data_1R3G # _entry.id 1R3G # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.386 _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 1R3G pdb_00001r3g 10.2210/pdb1r3g/pdb NDB AD0031 ? ? RCSB RCSB020389 ? ? WWPDB D_1000020389 ? ? # 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 2003-10-21 2 'Structure model' 1 1 2008-01-08 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-14 # _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' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' # 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 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' pdbx_struct_conn_angle 5 4 'Structure model' struct_conn 6 4 'Structure model' struct_site # 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 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.value' 6 4 'Structure model' '_struct_conn.pdbx_dist_value' 7 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 8 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 9 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 10 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 11 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1R3G _pdbx_database_status.recvd_initial_deposition_date 2003-10-01 _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.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Prakash, T.P.' 1 'Puschl, A.' 2 'Lesnik, E.' 3 'Tereshko, V.' 4 'Egli, M.' 5 'Manoharan, M.' 6 # _citation.id primary _citation.title ;2'-O-[2-(Guanidinium)ethyl]-Modified Oligonucleotides: Stabilizing Effect on Duplex and Triplex Structures. ; _citation.journal_abbrev Org.Lett. _citation.journal_volume 6 _citation.page_first 1971 _citation.page_last 1974 _citation.year 2004 _citation.journal_id_ASTM ? _citation.country US _citation.journal_id_ISSN 1523-7060 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 15176796 _citation.pdbx_database_id_DOI 10.1021/ol0493249 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Prakash, T.P.' 1 ? primary 'Lesnik, E.' 2 ? primary 'Mohan, V.' 3 ? primary 'Tereshko, V.' 4 ? primary 'Egli, M.' 5 ? primary 'Manoharan, M.' 6 ? # 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'-D(*GP*CP*GP*TP*AP*(GMU)P*AP*CP*GP*C)-3')" 3148.129 2 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 3 water nat water 18.015 153 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DG)(DC)(DG)(DT)(DA)(GMU)(DA)(DC)(DG)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GCGTAUACGC _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MAGNESIUM ION' MG 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DG n 1 2 DC n 1 3 DG n 1 4 DT n 1 5 DA n 1 6 GMU n 1 7 DA n 1 8 DC n 1 9 DG n 1 10 DC n # 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 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 GMU 'RNA linking' n ;2'-O-[(2-GUANIDINIUM)ETHYL]-5-METHYLURIDINE 5'-MONOPHOSPHATE ; ? 'C13 H24 N5 O9 P' 425.332 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 # 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 DG 1 1 1 DG G A . n A 1 2 DC 2 2 2 DC C A . n A 1 3 DG 3 3 3 DG G A . n A 1 4 DT 4 4 4 DT T A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 GMU 6 6 6 GMU THG A . n A 1 7 DA 7 7 7 DA A A . n A 1 8 DC 8 8 8 DC C A . n A 1 9 DG 9 9 9 DG G A . n A 1 10 DC 10 10 10 DC C A . n B 1 1 DG 1 11 11 DG G B . n B 1 2 DC 2 12 12 DC C B . n B 1 3 DG 3 13 13 DG G B . n B 1 4 DT 4 14 