data_1EN3 # _entry.id 1EN3 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _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 1EN3 pdb_00001en3 10.2210/pdb1en3/pdb NDB BD0033 ? ? RCSB RCSB010739 ? ? WWPDB D_1000010739 ? ? # 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 2000-09-25 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-07 5 'Structure model' 1 4 2024-04-03 # _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' 6 5 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 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 7 5 'Structure model' pdbx_initial_refinement_model # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 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.ptnr1_label_alt_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_alt_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_alt_id' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 12 4 'Structure model' '_pdbx_struct_conn_angle.value' 13 4 'Structure model' '_struct_conn.pdbx_dist_value' 14 4 'Structure model' '_struct_conn.pdbx_ptnr1_label_alt_id' 15 4 'Structure model' '_struct_conn.pdbx_ptnr2_label_alt_id' 16 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 17 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 18 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 19 4 'Structure model' '_struct_conn.ptnr2_symmetry' 20 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 21 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 22 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1EN3 _pdbx_database_status.recvd_initial_deposition_date 2000-03-20 _pdbx_database_status.deposit_site NDB _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type NDB BD0034 . unspecified NDB BD0035 . unspecified NDB BD0036 . unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Chiu, T.K.' 1 'Dickerson, R.E.' 2 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary '1 A crystal structures of B-DNA reveal sequence-specific binding and groove-specific bending of DNA by magnesium and calcium.' J.Mol.Biol. 301 915 945 2000 JMOBAK UK 0022-2836 0070 ? 10966796 10.1006/jmbi.2000.4012 1 'Absence of minor groove monovalent cations in the crosslinked dodecamer CGCGAATTCGCG.' J.Mol.Biol. 292 589 608 1999 JMOBAK UK 0022-2836 0070 ? ? 10.1006/jmbi.1999.3075 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chiu, T.K.' 1 ? primary 'Dickerson, R.E.' 2 ? 1 'Chiu, T.K.' 3 ? 1 'Kaczor-Grzeskowiak, M.' 4 ? 1 'Dickerson, R.E.' 5 ? # 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 ;DNA (5'-D(*CP*CP*AP*AP*CP*GP*TP*TP*GP*G)-3') ; 3045.004 1 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 4 ? ? ? ? 3 water nat water 18.015 76 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DC)(DC)(DA)(DA)(DC)(DG)(DT)(DT)(DG)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CCAACGTTGG _entity_poly.pdbx_strand_id A _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 DC n 1 2 DC n 1 3 DA n 1 4 DA n 1 5 DC n 1 6 DG n 1 7 DT n 1 8 DT n 1 9 DG n 1 10 DG 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 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 DC 1 1 1 DC C A . n A 1 2 DC 2 2 2 DC C A . n A 1 3 DA 3 3 3 DA A A . n A 1 4 DA 4 4 4 DA A A . n A 1 5 DC 5 5 5 DC C A . n A 1 6 DG 6 6 6 DG G A . n A 1 7 DT 7 7 7 DT T A . n A 1 8 DT 8 8 8 DT T A . n A 1 9 DG 9 9 9 DG G A . n A 1 10 DG 10 10 10 DG G A . 