55 A A A . n B 2 1 U 1 64 64 U U B . n B 2 2 C 2 65 65 C C B . n B 2 3 U 3 66 66 U U B . n B 2 4 G 4 67 67 G G B . n B 2 5 A 5 68 68 A A B . n B 2 6 C 6 69 69 C C B . n B 2 7 G 7 70 70 G G B . n B 2 8 G 8 71 71 G G B . n B 2 9 U 9 72 72 U U B . n B 2 10 A 10 73 73 A A B . n B 2 11 C 11 74 74 C C B . n B 2 12 G 12 75 75 G G B . n B 2 13 U 13 76 76 U U B . n B 2 14 U 14 77 77 U U B . n B 2 15 U 15 78 78 U U B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 HOH 1 85 85 HOH HOH A . C 3 HOH 2 87 87 HOH HOH A . C 3 HOH 3 90 90 HOH HOH A . C 3 HOH 4 93 93 HOH HOH A . C 3 HOH 5 95 95 HOH HOH A . C 3 HOH 6 96 96 HOH HOH A . C 3 HOH 7 97 97 HOH HOH A . C 3 HOH 8 99 99 HOH HOH A . C 3 HOH 9 102 102 HOH HOH A . C 3 HOH 10 107 107 HOH HOH A . C 3 HOH 11 108 108 HOH HOH A . C 3 HOH 12 110 110 HOH HOH A . C 3 HOH 13 113 113 HOH HOH A . C 3 HOH 14 116 116 HOH HOH A . C 3 HOH 15 118 118 HOH HOH A . C 3 HOH 16 119 119 HOH HOH A . C 3 HOH 17 121 121 HOH HOH A . C 3 HOH 18 126 126 HOH HOH A . C 3 HOH 19 131 131 HOH HOH A . C 3 HOH 20 134 134 HOH HOH A . C 3 HOH 21 141 141 HOH HOH A . C 3 HOH 22 142 142 HOH HOH A . C 3 HOH 23 144 144 HOH HOH A . C 3 HOH 24 145 145 HOH HOH A . C 3 HOH 25 146 146 HOH HOH A . C 3 HOH 26 149 149 HOH HOH A . C 3 HOH 27 150 150 HOH HOH A . C 3 HOH 28 151 151 HOH HOH A . C 3 HOH 29 154 154 HOH HOH A . C 3 HOH 30 157 157 HOH HOH A . C 3 HOH 31 204 204 HOH HOH A . C 3 HOH 32 205 205 HOH HOH A . C 3 HOH 33 206 206 HOH HOH A . C 3 HOH 34 207 207 HOH HOH A . C 3 HOH 35 208 208 HOH HOH A . C 3 HOH 36 209 209 HOH HOH A . C 3 HOH 37 210 210 HOH HOH A . C 3 HOH 38 212 212 HOH HOH A . C 3 HOH 39 213 213 HOH HOH A . C 3 HOH 40 214 214 HOH HOH A . C 3 HOH 41 215 215 HOH HOH A . C 3 HOH 42 216 216 HOH HOH A . C 3 HOH 43 218 218 HOH HOH A . C 3 HOH 44 220 220 HOH HOH A . C 3 HOH 45 221 221 HOH HOH A . C 3 HOH 46 229 229 HOH HOH A . C 3 HOH 47 239 239 HOH HOH A . C 3 HOH 48 249 249 HOH HOH A . C 3 HOH 49 250 250 HOH HOH A . C 3 HOH 50 254 254 HOH HOH A . C 3 HOH 51 259 259 HOH HOH A . C 3 HOH 52 260 260 HOH HOH A . C 3 HOH 53 262 262 HOH HOH A . C 3 HOH 54 263 263 HOH HOH A . C 3 HOH 55 264 264 HOH HOH A . C 3 HOH 56 267 267 HOH HOH A . C 3 HOH 57 270 270 HOH HOH A . C 3 HOH 58 271 271 HOH HOH A . C 3 HOH 59 272 272 HOH HOH A . C 3 HOH 60 274 274 HOH HOH A . C 3 HOH 61 275 275 HOH HOH A . D 3 HOH 1 79 79 HOH HOH B . D 3 HOH 2 80 80 HOH HOH B . D 3 HOH 3 81 81 HOH HOH B . D 3 HOH 4 82 82 HOH HOH B . D 3 HOH 5 83 83 HOH HOH B . D 3 HOH 6 84 84 HOH HOH B . D 3 HOH 7 86 86 HOH HOH B . D 3 HOH 8 88 88 HOH HOH B . D 3 HOH 9 89 89 HOH HOH B . D 3 HOH 10 91 91 HOH HOH B . D 3 HOH 11 92 92 HOH HOH B . D 3 HOH 12 94 94 HOH HOH B . D 3 HOH 13 98 98 HOH HOH B . D 3 HOH 14 100 100 HOH HOH B . D 3 HOH 15 101 101 HOH HOH B . D 3 HOH 16 103 103 HOH HOH B . D 3 HOH 17 104 104 HOH HOH B . D 3 HOH 18 105 105 HOH HOH B . D 3 HOH 19 106 106 HOH HOH B . D 3 HOH 20 109 109 HOH HOH B . D 3 HOH 21 111 111 HOH HOH B . D 3 HOH 22 112 112 HOH HOH B . D 3 HOH 23 114 114 HOH HOH B . D 3 HOH 24 115 115 HOH HOH B . D 3 HOH 25 120 120 HOH HOH B . D 3 HOH 26 122 122 HOH HOH B . D 3 HOH 27 123 123 HOH HOH B . D 3 HOH 28 128 128 HOH HOH B . D 