14 DT T B . n B 1 5 DA 5 15 15 DA A B . n B 1 6 GMU 6 16 16 GMU THG B . n B 1 7 DA 7 17 17 DA A B . n B 1 8 DC 8 18 18 DC C B . n B 1 9 DG 9 19 19 DG G B . n B 1 10 DC 10 20 20 DC C 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 2 MG 1 101 101 MG MG A . D 3 HOH 1 102 102 HOH HOH A . D 3 HOH 2 104 104 HOH HOH A . D 3 HOH 3 105 105 HOH HOH A . D 3 HOH 4 106 106 HOH HOH A . D 3 HOH 5 202 202 HOH HOH A . D 3 HOH 6 205 205 HOH HOH A . D 3 HOH 7 206 206 HOH HOH A . D 3 HOH 8 207 207 HOH HOH A . D 3 HOH 9 208 208 HOH HOH A . D 3 HOH 10 209 209 HOH HOH A . D 3 HOH 11 210 210 HOH HOH A . D 3 HOH 12 211 211 HOH HOH A . D 3 HOH 13 212 212 HOH HOH A . D 3 HOH 14 215 215 HOH HOH A . D 3 HOH 15 217 217 HOH HOH A . D 3 HOH 16 218 218 HOH HOH A . D 3 HOH 17 219 219 HOH HOH A . D 3 HOH 18 226 226 HOH HOH A . D 3 HOH 19 229 229 HOH HOH A . D 3 HOH 20 230 230 HOH HOH A . D 3 HOH 21 232 232 HOH HOH A . D 3 HOH 22 234 234 HOH HOH A . D 3 HOH 23 237 237 HOH HOH A . D 3 HOH 24 238 238 HOH HOH A . D 3 HOH 25 239 239 HOH HOH A . D 3 HOH 26 240 240 HOH HOH A . D 3 HOH 27 241 241 HOH HOH A . D 3 HOH 28 246 246 HOH HOH A . D 3 HOH 29 247 247 HOH HOH A . D 3 HOH 30 248 248 HOH HOH A . D 3 HOH 31 249 249 HOH HOH A . D 3 HOH 32 250 250 HOH HOH A . D 3 HOH 33 251 251 HOH HOH A . D 3 HOH 34 252 252 HOH HOH A . D 3 HOH 35 254 254 HOH HOH A . D 3 HOH 36 255 255 HOH HOH A . D 3 HOH 37 257 257 HOH HOH A . D 3 HOH 38 261 261 HOH HOH A . D 3 HOH 39 263 263 HOH HOH A . D 3 HOH 40 265 265 HOH HOH A . D 3 HOH 41 267 267 HOH HOH A . D 3 HOH 42 269 269 HOH HOH A . D 3 HOH 43 280 280 HOH HOH A . D 3 HOH 44 281 281 HOH HOH A . D 3 HOH 45 282 282 HOH HOH A . D 3 HOH 46 287 287 HOH HOH A . D 3 HOH 47 288 288 HOH HOH A . D 3 HOH 48 289 289 HOH HOH A . D 3 HOH 49 290 290 HOH HOH A . D 3 HOH 50 294 294 HOH HOH A . D 3 HOH 51 296 296 HOH HOH A . D 3 HOH 52 299 299 HOH HOH A . D 3 HOH 53 301 301 HOH HOH A . D 3 HOH 54 302 302 HOH HOH A . D 3 HOH 55 304 304 HOH HOH A . D 3 HOH 56 305 305 HOH HOH A . D 3 HOH 57 307 307 HOH HOH A . D 3 HOH 58 309 309 HOH HOH A . D 3 HOH 59 310 310 HOH HOH A . D 3 HOH 60 311 311 HOH HOH A . D 3 HOH 61 314 314 HOH HOH A . D 3 HOH 62 316 316 HOH HOH A . D 3 HOH 63 321 321 HOH HOH A . D 3 HOH 64 322 322 HOH HOH A . D 3 HOH 65 323 323 HOH HOH A . D 3 HOH 66 325 325 HOH HOH A . D 3 HOH 67 326 326 HOH HOH A . D 3 HOH 68 327 327 HOH HOH A . D 3 HOH 69 328 328 HOH HOH A . D 3 HOH 70 329 329 HOH HOH A . D 3 HOH 71 330 330 HOH HOH A . D 3 HOH 72 331 331 HOH HOH A . D 3 HOH 73 332 332 HOH HOH A . D 3 HOH 74 335 335 HOH HOH A . D 3 HOH 75 336 336 HOH HOH A . D 3 HOH 76 338 338 HOH HOH A . D 3 HOH 77 345 345 HOH HOH A . D 3 HOH 78 346 346 HOH HOH A . D 3 HOH 79 347 347 HOH HOH A . D 3 HOH 80 352 352 HOH HOH A . E 3 HOH 1 103 103 HOH HOH B . E 3 HOH 2 107 107 HOH HOH B . E 3 HOH 3 201 201 HOH HOH B . E 3 HOH 4 203 203 HOH HOH B . E 3 HOH 5 204 204 HOH HOH B . E 3 HOH 6 213 213 HOH HOH B . E 3 HOH 7 214 214 HOH HOH B . E 3 HOH 8 216 216 HOH HOH B . E 3 HOH 9 220 220 HOH HOH B . E 3 HOH 10 221 221 HOH HOH B . E 3 HOH 11 222 222 HOH HOH B . E 3 HOH 12 223 223 HOH HOH B . E 3 HOH 13 224 224 HOH HOH B . E 3 HOH 14 225 225 HOH HOH B . E 3 HOH 15 227 227 HOH HOH B . E 3 HOH 16 228 228 HOH HOH B . E 3 HOH 17 231 231 HOH HOH B . E 3 HOH 18 233 233 HOH HOH B . E 3 HOH 19 235 235 HOH HOH B . E 3 HOH 20 236 236 HOH HOH B . E 3 HOH 21 242 242 HOH HOH B . E 3 HOH 