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 B 2 MG 1 111 111 MG MO3 A . C 2 MG 1 112 112 MG MO6 A . D 2 MG 1 114 114 MG MO6 A . E 2 MG 1 113 113 MG MO6 A . F 3 HOH 1 201 201 HOH HOH A . F 3 HOH 2 202 202 HOH HOH A . F 3 HOH 3 203 203 HOH HOH A . F 3 HOH 4 204 204 HOH HOH A . F 3 HOH 5 205 205 HOH HOH A . F 3 HOH 6 206 206 HOH HOH A . F 3 HOH 7 207 207 HOH HOH A . F 3 HOH 8 208 208 HOH HOH A . F 3 HOH 9 209 209 HOH HOH A . F 3 HOH 10 210 210 HOH HOH A . F 3 HOH 11 211 211 HOH HOH A . F 3 HOH 12 212 212 HOH HOH A . F 3 HOH 13 213 213 HOH HOH A . F 3 HOH 14 214 214 HOH HOH A . F 3 HOH 15 215 215 HOH HOH A . F 3 HOH 16 216 216 HOH HOH A . F 3 HOH 17 217 217 HOH HOH A . F 3 HOH 18 218 218 HOH HOH A . F 3 HOH 19 219 219 HOH HOH A . F 3 HOH 20 220 220 HOH HOH A . F 3 HOH 21 221 221 HOH HOH A . F 3 HOH 22 222 222 HOH HOH A . F 3 HOH 23 223 223 HOH HOH A . F 3 HOH 24 224 224 HOH HOH A . F 3 HOH 25 225 225 HOH HOH A . F 3 HOH 26 226 226 HOH HOH A . F 3 HOH 27 227 227 HOH HOH A . F 3 HOH 28 228 228 HOH HOH A . F 3 HOH 29 229 229 HOH HOH A . F 3 HOH 30 230 230 HOH HOH A . F 3 HOH 31 231 231 HOH HOH A . F 3 HOH 32 232 232 HOH HOH A . F 3 HOH 33 233 233 HOH HOH A . F 3 HOH 34 234 234 HOH HOH A . F 3 HOH 35 235 235 HOH HOH A . F 3 HOH 36 238 238 HOH HOH A . F 3 HOH 37 239 239 HOH HOH A . F 3 HOH 38 240 240 HOH HOH A . F 3 HOH 39 242 242 HOH HOH A . F 3 HOH 40 243 243 HOH HOH A . F 3 HOH 41 245 245 HOH HOH A . F 3 HOH 42 247 247 HOH HOH A . F 3 HOH 43 248 248 HOH HOH A . F 3 HOH 44 250 250 HOH HOH A . F 3 HOH 45 251 251 HOH HOH A . F 3 HOH 46 252 252 HOH HOH A . F 3 HOH 47 254 254 HOH HOH A . F 3 HOH 48 256 256 HOH HOH A . F 3 HOH 49 259 259 HOH HOH A . F 3 HOH 50 262 262 HOH HOH A . F 3 HOH 51 266 266 HOH HOH A . F 3 HOH 52 1210 1210 HOH HOH A . F 3 HOH 53 1271 1271 HOH HOH A . F 3 HOH 54 1281 1281 HOH HOH A . F 3 HOH 55 1317 1317 HOH HOH A . F 3 HOH 56 1318 111 HOH MO3 A . F 3 HOH 57 1319 111 HOH MO3 A . F 3 HOH 58 1320 111 HOH MO3 A . F 3 HOH 59 1321 112 HOH MO6 A . F 3 HOH 60 1322 112 HOH MO6 A . F 3 HOH 61 1323 112 HOH MO6 A . F 3 HOH 62 1324 112 HOH MO6 A . F 3 HOH 63 1325 112 HOH MO6 A . F 3 HOH 64 1326 112 HOH MO6 A . F 3 HOH 65 1327 114 HOH MO6 A . F 3 HOH 66 1328 114 HOH MO6 A . F 3 HOH 67 1329 114 HOH MO6 A . F 3 HOH 68 1330 114 HOH MO6 A . F 3 HOH 69 1331 114 HOH MO6 A . F 3 HOH 70 1332 114 HOH MO6 A . F 3 HOH 71 1333 113 HOH MO6 A . F 3 HOH 72 1334 113 HOH MO6 A . F 3 HOH 73 1335 113 HOH MO6 A . F 3 HOH 74 1336 113 HOH MO6 A . F 3 HOH 75 1337 113 HOH MO6 A . F 3 HOH 76 1338 113 HOH MO6 A . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' . ? 1 SHELXL-97 refinement . ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 X-PLOR phasing . ? 5 # _cell.entry_id 1EN3 _cell.length_a 32.001 _cell.length_b 25.369 _cell.length_c 33.633 _cell.angle_alpha 90.00 _cell.angle_beta 112.98 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1EN3 _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 # _exptl.entry_id 1EN3 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.08 _exptl_crystal.density_percent_sol 37.90 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 275.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pdbx_details ;INITIAL CONCENTRATION IN DROPLET: 0.24 MM DNA, 8.57 MM MAGNESIUM ACETATE, 0.11 MM STREPTONIGRIN, 10-15% MPD, 45% FINAL MPD CONCENTRATION IN RESERVOIR. SOLUTIONS WERE UNBUFFERED, VAPOR DIFFUSION, SITTING DROP, temperature 275.0K ; _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 'MAGNESIUM ACETATE' ? ? ? 1 2 1 STREPTONIGRIN ? ? ? 1 3 1 MPD ? ? ? 1 4 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 1998-11-19 _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 0.9500 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'NSLS BEAMLINE X8C' _diffrn_source.pdbx_synchrotron_site NSLS _diffrn_source.pdbx_synchrotron_beamline X8C _diffrn_source.pdbx_wavelength 0.9500 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1EN3 _reflns.observed_criterion_sigma_I -1.