3 HOH 29 129 129 HOH HOH B . D 3 HOH 30 130 130 HOH HOH B . D 3 HOH 31 133 133 HOH HOH B . D 3 HOH 32 136 136 HOH HOH B . D 3 HOH 33 137 137 HOH HOH B . D 3 HOH 34 139 139 HOH HOH B . D 3 HOH 35 140 140 HOH HOH B . D 3 HOH 36 147 147 HOH HOH B . D 3 HOH 37 148 148 HOH HOH B . D 3 HOH 38 152 152 HOH HOH B . D 3 HOH 39 153 153 HOH HOH B . D 3 HOH 40 156 156 HOH HOH B . D 3 HOH 41 158 158 HOH HOH B . D 3 HOH 42 159 159 HOH HOH B . D 3 HOH 43 201 201 HOH HOH B . D 3 HOH 44 203 203 HOH HOH B . D 3 HOH 45 211 211 HOH HOH B . D 3 HOH 46 222 222 HOH HOH B . D 3 HOH 47 223 223 HOH HOH B . D 3 HOH 48 224 224 HOH HOH B . D 3 HOH 49 225 225 HOH HOH B . D 3 HOH 50 226 226 HOH HOH B . D 3 HOH 51 227 227 HOH HOH B . D 3 HOH 52 228 228 HOH HOH B . D 3 HOH 53 230 230 HOH HOH B . D 3 HOH 54 231 231 HOH HOH B . D 3 HOH 55 232 232 HOH HOH B . D 3 HOH 56 233 233 HOH HOH B . D 3 HOH 57 234 234 HOH HOH B . D 3 HOH 58 235 235 HOH HOH B . D 3 HOH 59 236 236 HOH HOH B . D 3 HOH 60 237 237 HOH HOH B . D 3 HOH 61 238 238 HOH HOH B . D 3 HOH 62 240 240 HOH HOH B . D 3 HOH 63 241 241 HOH HOH B . D 3 HOH 64 242 242 HOH HOH B . D 3 HOH 65 243 243 HOH HOH B . D 3 HOH 66 244 244 HOH HOH B . D 3 HOH 67 245 245 HOH HOH B . D 3 HOH 68 246 246 HOH HOH B . D 3 HOH 69 247 247 HOH HOH B . D 3 HOH 70 248 248 HOH HOH B . D 3 HOH 71 251 251 HOH HOH B . D 3 HOH 72 252 252 HOH HOH B . D 3 HOH 73 253 253 HOH HOH B . D 3 HOH 74 255 255 HOH HOH B . D 3 HOH 75 256 256 HOH HOH B . D 3 HOH 76 257 257 HOH HOH B . D 3 HOH 77 258 258 HOH HOH B . D 3 HOH 78 261 261 HOH HOH B . D 3 HOH 79 265 265 HOH HOH B . D 3 HOH 80 266 266 HOH HOH B . D 3 HOH 81 268 268 HOH HOH B . D 3 HOH 82 269 269 HOH HOH B . D 3 HOH 83 273 273 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal AMoRE phasing . ? 1 CNS refinement . ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 # _cell.entry_id 1CSL _cell.length_a 74.5 _cell.length_b 24.3 _cell.length_c 46.1 _cell.angle_alpha 90 _cell.angle_beta 116.7 _cell.angle_gamma 90 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 1CSL _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting monoclinic _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? # _exptl.entry_id 1CSL _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 40.68 _exptl_crystal.density_Matthews 2.07 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_details 'LITHIUM SULFATE, MAGNESIUM SULFATE, SODIUM CACODYLATE, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 LI2SO4 ? ? ? 1 2 1 MGSO4 ? ? ? 1 3 1 'SODIUM CACODYLATE' ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 4' _diffrn_detector.pdbx_collection_date 1998-05-09 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.918 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'CHESS BEAMLINE F1' _diffrn_source.pdbx_synchrotron_site CHESS _diffrn_source.pdbx_synchrotron_beamline F1 _diffrn_source.pdbx_wavelength 0.918 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1CSL _reflns.observed_criterion_sigma_I -3.