22 243 243 HOH HOH B . E 3 HOH 23 244 244 HOH HOH B . E 3 HOH 24 245 245 HOH HOH B . E 3 HOH 25 253 253 HOH HOH B . E 3 HOH 26 256 256 HOH HOH B . E 3 HOH 27 258 258 HOH HOH B . E 3 HOH 28 259 259 HOH HOH B . E 3 HOH 29 260 260 HOH HOH B . E 3 HOH 30 262 262 HOH HOH B . E 3 HOH 31 264 264 HOH HOH B . E 3 HOH 32 266 266 HOH HOH B . E 3 HOH 33 268 268 HOH HOH B . E 3 HOH 34 270 270 HOH HOH B . E 3 HOH 35 273 273 HOH HOH B . E 3 HOH 36 275 275 HOH HOH B . E 3 HOH 37 277 277 HOH HOH B . E 3 HOH 38 278 278 HOH HOH B . E 3 HOH 39 283 283 HOH HOH B . E 3 HOH 40 284 284 HOH HOH B . E 3 HOH 41 285 285 HOH HOH B . E 3 HOH 42 286 286 HOH HOH B . E 3 HOH 43 291 291 HOH HOH B . E 3 HOH 44 292 292 HOH HOH B . E 3 HOH 45 293 293 HOH HOH B . E 3 HOH 46 295 295 HOH HOH B . E 3 HOH 47 297 297 HOH HOH B . E 3 HOH 48 298 298 HOH HOH B . E 3 HOH 49 300 300 HOH HOH B . E 3 HOH 50 303 303 HOH HOH B . E 3 HOH 51 306 306 HOH HOH B . E 3 HOH 52 308 308 HOH HOH B . E 3 HOH 53 312 312 HOH HOH B . E 3 HOH 54 313 313 HOH HOH B . E 3 HOH 55 315 315 HOH HOH B . E 3 HOH 56 317 317 HOH HOH B . E 3 HOH 57 318 318 HOH HOH B . E 3 HOH 58 319 319 HOH HOH B . E 3 HOH 59 320 320 HOH HOH B . E 3 HOH 60 324 324 HOH HOH B . E 3 HOH 61 333 333 HOH HOH B . E 3 HOH 62 334 334 HOH HOH B . E 3 HOH 63 337 337 HOH HOH B . E 3 HOH 64 339 339 HOH HOH B . E 3 HOH 65 340 340 HOH HOH B . E 3 HOH 66 341 341 HOH HOH B . E 3 HOH 67 342 342 HOH HOH B . E 3 HOH 68 343 343 HOH HOH B . E 3 HOH 69 344 344 HOH HOH B . E 3 HOH 70 348 348 HOH HOH B . E 3 HOH 71 349 349 HOH HOH B . E 3 HOH 72 350 350 HOH HOH B . E 3 HOH 73 351 351 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.1.9999 ? 1 DENZO 'data reduction' . ? 2 SCALEPACK 'data scaling' . ? 3 AMoRE phasing . ? 4 # _cell.entry_id 1R3G _cell.length_a 25.111 _cell.length_b 43.151 _cell.length_c 45.558 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _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 1R3G _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? # _exptl.entry_id 1R3G _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.88 _exptl_crystal.density_percent_sol 34.70 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pdbx_details 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 1999-01-01 _diffrn_detector.details MIRRORS # _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 1.000 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 5ID-B' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 5ID-B _diffrn_source.pdbx_wavelength 1.000 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1R3G _reflns.observed_criterion_sigma_I 0.00 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 19.500 _reflns.d_resolution_high 1.160 _reflns.number_obs 17426 _reflns.number_all ? _reflns.percent_possible_obs 97.4 _reflns.pdbx_Rmerge_I_obs 0.06 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 5.00 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 1R3G _refine.ls_number_reflns_obs 16535 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.00 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 20.00 _refine.ls_d_res_high 1.16 _refine.ls_percent_reflns_obs 97.4 _refine.ls_R_factor_obs 0.134 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.132 _refine.ls_R_factor_R_free 0.174 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.100 _refine.ls_number_reflns_R_free 891 