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 8.0 _reflns.d_resolution_high 0.985 _reflns.number_obs 13464 _reflns.number_all 13464 _reflns.percent_possible_obs 95.0 _reflns.pdbx_Rmerge_I_obs 0.0470000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 21.6 _reflns.B_iso_Wilson_estimate 5.3 _reflns.pdbx_redundancy 5.75 _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 0.985 _reflns_shell.d_res_low 1.016 _reflns_shell.percent_possible_all 90.7 _reflns_shell.Rmerge_I_obs 0.1230000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 7.4 _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1EN3 _refine.ls_number_reflns_obs 13464 _refine.ls_number_reflns_all 13464 _refine.pdbx_ls_sigma_I 0 _refine.pdbx_ls_sigma_F 0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 8.0 _refine.ls_d_res_high 0.985 _refine.ls_percent_reflns_obs 95 _refine.ls_R_factor_obs 0.1409000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.1409000 _refine.ls_R_factor_R_free 0.1592000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5 _refine.ls_number_reflns_R_free 631 _refine.ls_number_parameters 17441 _refine.ls_number_restraints 2945 _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details 'SWAT 0.814695 0.4550' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ;REFINEMENT STARTED IN X-PLOR 3.843 WITH DNA MODEL FROM BDJ019. AFTER ALL DATA HAS BEEN ADDED AND REFINED BY SIMULATED ANNEALING IN X-PLOR 3.843, REFINEMENT CONTINUED BY CONJUGATE GRADIENT LEAST-SQUARES IN SHELXL-97. THE TOP 50 MOST DISAGREEABLE REFLECTIONS WERE REJECTED TOWARDS THE LATTER STAGES OF REFINEMENT BUT THESE ARE STILL INCLUDED IN THE RELEASED DATA. ; _refine.pdbx_starting_model BDJ019 _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'PARKINSON ET AL.' _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.ls_redundancy_reflns_obs ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _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.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 1EN3 _refine_analyze.Luzzati_coordinate_error_obs ? _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues 14 _refine_analyze.occupancy_sum_hydrogen 114.0 _refine_analyze.occupancy_sum_non_hydrogen 272.84 _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 364 _refine_hist.pdbx_number_atoms_ligand 32 _refine_hist.number_atoms_solvent 61 _refine_hist.number_atoms_total 457 _refine_hist.d_res_high 0.985 _refine_hist.d_res_low 8.0 # 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 s_bond_d 0.018 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.049 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist ? ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes ? ? ? ? 'X-RAY DIFFRACTION' ? s_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr 0.019 ? ? ? 'X-RAY DIFFRACTION' ? s_rigid_bond_adp_cmpnt 0.006 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_adp_cmpnt 0.026 ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps 0.072 ? ? ? 'X-RAY DIFFRACTION' ? # _pdbx_refine.entry_id 1EN3 _pdbx_refine.R_factor_all_no_cutoff ? _pdbx_refine.R_factor_obs_no_cutoff ? _pdbx_refine.free_R_factor_no_cutoff ? _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff ? _pdbx_refine.free_R_val_test_set_ct_no_cutoff ? _pdbx_refine.R_factor_all_4sig_cutoff ? _pdbx_refine.R_factor_obs_4sig_cutoff 0.1391000 _pdbx_refine.free_R_factor_4sig_cutoff 0.1545000 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 5 _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 592 _pdbx_refine.number_reflns_obs_4sig_cutoff 12786 _pdbx_refine.number_reflns_obs_no_cutoff ? _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.free_R_error_no_cutoff ? # _database_PDB_matrix.entry_id 1EN3 _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 1EN3 _struct.title '1A CRYSTAL STRUCTURES OF B-DNA REVEAL SEQUENCE-SPECIFIC BINDING AND GROOVE-SPECIFIC BENDING OF DNA BY MAGNESIUM AND CALCIUM' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1EN3 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'DIVALENT CATIONS, DNA SEQUENCE-SPECIFIC BINDING, SHELXDNA, B-DNA, 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 2 ? C N N 2 ? D N N 2 ? E N N 2 ? F N N 3 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1EN3 _struct_ref.pdbx_db_accession 1EN3 _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1EN3 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 10 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 1EN3 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 10 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 10 # _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 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 2_656 -x+1,y,-z+1 -1.0000000000 0.0000000000 0.0000000000 18.8703476042 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 30.9639250848 # _struct_biol.id 1 # 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 metalc1 metalc ? ? B MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 111 A HOH 1318 1_555 ? ? ? ? ? ? ? 2.047 ? ? metalc2 metalc ? ? B MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 111 A HOH 1318 2_655 ? ? ? ? ? ? ? 2.046 ? ? metalc3 metalc ? ? B MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 111 A HOH 1319 1_555 ? ? ? ? ? ? ? 2.090 ? ? metalc4 metalc ? ? B MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 111 A HOH 1319 2_655 ? ? ? ? ? ? ? 2.091 ? ? metalc5 metalc ? ? B MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 111 A HOH 1320 1_555 ? ? ? ? ? ? ? 2.120 ? ? metalc6 metalc ? ? B MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 111 A HOH 1320 2_655 ? ? ? ? ? ? ? 2.120 ? ? metalc7 metalc ? ? C MG . MG A ? ? 1_555 F HOH . O A ? A MG 112 A HOH 1321 1_555 ? ? ? ? ? ? ? 2.075 ? ? metalc8 metalc ? ? C MG . MG A ? ? 1_555 F HOH . O A ? A MG 112 A HOH 1322 1_555 ? ? ? ? ? ? ? 2.076 ? ? metalc9 metalc ? ? C MG . MG A ? ? 1_555 F HOH . O A ? A MG 112 A HOH 1323 1_555 ? ? ? ? ? ? ? 2.065 ? ? metalc10 metalc ? ? C MG . MG A ? ? 1_555 F HOH . O A ? A MG 112 A HOH 1324 1_555 ? ? ? ? ? ? ? 2.065 ? ? metalc11 metalc ? ? C MG . MG A ? ? 1_555 F HOH . O A ? A MG 112 A HOH 1325 1_555 ? ? ? ? ? ? ? 2.094 ? ? metalc12 metalc ? ? C MG . MG A ? ? 1_555 F HOH . O A ? A MG 112 A HOH 1326 1_555 ? ? ? ? ? ? ? 2.071 ? ? metalc13 metalc ? ? E MG . MG A ? ? 1_555 F HOH . O A ? A MG 113 A HOH 1333 1_555 ? ? ? ? ? ? ? 2.080 ? ? metalc14 metalc ? ? E MG . MG B ? ? 1_555 F HOH . O B ? A MG 113 A HOH 1333 1_555 ? ? ? ? ? ? ? 2.077 ? ? metalc15 metalc ? ? E MG . MG A ? ? 1_555 F HOH . O A ? A MG 113 A HOH 1334 1_555 ? ? ? ? ? ? ? 2.073 ? ? metalc16 metalc ? ? E MG . MG B ? ? 1_555 F HOH . O B ? A MG 113 A HOH 1334 1_555 ? ? ? ? ? ? ? 2.086 ? ? metalc17 metalc ? ? E MG . MG A ? ? 1_555 F HOH . O A ? A MG 113 A HOH 1335 1_555 ? ? ? ? ? ? ? 2.064 ? ? metalc18 metalc ? ? E MG . MG B ? ? 1_555 F HOH . O B ? A MG 113 A HOH 1335 1_555 ? ? ? ? ? ? ? 2.088 ? ? metalc19 metalc ? ? E MG . MG A ? ? 1_555 F HOH . O A ? A MG 113 A HOH 1336 1_555 ? ? ? ? ? ? ? 2.073 ? ? metalc20 metalc ? ? E MG . MG B ? ? 1_555 F HOH . O B ? A MG 113 A HOH 1336 1_555 ? ? ? ? ? ? ? 2.084 ? ? metalc21 metalc ? ? E MG . MG A ? ? 1_555 F HOH . O A ? A MG 113 A HOH 1337 1_555 ? ? ? ? ? ? ? 2.131 ? ? metalc22 metalc ? ? E MG . MG B ? ? 1_555 F HOH . O B ? A MG 113 A HOH 1337 1_555 ? ? ? ? ? ? ? 2.084 ? ? metalc23 metalc ? ? E MG . MG A ? ? 1_555 F HOH . O A ? A MG 113 A HOH 1338 1_555 ? ? ? ? ? ? ? 2.091 ? ? metalc24 metalc ? ? E MG . MG B ? ? 