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 20.0 _reflns.d_resolution_high 1.6 _reflns.number_obs 9651 _reflns.number_all 9651 _reflns.percent_possible_obs 96.4 _reflns.pdbx_Rmerge_I_obs 0.0840000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 17.6 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 3.1 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.60 _reflns_shell.d_res_low 1.66 _reflns_shell.percent_possible_all 81.0 _reflns_shell.Rmerge_I_obs 0.2770000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 3.4 _reflns_shell.pdbx_redundancy 1.8 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 1CSL _refine.ls_number_reflns_obs 9640 _refine.ls_number_reflns_all 9640 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF 17752510.83 _refine.ls_d_res_low 15.0 _refine.ls_d_res_high 1.60 _refine.ls_percent_reflns_obs 96.3 _refine.ls_R_factor_obs 0.2110000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2110000 _refine.ls_R_factor_R_free 0.2410000 _refine.ls_R_factor_R_free_error 0.008 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10 _refine.ls_number_reflns_R_free 993 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean 17.8 _refine.aniso_B[1][1] -1.59 _refine.aniso_B[2][2] 0.35 _refine.aniso_B[3][3] 1.24 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] -0.83 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'FLAT MODEL' _refine.solvent_model_param_ksol 0.411304 _refine.solvent_model_param_bsol 40.4733 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'PARKINSON ET AL., ACTA CRYST. D, 52 (1996) 57-64' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_redundancy_reflns_obs ? _refine.pdbx_overall_phase_error ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 1CSL _refine_analyze.Luzzati_coordinate_error_obs 0.21 _refine_analyze.Luzzati_sigma_a_obs 0.18 _refine_analyze.Luzzati_d_res_low_obs 15.0 _refine_analyze.Luzzati_coordinate_error_free 0.24 _refine_analyze.Luzzati_sigma_a_free 0.18 _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _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 595 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 144 _refine_hist.number_atoms_total 739 _refine_hist.d_res_high 1.60 _refine_hist.d_res_low 15.0 # 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 c_bond_d 0.004 ? ? ? 'X-RAY DIFFRACTION' ? c_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.1 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 29.2 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 2.99 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_mcbond_it 0.15 1.50 ? ? 'X-RAY DIFFRACTION' ? c_mcangle_it 0.26 2.00 ? ? 'X-RAY DIFFRACTION' ? c_scbond_it 0.08 2.00 ? ? 'X-RAY DIFFRACTION' ? c_scangle_it 0.14 2.50 ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 10 _refine_ls_shell.d_res_high 1.60 _refine_ls_shell.d_res_low 1.66 _refine_ls_shell.number_reflns_R_work 723 _refine_ls_shell.R_factor_R_work 0.2950000 _refine_ls_shell.percent_reflns_obs 81.2 _refine_ls_shell.R_factor_R_free 0.2720000 _refine_ls_shell.R_factor_R_free_error 0.033 _refine_ls_shell.percent_reflns_R_free 8.7 _refine_ls_shell.number_reflns_R_free 69 _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.R_factor_all ? # _pdbx_xplor_file.serial_no 1 _pdbx_xplor_file.param_file DNA-RNA-MULTI-ENDO.PARAM _pdbx_xplor_file.topol_file