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.984 _refine.correlation_coeff_Fo_to_Fc_free 0.974 _refine.B_iso_mean 16.67 _refine.aniso_B[1][1] 0.29000 _refine.aniso_B[2][2] 0.15000 _refine.aniso_B[3][3] -0.44000 _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 'BABINET MODEL WITH 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 'MOLECULAR REPLACEMENT' _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 0.035 _refine.pdbx_overall_ESU_R_Free 0.039 _refine.overall_SU_ML 0.023 _refine.overall_SU_B 1.117 _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_phase_error ? _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_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 418 _refine_hist.pdbx_number_atoms_ligand 1 _refine_hist.number_atoms_solvent 156 _refine_hist.number_atoms_total 575 _refine_hist.d_res_high 1.16 _refine_hist.d_res_low 20.00 # 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 0.020 0.021 ? 466 'X-RAY DIFFRACTION' ? r_bond_other_d 0.009 0.020 ? 194 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.982 2.112 ? 716 'X-RAY DIFFRACTION' ? r_angle_other_deg 1.267 2.004 ? 486 '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 0.107 0.200 ? 80 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.031 0.020 ? 216 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined 0.179 0.200 ? 70 'X-RAY DIFFRACTION' ? r_nbd_other 0.239 0.200 ? 200 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other 0.074 0.200 ? 81 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.347 0.200 ? 117 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other 0.000 0.200 ? 1 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.248 0.200 ? 5 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 0.182 0.200 ? 44 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.298 0.200 ? 15 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it 3.047 3.000 ? 668 'X-RAY DIFFRACTION' ? r_scangle_it 3.930 4.500 ? 712 'X-RAY DIFFRACTION' ? r_rigid_bond_restr 2.209 3.000 ? 668 'X-RAY DIFFRACTION' ? r_sphericity_free 11.381 3.000 ? 92 'X-RAY DIFFRACTION' ? r_sphericity_bonded 7.752 3.000 ? 418 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.16 _refine_ls_shell.d_res_low 1.19 _refine_ls_shell.number_reflns_R_work 1136 _refine_ls_shell.R_factor_R_work 0.18 _refine_ls_shell.percent_reflns_obs ? _refine_ls_shell.R_factor_R_free 0.246 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 69 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.R_factor_all ? # _database_PDB_matrix.entry_id 1R3G _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 1R3G _struct.title ;1.16A X-ray structure of the synthetic DNA fragment with the incorporated 2'-O-[(2-Guanidinium)ethyl]-5-methyluridine residues ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1R3G _struct_keywords.pdbx_keywords DNA _struct_keywords.text DNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 3 ? E N N 3 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1R3G _struct_ref.pdbx_db_accession 1R3G _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # 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 1R3G A 1 ? 10 ? 1R3G 1 ? 10 ? 1 10 2 1 1R3G B 1 ? 10 ? 1R3G 11 ? 20 ? 11 20 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # _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.pdbx_parent_biol_id ? _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 covale1 covale both ? A DA 5 "O3'" ? ? ? 