1_555 F HOH . O B ? A MG 113 A HOH 1338 1_555 ? ? ? ? ? ? ? 2.082 ? ? metalc25 metalc ? ? D MG . MG B ? ? 1_555 F HOH . O B ? A MG 114 A HOH 1327 1_555 ? ? ? ? ? ? ? 2.065 ? ? metalc26 metalc ? ? D MG . MG B ? ? 1_555 F HOH . O B ? A MG 114 A HOH 1328 1_555 ? ? ? ? ? ? ? 2.052 ? ? metalc27 metalc ? ? D MG . MG B ? ? 1_555 F HOH . O B ? A MG 114 A HOH 1329 1_555 ? ? ? ? ? ? ? 2.062 ? ? metalc28 metalc ? ? D MG . MG B ? ? 1_555 F HOH . O B ? A MG 114 A HOH 1330 1_555 ? ? ? ? ? ? ? 2.087 ? ? metalc29 metalc ? ? D MG . MG B ? ? 1_555 F HOH . O B ? A MG 114 A HOH 1331 1_555 ? ? ? ? ? ? ? 2.087 ? ? metalc30 metalc ? ? D MG . MG B ? ? 1_555 F HOH . O B ? A MG 114 A HOH 1332 1_555 ? ? ? ? ? ? ? 2.107 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 A DG 10 N1 ? ? A DC 1 A DG 10 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 A DG 10 O6 ? ? A DC 1 A DG 10 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 A DG 10 N2 ? ? A DC 1 A DG 10 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 A DG 9 N1 ? ? A DC 2 A DG 9 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 A DG 9 O6 ? ? A DC 2 A DG 9 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 A DG 9 N2 ? ? A DC 2 A DG 9 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DA 3 N1 ? ? ? 1_555 A DT 8 N3 ? ? A DA 3 A DT 8 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DA 3 N6 ? ? ? 1_555 A DT 8 O4 ? ? A DA 3 A DT 8 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DA 4 N1 ? ? ? 1_555 A DT 7 N3 ? ? A DA 4 A DT 7 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 4 N6 ? ? ? 1_555 A DT 7 O4 ? ? A DA 4 A DT 7 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 N3 ? ? ? 1_555 A DG 6 N1 ? ? A DC 5 A DG 6 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 N4 ? ? ? 1_555 A DG 6 O6 ? ? A DC 5 A DG 6 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 O2 ? ? ? 1_555 A DG 6 N2 ? ? A DC 5 A DG 6 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DG 6 N1 ? ? ? 1_555 A DC 5 N3 ? ? A DG 6 A DC 5 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 6 N2 ? ? ? 1_555 A DC 5 O2 ? ? A DG 6 A DC 5 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 O6 ? ? ? 1_555 A DC 5 N4 ? ? A DG 6 A DC 5 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 7 N3 ? ? ? 1_555 A DA 4 N1 ? ? A DT 7 A DA 4 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DT 7 O4 ? ? ? 1_555 A DA 4 N6 ? ? A DT 7 A DA 4 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 A DA 3 N1 ? ? A DT 8 A DA 3 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 A DA 3 N6 ? ? A DT 8 A DA 3 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DG 9 N1 ? ? ? 1_555 A DC 2 N3 ? ? A DG 9 A DC 2 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 9 N2 ? ? ? 1_555 A DC 2 O2 ? ? A DG 9 A DC 2 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 9 O6 ? ? ? 1_555 A DC 2 N4 ? ? A DG 9 A DC 2 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 N1 ? ? ? 1_555 A DC 1 N3 ? ? A DG 10 A DC 1 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 N2 ? ? ? 1_555 A DC 1 O2 ? ? A DG 10 A DC 1 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 O6 ? ? ? 1_555 A DC 1 N4 ? ? A DG 10 A DC 1 2_656 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference 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 ? F HOH . ? A HOH 1318 ? 1_555 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1318 ? 2_655 179.8 ? 2 O ? F HOH . ? A HOH 1318 ? 1_555 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1319 ? 1_555 89.8 ? 3 O ? F HOH . ? A HOH 1318 ? 2_655 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1319 ? 1_555 90.1 ? 4 O ? F HOH . ? A HOH 1318 ? 1_555 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1319 ? 2_655 90.1 ? 5 O ? F HOH . ? A HOH 1318 ? 