DNA-RNA-MULTI-ENDO.TOP _pdbx_xplor_file.pdbx_refine_id 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 1CSL _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 1CSL _struct.title 'CRYSTAL STRUCTURE OF THE RRE HIGH AFFINITY SITE' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1CSL _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'RRE HIGH AFFINITY SITE, HIV-1, RNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 3 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 1 PDB 1CSL 1CSL ? ? ? 2 2 PDB 1CSL 1CSL ? ? ? # 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 1CSL A 1 ? 13 ? 1CSL 43 ? 55 ? 43 55 2 2 1CSL B 1 ? 15 ? 1CSL 64 ? 78 ? 64 78 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # _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 # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? A A 1 N6 ? ? ? 1_555 B U 14 O2 ? ? A A 43 B U 77 1_555 ? ? ? ? ? ? 'A-U PAIR' ? ? ? hydrog2 hydrog ? ? A A 2 N1 ? ? ? 1_555 B U 13 N3 ? ? A A 44 B U 76 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A A 2 N6 ? ? ? 1_555 B U 13 O4 ? ? A A 44 B U 76 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 3 N3 ? ? ? 1_555 B G 12 N1 ? ? A C 45 B G 75 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 3 N4 ? ? ? 1_555 B G 12 O6 ? ? A C 45 B G 75 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 3 O2 ? ? ? 1_555 B G 12 N2 ? ? A C 45 B G 75 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 4 N1 ? ? ? 1_555 B C 11 N3 ? ? A G 46 B C 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 4 N2 ? ? ? 1_555 B C 11 O2 ? ? A G 46 B C 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 O6 ? ? ? 1_555 B C 11 N4 ? ? A G 46 B C 74 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 5 N1 ? ? ? 1_555 B A 10 N1 ? ? A G 47 B A 73 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog11 hydrog ? ? A G 5 O6 ? ? ? 1_555 B A 10 N6 ? ? A G 47 B A 73 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog12 hydrog ? ? A G 6 N1 ? ? ? 1_555 B G 8 O6 ? ? A G 48 B G 71 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog13 hydrog ? ? A G 6 N2 ? ? ? 1_555 B G 8 N7 ? ? A G 48 B G 71 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog14 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 7 N1 ? ? A C 49 B G 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 7 O6 ? ? A C 49 B G 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 7 N2 ? ? A C 49 B G 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 8 N1 ? ? ? 1_555 B C 6 N3 ? ? A G 50 B C 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 8 N2 ? ? ? 1_555 B C 6 O2 ? ? A G 50 B C 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 8 O6 ? ? ? 1_555 B C 6 N4 ? ? A G 50 B C 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 9 N3 ? ? ? 1_555 B G 4 N1 ? ? A C 51 B G 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 9 N4 ? ? ? 1_555 B G 4 O6 ? ? A C 51 B G 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 9 O2 ? ? ? 1_555 B G 4 N2 ? ? A C 51 B G 67 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A A 10 N1 ? ? ? 1_555 B U 3 N3 ? ? A A 52 B U 66 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A A 10 N6 ? ? ? 