1_555 A GMU 6 P ? ? A DA 5 A GMU 6 1_555 ? ? ? ? ? ? ? 1.613 ? ? covale2 covale one ? A GMU 6 "O3'" ? ? ? 1_555 A DA 7 P ? ? A GMU 6 A DA 7 1_555 ? ? ? ? ? ? ? 1.620 ? ? covale3 covale both ? B DA 5 "O3'" ? ? ? 1_555 B GMU 6 P ? ? B DA 15 B GMU 16 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale4 covale one ? B GMU 6 "O3'" ? ? ? 1_555 B DA 7 P ? ? B GMU 16 B DA 17 1_555 ? ? ? ? ? ? ? 1.603 ? ? metalc1 metalc ? ? C MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 101 A HOH 102 1_555 ? ? ? ? ? ? ? 1.941 ? ? metalc2 metalc ? ? C MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 101 A HOH 104 1_555 ? ? ? ? ? ? ? 2.239 ? ? metalc3 metalc ? ? C MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 101 A HOH 105 1_555 ? ? ? ? ? ? ? 1.970 ? ? metalc4 metalc ? ? C MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 101 A HOH 106 1_555 ? ? ? ? ? ? ? 2.212 ? ? metalc5 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 101 B HOH 103 1_555 ? ? ? ? ? ? ? 1.961 ? ? metalc6 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 101 B HOH 107 1_555 ? ? ? ? ? ? ? 1.936 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DC 10 N3 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DC 10 O2 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DC 10 N4 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 9 N1 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 9 O6 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 9 N2 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 8 N3 ? ? A DG 3 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 8 O2 ? ? A DG 3 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 8 N4 ? ? A DG 3 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DT 4 N3 ? ? ? 1_555 B DA 7 N1 ? ? A DT 4 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DT 4 O4 ? ? ? 1_555 B DA 7 N6 ? ? A DT 4 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B GMU 6 N3 ? ? A DA 5 B GMU 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B GMU 6 O4 ? ? A DA 5 B GMU 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A GMU 6 N3 ? ? ? 1_555 B DA 5 N1 ? ? A GMU 6 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A GMU 6 O4 ? ? ? 1_555 B DA 5 N6 ? ? A GMU 6 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 7 N1 ? ? ? 1_555 B DT 4 N3 ? ? A DA 7 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DA 7 N6 ? ? ? 1_555 B DT 4 O4 ? ? A DA 7 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DG 9 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 9 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 9 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DC 10 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DC 10 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DC 10 O2 ? ? ? 1_555 B DG 1 N2 ? ? A DC 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? D HOH . ? A HOH 102 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 104 ? 1_555 96.9 ? 2 O ? D HOH . ? A HOH 102 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 105 ? 1_555 79.4 ? 3 O ? D HOH . ? A HOH 104 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 105 ? 1_555 172.1 ? 4 O ? D HOH . ? A HOH 102 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 106 ? 1_555 86.6 ? 5 O ? D HOH . ? A HOH 104 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 106 ? 1_555 100.9 ? 