2_655 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1319 ? 2_655 89.8 ? 6 O ? F HOH . ? A HOH 1319 ? 1_555 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1319 ? 2_655 90.0 ? 7 O ? F HOH . ? A HOH 1318 ? 1_555 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1320 ? 1_555 89.7 ? 8 O ? F HOH . ? A HOH 1318 ? 2_655 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1320 ? 1_555 90.4 ? 9 O ? F HOH . ? A HOH 1319 ? 1_555 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1320 ? 1_555 87.3 ? 10 O ? F HOH . ? A HOH 1319 ? 2_655 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1320 ? 1_555 177.4 ? 11 O ? F HOH . ? A HOH 1318 ? 1_555 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1320 ? 2_655 90.4 ? 12 O ? F HOH . ? A HOH 1318 ? 2_655 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1320 ? 2_655 89.7 ? 13 O ? F HOH . ? A HOH 1319 ? 1_555 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1320 ? 2_655 177.3 ? 14 O ? F HOH . ? A HOH 1319 ? 2_655 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1320 ? 2_655 87.3 ? 15 O ? F HOH . ? A HOH 1320 ? 1_555 MG ? B MG . ? A MG 111 ? 1_555 O ? F HOH . ? A HOH 1320 ? 2_655 95.3 ? 16 O A F HOH . ? A HOH 1321 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1322 ? 1_555 176.9 ? 17 O A F HOH . ? A HOH 1321 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1323 ? 1_555 90.6 ? 18 O A F HOH . ? A HOH 1322 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1323 ? 1_555 90.8 ? 19 O A F HOH . ? A HOH 1321 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1324 ? 1_555 89.4 ? 20 O A F HOH . ? A HOH 1322 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1324 ? 1_555 89.3 ? 21 O A F HOH . ? A HOH 1323 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1324 ? 1_555 175.8 ? 22 O A F HOH . ? A HOH 1321 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1325 ? 1_555 92.5 ? 23 O A F HOH . ? A HOH 1322 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1325 ? 1_555 90.3 ? 24 O A F HOH . ? A HOH 1323 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1325 ? 1_555 86.4 ? 25 O A F HOH . ? A HOH 1324 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1325 ? 1_555 89.4 ? 26 O A F HOH . ? A HOH 1321 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1326 ? 1_555 87.7 ? 27 O A F HOH . ? A HOH 1322 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1326 ? 1_555 89.6 ? 28 O A F HOH . ? A HOH 1323 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1326 ? 1_555 90.9 ? 29 O A F HOH . ? A HOH 1324 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1326 ? 1_555 93.3 ? 30 O A F HOH . ? A HOH 1325 ? 1_555 MG A C MG . ? A MG 112 ? 1_555 O A F HOH . ? A HOH 1326 ? 1_555 177.3 ? 31 O A F HOH . ? A HOH 1333 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1334 ? 1_555 178.0 ? 32 O A F HOH . ? A HOH 1333 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1335 ? 1_555 92.6 ? 33 O A F HOH . ? A HOH 1334 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1335 ? 1_555 88.9 ? 34 O A F HOH . ? A HOH 1333 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1336 ? 1_555 90.7 ? 35 O A F HOH . ? A HOH 1334 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1336 ? 1_555 87.8 ? 36 O A F HOH . ? A HOH 1335 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1336 ? 1_555 176.0 ? 37 O A F HOH . ? A HOH 1333 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1337 ? 1_555 90.7 ? 38 O A F HOH . ? A HOH 1334 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1337 ? 1_555 90.7 ? 39 O A F HOH . ? A HOH 1335 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1337 ? 1_555 87.8 ? 40 O A F HOH . ? A HOH 1336 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1337 ? 1_555 94.4 ? 