1_555 B U 3 O4 ? ? A A 52 B U 66 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 11 N1 ? ? ? 1_555 B C 2 N3 ? ? A G 53 B C 65 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 11 N2 ? ? ? 1_555 B C 2 O2 ? ? A G 53 B C 65 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 11 O6 ? ? ? 1_555 B C 2 N4 ? ? A G 53 B C 65 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A A 12 N1 ? ? ? 1_555 B U 1 N3 ? ? A A 54 B U 64 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A A 12 N6 ? ? ? 1_555 B U 1 O4 ? ? A A 54 B U 64 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_validate_chiral.id 1 _pdbx_validate_chiral.PDB_model_num 1 _pdbx_validate_chiral.auth_atom_id "C2'" _pdbx_validate_chiral.label_alt_id ? _pdbx_validate_chiral.auth_asym_id B _pdbx_validate_chiral.auth_comp_id U _pdbx_validate_chiral.auth_seq_id 78 _pdbx_validate_chiral.PDB_ins_code ? _pdbx_validate_chiral.details 'WRONG HAND' _pdbx_validate_chiral.omega . # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 HOH O O N N 111 HOH H1 H N N 112 HOH H2 H N N 113 U OP3 O N N 114 U P P N N 115 U OP1 O N N 116 U OP2 O N N 117 U "O5'" O N N 118 U "C5'" C N N 119 U "C4'" C N R 120 U "O4'" O N N 121 U "C3'" C N S 122 U "O3'" O N N 123 U "C2'" C N R 124 U "O2'" O N N 125 U "C1'" C N R 126 U N1 N N N 127 U C2 C N N 128 U O2 O N N 129 U N3 N N N 130 U C4 C N N 131 U O4 O N N 132 U C5 C N N 133 U C6 C N N 134 U HOP3 H N N 135 U HOP2 H N N 136 U "H5'" H N N 137 U "H5''" H N N 138 U "H4'" H N N 139 U "H3'" H N N 140 U "HO3'" H N N 141 U "H2'" H N N 142 U "HO2'" H N N 143 U "H1'" H N N 144 U H3 H N N 145 U H5 H N N 146 U H6 H N N 147 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 HOH O H1 sing N N 116 HOH O H2 sing N N 117 U OP3 P sing N N 118 U OP3 HOP3 sing N N 119 U P OP1 doub N N 120 U P OP2 sing N N 121 U P "O5'" sing N N 122 U OP2 HOP2 sing N N 123 U "O5'" "C5'" sing N N 124 U "C5'" "C4'" sing N N 125 U "C5'" "H5'" sing N N 126 U "C5'" "H5''" sing N N 127 U "C4'" "O4'" sing N N 128 U "C4'" "C3'" sing N N 129 U "C4'" "H4'" sing N N 130 U "O4'" "C1'" sing N N 131 U "C3'" "O3'" sing N N 132 U "C3'" "C2'" sing N N 133 U "C3'" "H3'" sing N N 134 U "O3'" "HO3'" sing N N 135 U "C2'" "O2'" sing N N 136 U "C2'" "C1'" sing N N 137 U "C2'" "H2'" sing N N 138 U "O2'" "HO2'" sing N N 139 U "C1'" N1 sing N N 140 U "C1'" "H1'" sing N N 141 U N1 C2 sing N N 142 U N1 C6 sing N N 143 U C2 O2 doub N N 144 U C2 N3 sing N N 145 U N3 C4 sing N N 146 U N3 H3 sing N N 147 U C4 O4 doub N N 148 U C4 C5 sing N N 149 U C5 C6 doub N N 150 U C5 H5 sing N N 151 U C6 H6 sing N N 152 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1CSL 'double helix' 1CSL 'a-form double helix' 1CSL 'bulge loop' 1CSL 'mismatched base pair' # 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 A 1 1_555 B U 14 1_555 -5.436 -1.122 0.139 15.233 -7.725 -25.887 1 A_A43:U77_B A 43 ? B 77 ? ? ? 1 A A 2 1_555 B U 13 1_555 0.000 -0.028 0.236 13.828 -19.296 -4.184 2 A_A44:U76_B A 44 ? B 76 ? 20 1 1 A C 3 1_555 B G 12 1_555 0.196 -0.029 -0.052 11.101 -20.226 1.687 3 A_C45:G75_B A 45 ? B 75 ? 19 1 1 A G 4 1_555 B C 11 1_555 -0.147 -0.064 -0.079 -10.279 -18.404 1.941 4 A_G46:C74_B A 46 ? B 74 ? 