6 O ? D HOH . ? A HOH 105 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 106 ? 1_555 72.0 ? 7 O ? D HOH . ? A HOH 102 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? E HOH . ? B HOH 103 ? 1_555 168.6 ? 8 O ? D HOH . ? A HOH 104 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? E HOH . ? B HOH 103 ? 1_555 89.3 ? 9 O ? D HOH . ? A HOH 105 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? E HOH . ? B HOH 103 ? 1_555 93.2 ? 10 O ? D HOH . ? A HOH 106 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? E HOH . ? B HOH 103 ? 1_555 82.8 ? 11 O ? D HOH . ? A HOH 102 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? E HOH . ? B HOH 107 ? 1_555 97.9 ? 12 O ? D HOH . ? A HOH 104 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? E HOH . ? B HOH 107 ? 1_555 89.2 ? 13 O ? D HOH . ? A HOH 105 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? E HOH . ? B HOH 107 ? 1_555 98.2 ? 14 O ? D HOH . ? A HOH 106 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? E HOH . ? B HOH 107 ? 1_555 168.4 ? 15 O ? E HOH . ? B HOH 103 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? E HOH . ? B HOH 107 ? 1_555 91.7 ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id MG _struct_site.pdbx_auth_seq_id 101 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 6 _struct_site.details 'BINDING SITE FOR RESIDUE MG A 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 6 HOH D . ? HOH A 102 . ? 1_555 ? 2 AC1 6 HOH D . ? HOH A 104 . ? 1_555 ? 3 AC1 6 HOH D . ? HOH A 105 . ? 1_555 ? 4 AC1 6 HOH D . ? HOH A 106 . ? 1_555 ? 5 AC1 6 HOH E . ? HOH B 103 . ? 1_555 ? 6 AC1 6 HOH E . ? HOH B 107 . ? 1_555 ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 O _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 HOH _pdbx_validate_close_contact.auth_seq_id_1 238 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 267 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.15 # 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 P B DC 12 ? ? "O5'" B DC 12 ? ? 1.533 1.593 -0.060 0.010 N 2 1 "O3'" B DC 12 ? ? "C3'" B DC 12 ? ? 1.345 1.419 -0.074 0.006 N # 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 "O4'" A DC 10 ? ? "C4'" A DC 10 ? ? "C3'" A DC 10 ? ? 102.07 104.50 -2.43 0.40 N 2 1 "O4'" B DG 11 ? ? "C1'" B DG 11 ? ? N9 B DG 11 ? ? 115.26 108.30 6.96 0.30 N 3 1 C8 B DG 11 ? ? N9 B DG 11 ? ? C4 B DG 11 ? ? 103.07 106.40 -3.33 0.40 N 4 1 "C4'" B DT 14 ? ? "C3'" B DT 14 ? ? "C2'" B DT 14 ? ? 97.45 102.20 -4.75 0.70 N 5 1 N1 B DA 15 ? ? C2 B DA 15 ? ? N3 B DA 15 ? ? 125.68 129.30 -3.62 0.50 N 6 1 "O4'" B DG 19 ? ? "C1'" B DG 19 ? ? N9 B DG 19 ? ? 110.20 108.30 1.90 0.30 N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DG _pdbx_validate_planes.auth_asym_id B _pdbx_validate_planes.auth_seq_id 19 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.059 _pdbx_validate_planes.type 'SIDE CHAIN' # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A GMU 6 A GMU 6 ? DU ? 