41 O A F HOH . ? A HOH 1333 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1338 ? 1_555 88.9 ? 42 O A F HOH . ? A HOH 1334 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1338 ? 1_555 89.8 ? 43 O A F HOH . ? A HOH 1335 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1338 ? 1_555 90.6 ? 44 O A F HOH . ? A HOH 1336 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1338 ? 1_555 87.2 ? 45 O A F HOH . ? A HOH 1337 ? 1_555 MG A E MG . ? A MG 113 ? 1_555 O A F HOH . ? A HOH 1338 ? 1_555 178.3 ? 46 O B F HOH . ? A HOH 1333 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1334 ? 1_555 179.6 ? 47 O B F HOH . ? A HOH 1333 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1335 ? 1_555 90.8 ? 48 O B F HOH . ? A HOH 1334 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1335 ? 1_555 89.3 ? 49 O B F HOH . ? A HOH 1333 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1336 ? 1_555 89.8 ? 50 O B F HOH . ? A HOH 1334 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1336 ? 1_555 90.1 ? 51 O B F HOH . ? A HOH 1335 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1336 ? 1_555 178.6 ? 52 O B F HOH . ? A HOH 1333 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1337 ? 1_555 91.7 ? 53 O B F HOH . ? A HOH 1334 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1337 ? 1_555 87.9 ? 54 O B F HOH . ? A HOH 1335 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1337 ? 1_555 89.2 ? 55 O B F HOH . ? A HOH 1336 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1337 ? 1_555 89.6 ? 56 O B F HOH . ? A HOH 1333 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1338 ? 1_555 89.7 ? 57 O B F HOH . ? A HOH 1334 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1338 ? 1_555 90.7 ? 58 O B F HOH . ? A HOH 1335 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1338 ? 1_555 91.7 ? 59 O B F HOH . ? A HOH 1336 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1338 ? 1_555 89.5 ? 60 O B F HOH . ? A HOH 1337 ? 1_555 MG B E MG . ? A MG 113 ? 1_555 O B F HOH . ? A HOH 1338 ? 1_555 178.3 ? 61 O B F HOH . ? A HOH 1327 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1328 ? 1_555 176.7 ? 62 O B F HOH . ? A HOH 1327 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1329 ? 1_555 92.1 ? 63 O B F HOH . ? A HOH 1328 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1329 ? 1_555 89.6 ? 64 O B F HOH . ? A HOH 1327 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1330 ? 1_555 88.5 ? 65 O B F HOH . ? A HOH 1328 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1330 ? 1_555 90.3 ? 66 O B F HOH . ? A HOH 1329 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1330 ? 1_555 172.4 ? 67 O B F HOH . ? A HOH 1327 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1331 ? 1_555 91.6 ? 68 O B F HOH . ? A HOH 1328 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1331 ? 1_555 85.3 ? 69 O B F HOH . ? A HOH 1329 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1331 ? 1_555 94.3 ? 70 O B F HOH . ? A HOH 1330 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1331 ? 1_555 93.2 ? 71 O B F HOH . ? A HOH 1327 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1332 ? 1_555 89.4 ? 72 O B F HOH . ? A HOH 1328 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1332 ? 1_555 93.6 ? 73 O B F HOH . ? A HOH 1329 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1332 ? 1_555 87.3 ? 74 O B F HOH . ? A HOH 1330 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1332 ? 1_555 85.1 ? 75 O B F HOH . ? A HOH 1331 ? 1_555 MG B D MG . ? A MG 114 ? 1_555 O B F HOH . ? A HOH 1332 ? 1_555 178.0 ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A MG 111 ? 6 'BINDING SITE FOR RESIDUE MG A 111' AC2 Software A MG 112 ? 