19 1 1 A G 5 1_555 B A 10 1_555 -0.188 1.503 -0.208 -16.394 0.009 -20.733 5 A_G47:A73_B A 47 ? B 73 ? 8 ? 1 A G 6 1_555 B G 8 1_555 1.647 3.666 0.233 -17.702 -6.262 -85.555 6 A_G48:G71_B A 48 ? B 71 ? 6 ? 1 A C 7 1_555 B G 7 1_555 0.285 -0.068 -0.065 7.100 -13.820 2.014 7 A_C49:G70_B A 49 ? B 70 ? 19 1 1 A G 8 1_555 B C 6 1_555 -0.284 -0.088 0.073 1.576 -17.122 1.971 8 A_G50:C69_B A 50 ? B 69 ? 19 1 1 A C 9 1_555 B G 4 1_555 0.287 -0.084 0.104 5.087 -16.912 1.305 9 A_C51:G67_B A 51 ? B 67 ? 19 1 1 A A 10 1_555 B U 3 1_555 0.221 -0.005 0.056 -5.007 -15.415 -4.764 10 A_A52:U66_B A 52 ? B 66 ? 20 1 1 A G 11 1_555 B C 2 1_555 -0.173 -0.075 0.090 -11.010 -21.403 -0.939 11 A_G53:C65_B A 53 ? B 65 ? 19 1 1 A A 12 1_555 B U 1 1_555 0.046 -0.029 -0.129 -6.492 -24.607 -1.827 12 A_A54:U64_B A 54 ? B 64 ? 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 A 1 1_555 B U 14 1_555 A A 2 1_555 B U 13 1_555 1.041 -1.143 3.406 -3.012 5.441 55.505 -1.540 -1.288 3.234 5.822 3.223 55.824 1 AA_A43A44:U76U77_BB A 43 ? B 77 ? A 44 ? B 76 ? 1 A A 2 1_555 B U 13 1_555 A C 3 1_555 B G 12 1_555 0.406 -1.036 3.302 2.149 4.553 35.425 -2.339 -0.353 3.167 7.436 -3.509 35.770 2 AA_A44C45:G75U76_BB A 44 ? B 76 ? A 45 ? B 75 ? 1 A C 3 1_555 B G 12 1_555 A G 4 1_555 B C 11 1_555 0.423 -1.696 3.737 1.051 11.550 33.242 -4.639 -0.534 3.011 19.467 -1.771 35.153 3 AA_C45G46:C74G75_BB A 45 ? B 75 ? A 46 ? B 74 ? 1 A G 4 1_555 B C 11 1_555 A G 5 1_555 B A 10 1_555 -1.160 -2.433 3.256 1.898 5.038 35.027 -4.690 2.167 2.825 8.310 -3.130 35.426 4 AA_G46G47:A73C74_BB A 46 ? B 74 ? A 47 ? B 73 ? 1 A G 5 1_555 B A 10 1_555 A G 6 1_555 B G 8 1_555 1.262 -3.226 2.951 5.448 15.110 71.812 -3.104 -0.911 2.404 12.726 -4.588 73.350 5 AA_G47G48:G71A73_BB A 47 ? B 73 ? A 48 ? B 71 ? 1 A G 6 1_555 B G 8 1_555 A C 7 1_555 B G 7 1_555 -0.600 1.281 3.086 2.724 10.545 -16.548 -7.980 -0.648 1.988 -32.457 8.384 -19.790 6 AA_G48C49:G70G71_BB A 48 ? B 71 ? A 49 ? B 70 ? 1 A C 7 1_555 B G 7 1_555 A G 8 1_555 B C 6 1_555 0.086 -1.675 3.297 -1.102 14.765 27.512 -5.608 -0.346 2.137 28.574 2.132 31.176 7 AA_C49G50:C69G70_BB A 49 ? B 70 ? A 50 ? B 69 ? 1 A G 8 1_555 B C 6 1_555 A C 9 1_555 B G 4 1_555 0.707 -1.210 3.161 0.013 3.173 40.842 -2.060 -1.009 3.063 4.539 -0.018 40.960 8 AA_G50C51:G67C69_BB A 50 ? B 69 ? A 51 ? B 67 ? 1 A C 9 1_555 B G 4 1_555 A A 10 1_555 B U 3 1_555 -0.328 -1.445 3.372 1.309 10.041 35.716 -3.579 0.686 2.863 15.979 -2.084 37.079 9 AA_C51A52:U66G67_BB A 51 ? B 67 ? A 52 ? B 66 ? 1 A A 10 1_555 B U 3 1_555 A G 11 1_555 B C 2 1_555 0.447 -1.212 3.399 1.987 9.673 32.843 -3.569 -0.449 2.955 16.644 -3.420 34.256 10 AA_A52G53:C65U66_BB A 52 ? B 66 ? A 53 ? B 65 ? 1 A G 11 1_555 B C 2 1_555 A A 12 1_555 B U 1 1_555 0.168 -0.668 3.225 4.373 7.517 35.724 -2.055 0.313 3.026 12.034 -7.001 36.733 11 AA_G53A54:U64C65_BB A 53 ? B 65 ? A 54 ? B 64 ? # _atom_sites.entry_id 1CSL _atom_sites.fract_transf_matrix[1][1] 0.013423 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.006751 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.041152 _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] 0.024281 _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_