2 B GMU 6 B GMU 16 ? DU ? # _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 3.1610 _pdbx_refine_tls.origin_y 1.9710 _pdbx_refine_tls.origin_z 11.2670 _pdbx_refine_tls.T[1][1] -0.0094 _pdbx_refine_tls.T[2][2] 0.0022 _pdbx_refine_tls.T[3][3] -0.0094 _pdbx_refine_tls.T[1][2] -0.0076 _pdbx_refine_tls.T[1][3] 0.0030 _pdbx_refine_tls.T[2][3] 0.0063 _pdbx_refine_tls.L[1][1] 0.0216 _pdbx_refine_tls.L[2][2] 1.7930 _pdbx_refine_tls.L[3][3] 0.9385 _pdbx_refine_tls.L[1][2] -0.0828 _pdbx_refine_tls.L[1][3] 0.0694 _pdbx_refine_tls.L[2][3] 0.7607 _pdbx_refine_tls.S[1][1] 0.0287 _pdbx_refine_tls.S[1][2] 0.0480 _pdbx_refine_tls.S[1][3] -0.0098 _pdbx_refine_tls.S[2][1] 0.0730 _pdbx_refine_tls.S[2][2] -0.0280 _pdbx_refine_tls.S[2][3] -0.0443 _pdbx_refine_tls.S[3][1] 0.0465 _pdbx_refine_tls.S[3][2] 0.0023 _pdbx_refine_tls.S[3][3] -0.0008 _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' # _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_label_asym_id . _pdbx_refine_tls_group.beg_label_seq_id . _pdbx_refine_tls_group.beg_auth_seq_id 1 _pdbx_refine_tls_group.end_label_asym_id . _pdbx_refine_tls_group.end_label_seq_id . _pdbx_refine_tls_group.end_auth_seq_id 351 _pdbx_refine_tls_group.selection ? _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.end_auth_asym_id B _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.selection_details ? # 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 DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 GMU OP3 O N N 144 GMU P P N N 145 GMU OP2 O N N 146 GMU "O5'" O N N 147 GMU "C5'" C N N 148 GMU "C4'" C N R 149 GMU "O4'" O N N 150 GMU "C3'" C N R 151 GMU "O3'" O N N 152 GMU "C2'" C N R 153 GMU "C1'" C N R 154 GMU N1 N N N 155 GMU C2 C N N 156 GMU O2 O N N 157 GMU N3 N N N 158 GMU C6 C N N 159 GMU C5 C N N 160 GMU C5M C N N 161 GMU C4 C N N 162 GMU O4 O N N 163 GMU "O2'" O N N 164 GMU "CA'" C N N 165 GMU "CB'" C N N 166 GMU "NC'" N N N 167 GMU "CD'" C N N 168 GMU "NE'" N N N 169 GMU "NF'" N N N 170 GMU OP1 O N N 171 GMU H3P H N N 172 GMU H2P H N N 173 GMU "H5'" H N N 174 GMU "H5''" H N N 175 GMU "H4'" H N N 176 GMU H1 H N N 177 GMU "H3'" H N N 178 GMU "H2'" H N N 179 GMU "H1'" H N N 180 GMU HN3 H N N 181 GMU H6 H N N 182 GMU H71 H N N 183 GMU H72 H N N 184 GMU H73 H N N 185 GMU "HA'1" H N N 186 GMU "HA'2" H N N 187 GMU "HB'1" H N N 188 GMU "HB'2" H N N 189 GMU "HC'" H N N 190 GMU "HD'" H N N 191 GMU "HE'1" H N N 192 GMU "HE'2" H N N 193 GMU "HF'1" H N N 194 GMU "HF'2" H N N 195 HOH O O N N 196 HOH H1 H N N 197 HOH H2 H N N 198 MG MG MG N N 199 # 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 DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 GMU OP3 P sing N N 150 GMU OP3 H3P sing N N 151 GMU P OP2 sing N N 152 GMU P "O5'" sing N N 153 GMU P OP1 doub N N 154 GMU OP2 H2P sing N N 155 GMU "O5'" "C5'" sing N N 156 GMU "C5'" "C4'" sing N N 157 GMU "C5'" "H5'" sing N N 158 GMU "C5'" "H5''" sing N N 159 GMU "C4'" "O4'" sing N N 160 GMU "C4'" "C3'" sing N N 161 GMU "C4'" "H4'" sing N N 162 GMU "O4'" "C1'" sing N N 163 GMU "C3'" "O3'" sing N N 164 GMU "C3'" "C2'" sing N N 165 GMU "C3'" H1 sing N N 166 GMU "O3'" "H3'" sing N N 167 GMU "C2'" "C1'" sing N N 168 GMU "C2'" "O2'" sing N N 169 GMU "C2'" "H2'" sing N N 170 GMU "C1'" N1 sing N N 171 GMU "C1'" "H1'" sing N N 172 GMU N1 C2 sing N N 173 GMU N1 C6 sing N N 174 GMU C2 O2 doub N N 175 GMU C2 N3 sing N N 176 GMU N3 C4 sing N N 177 GMU N3 HN3 sing N N 178 GMU C6 C5 doub N N 179 GMU C6 H6 sing N N 180 GMU C5 C5M sing N N 181 GMU C5 C4 sing N N 182 GMU C5M H71 sing N N 183 GMU C5M H72 sing N N 184 GMU C5M H73 sing N N 185 GMU C4 O4 doub N N 186 GMU "O2'" "CA'" sing N N 187 GMU "CA'" "CB'" sing N N 188 GMU "CA'" "HA'1" sing N N 189 GMU "CA'" "HA'2" sing N N 190 GMU "CB'" "NC'" sing N N 191 GMU "CB'" "HB'1" sing N N 192 GMU "CB'" "HB'2" sing N N 193 GMU "NC'" "CD'" sing N N 194 GMU "NC'" "HC'" sing N N 195 GMU "CD'" "NE'" sing N N 196 GMU "CD'" "NF'" sing N N 197 GMU "CD'" "HD'" sing N N 198 GMU "NE'" "HE'1" sing N N 199 GMU "NE'" "HE'2" sing N N 200 GMU "NF'" "HF'1" sing N N 201 GMU "NF'" "HF'2" sing N N 202 HOH O H1 sing N N 203 HOH O H2 sing N N 204 # _ndb_struct_conf_na.entry_id 1R3G _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 DG 1 1_555 B DC 10 1_555 -0.318 -0.157 0.103 2.188 -6.377 -1.747 1 A_DG1:DC20_B A 1 ? B 20 ? 19 1 1 A DC 2 1_555 B DG 9 1_555 0.070 -0.111 0.042 4.937 -14.563 0.051 2 A_DC2:DG19_B A 2 ? B 19 ? 19 1 1 A DG 3 1_555 B DC 8 1_555 -0.277 -0.155 0.064 -7.196 -17.273 0.102 3 A_DG3:DC18_B A 3 ? B 18 ? 19 1 1 A DT 4 1_555 B DA 7 1_555 -0.125 -0.153 -0.016 -5.239 -17.867 -0.526 4 A_DT4:DA17_B A 4 ? B 17 ? 20 1 1 A DA 5 1_555 B GMU 6 1_555 0.150 -0.081 0.140 -4.062 -14.808 -5.074 5 A_DA5:GMU16_B A 5 ? B 16 ? 20 1 1 A GMU 6 1_555 B DA 5 1_555 -0.074 -0.103 0.223 3.673 -14.026 4.479 6 A_GMU6:DA15_B A 6 ? B 15 ? 20 1 1 A DA 7 1_555 B DT 4 1_555 0.052 -0.164 0.096 4.355 -12.445 1.239 7 A_DA7:DT14_B A 7 ? B 14 ? 20 1 1 A DC 8 1_555 B DG 3 1_555 0.195 -0.173 0.006 4.925 -14.272 -0.778 8 A_DC8:DG13_B A 8 ? B 13 ? 19 1 1 A DG 9 1_555 B DC 2 1_555 -0.135 -0.141 0.019 -5.179 -9.976 0.881 9 A_DG9:DC12_B A 9 ? B 12 ? 19 1 1 A DC 10 1_555 B DG 1 1_555 0.225 -0.143 0.057 -2.862 5.248 -0.700 10 A_DC10:DG11_B A 10 ? B 11 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DG 1 1_555 B DC 10 1_555 A DC 2 1_555 B DG 9 1_555 0.398 -1.623 3.212 1.770 0.441 38.617 -2.505 -0.388 3.208 0.667 -2.675 38.659 1 AA_DG1DC2:DG19DC20_BB A 1 ? B 20 ? A 2 ? B 19 ? 1 A DC 2 1_555 B DG 9 1_555 A DG 3 1_555 B DC 8 1_555 0.105 -2.072 3.409 0.228 12.207 27.143 -6.377 -0.162 2.286 24.497 -0.458 29.715 2 AA_DC2DG3:DC18DG19_BB A 2 ? B 19 ? A 3 ? B 18 ? 1 A DG 3 1_555 B DC 8 1_555 A DT 4 1_555 B DA 7 1_555 -1.007 -1.372 3.104 -2.022 5.342 37.063 -2.785 1.320 2.934 8.343 3.158 37.485 3 AA_DG3DT4:DA17DC18_BB A 3 ? B 18 ? A 4 ? B 17 ? 1 A DT 4 1_555 B DA 7 1_555 A DA 5 1_555 B GMU 6 1_555 0.710 -1.465 3.175 2.098 20.372 26.036 -5.463 -0.952 1.673 38.525 -3.968 33.016 4 AA_DT4DA5:GMU16DA17_BB A 4 ? B 17 ? A 5 ? B 16 ? 1 A DA 5 1_555 B GMU 6 1_555 A GMU 6 1_555 B DA 5 1_555 0.835 -1.275 3.092 1.027 4.842 31.823 -3.095 -1.337 2.896 8.764 -1.859 32.196 5 AA_DA5GMU6:DA15GMU16_BB A 5 ? B 16 ? A 6 ? B 15 ? 1 A GMU 6 1_555 B DA 5 1_555 A DA 7 1_555 B DT 4 1_555 -0.075 -1.367 3.086 0.513 12.943 32.177 -4.026 0.195 2.375 22.258 -0.883 34.622 6 AA_GMU6DA7:DT14DA15_BB A 6 ? B 15 ? A 7 ? B 14 ? 1 A DA 7 1_555 B DT 4 1_555 A DC 8 1_555 B DG 3 1_555 0.301 -1.839 3.317 1.318 4.101 31.972 -4.025 -0.311 3.074 7.403 -2.379 32.253 7 AA_DA7DC8:DG13DT14_BB A 7 ? B 14 ? A 8 ? B 13 ? 1 A DC 8 1_555 B DG 3 1_555 A DG 9 1_555 B DC 2 1_555 -0.235 -1.937 3.412 0.608 11.845 26.195 -6.357 0.599 2.329 24.594 -1.262 28.712 8 AA_DC8DG9:DC12DG13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A DG 9 1_555 B DC 2 1_555 A DC 10 1_555 B DG 1 1_555 0.157 -1.565 3.386 1.569 -1.084 35.138 -2.420 -0.015 3.434 -1.793 -2.596 35.188 9 AA_DG9DC10:DG11DC12_BB A 9 ? B 12 ? A 10 ? B 11 ? # _atom_sites.entry_id 1R3G _atom_sites.fract_transf_matrix[1][1] 0.039823 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.023174 _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] 0.021950 _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 MG N O P # loop_