6 'BINDING SITE FOR RESIDUE MG A 112' AC3 Software A MG 114 ? 6 'BINDING SITE FOR RESIDUE MG A 114' AC4 Software A MG 113 ? 6 'BINDING SITE FOR RESIDUE MG A 113' # 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 F . ? HOH A 1318 . ? 1_555 ? 2 AC1 6 HOH F . ? HOH A 1318 . ? 2_655 ? 3 AC1 6 HOH F . ? HOH A 1319 . ? 1_555 ? 4 AC1 6 HOH F . ? HOH A 1319 . ? 2_655 ? 5 AC1 6 HOH F . ? HOH A 1320 . ? 2_655 ? 6 AC1 6 HOH F . ? HOH A 1320 . ? 1_555 ? 7 AC2 6 HOH F . ? HOH A 1321 . ? 1_555 ? 8 AC2 6 HOH F . ? HOH A 1322 . ? 1_555 ? 9 AC2 6 HOH F . ? HOH A 1323 . ? 1_555 ? 10 AC2 6 HOH F . ? HOH A 1324 . ? 1_555 ? 11 AC2 6 HOH F . ? HOH A 1325 . ? 1_555 ? 12 AC2 6 HOH F . ? HOH A 1326 . ? 1_555 ? 13 AC3 6 HOH F . ? HOH A 1327 . ? 1_555 ? 14 AC3 6 HOH F . ? HOH A 1328 . ? 1_555 ? 15 AC3 6 HOH F . ? HOH A 1329 . ? 1_555 ? 16 AC3 6 HOH F . ? HOH A 1330 . ? 1_555 ? 17 AC3 6 HOH F . ? HOH A 1331 . ? 1_555 ? 18 AC3 6 HOH F . ? HOH A 1332 . ? 1_555 ? 19 AC4 6 HOH F . ? HOH A 1333 . ? 1_555 ? 20 AC4 6 HOH F . ? HOH A 1334 . ? 1_555 ? 21 AC4 6 HOH F . ? HOH A 1335 . ? 1_555 ? 22 AC4 6 HOH F . ? HOH A 1336 . ? 1_555 ? 23 AC4 6 HOH F . ? HOH A 1337 . ? 1_555 ? 24 AC4 6 HOH F . ? HOH A 1338 . ? 1_555 ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 C4 A DC 2 ? ? C5 A DC 2 ? ? 1.364 1.425 -0.061 0.008 N 2 1 N3 A DA 3 ? ? C4 A DA 3 ? ? 1.292 1.344 -0.052 0.006 N 3 1 C5 A DA 3 ? ? N7 A DA 3 ? ? 1.342 1.388 -0.046 0.006 N 4 1 N7 A DA 3 ? ? C8 A DA 3 ? ? 1.239 1.311 -0.072 0.007 N 5 1 C8 A DA 3 ? ? N9 A DA 3 ? ? 1.441 1.373 0.068 0.008 N 6 1 "C1'" A DA 4 ? ? N9 A DA 4 ? ? 1.248 1.468 -0.220 0.014 N 7 1 C4 A DA 4 ? ? C5 A DA 4 ? ? 1.430 1.383 0.047 0.007 N 8 1 C5 A DA 4 ? ? C6 A DA 4 ? ? 1.478 1.406 0.072 0.009 N 9 1 C5 A DA 4 ? ? N7 A DA 4 ? ? 1.274 1.388 -0.114 0.006 N 10 1 N7 A DA 4 ? ? C8 A DA 4 ? ? 1.388 1.311 0.077 0.007 N 11 1 "C1'" A DC 5 ? ? N1 A DC 5 ? ? 1.631 1.488 0.143 0.013 N 12 1 C2 A DC 5 ? ? O2 A DC 5 ? ? 1.162 1.240 -0.078 0.009 N 13 1 N1 A DC 5 ? ? C2 A DC 5 ? ? 1.482 1.397 0.085 0.010 N 14 1 N1 A DC 5 ? ? C6 A DC 5 ? ? 1.268 1.367 -0.099 0.006 N 15 1 N3 A DC 5 ? ? C4 A DC 5 ? ? 1.278 1.335 -0.057 0.007 N 16 1 N3 A DG 6 ? ? C4 A DG 6 ? ? 1.405 1.350 0.055 0.007 N 17 1 C5 A DG 6 ? ? N7 A DG 6 ? ? 1.346 1.388 -0.042 0.006 N 18 1 C8 A DG 6 ? ? N9 A DG 6 ? ? 1.418 1.374 0.044 0.007 N 19 1 C2 A DG 6 ? ? N2 A DG 6 ? ? 1.277 1.341 -0.064 0.010 N 20 1 C5 A DT 7 ? ? C7 A DT 7 ? ? 1.538 1.496 0.042 0.006 N 21 1 N1 A DT 8 ? ? C2 A DT 8 ? ? 1.328 1.376 -0.048 0.008 N 22 1 C5 A DT 8 ? ? C7 A DT 8 ? ? 1.534 1.496 0.038 0.006 N 23 1 C4 A DG 9 ? ? C5 A DG 9 ? ? 1.431 1.379 0.052 0.007 N 24 1 C5 A DG 9 ? ? N7 A DG 9 ? ? 1.351 1.388 -0.037 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 "O5'" A DA 3 ? B "C5'" A DA 3 ? B "C4'" A DA 3 ? B 101.60 109.40 -7.80 0.80 N 2 1 "C4'" A DA 3 ? B "C3'" A DA 3 ? ? "O3'" A DA 3 ? ? 93.37 109.70 -16.33 2.50 N 3 1 C5 A DA 3 ? ? N7 A DA 3 ? ? C8 A DA 3 ? ? 107.73 103.90 3.83 0.50 N 4 1 N9 A DA 3 ? ? C4 A DA 3 ? ? C5 A DA 3 ? ? 103.25 105.80 -2.55 0.40 N 5 1 N9 A DA 4 ? ? "C1'" A DA 4 ? ? "C2'" A DA 4 ? ? 130.62 114.30 16.32 1.40 N 6 1 N1 A DA 4 ? ? C2 A DA 4 ? ? N3 A DA 4 ? ? 135.61 129.30 6.31 0.50 N 7 1 C2 A DA 4 ? ? N3 A DA 4 ? ? C4 A DA 4 ? ? 106.68 110.60 -3.92 0.50 N 8 1 C4 A DA 4 ? ? C5 A DA 4 ? ? C6 A DA 4 ? ? 113.76 117.00 -3.24 0.50 N 9 1 C4 A DA 4 ? ? C5 A DA 4 ? ? N7 A DA 4 ? ? 115.05 110.70 4.35 0.50 N 10 1 C5 A DA 4 ? ? N7 A DA 4 ? ? C8 A DA 4 ? ? 98.95 103.90 -4.95 0.50 N 11 1 N7 A DA 4 ? ? C8 A DA 4 ? ? N9 A DA 4 ? ? 118.02 113.80 4.22 0.50 N 12 1 C8 A DA 4 ? ? N9 A DA 4 ? ? C4 A DA 4 ? ? 99.81 105.80 -5.99 0.40 N 13 1 N1 A DA 4 ? ? C6 A DA 4 ? ? N6 A DA 4 ? ? 122.55 118.60 3.95 0.60 N 14 1 C4 A DA 4 ? ? N9 A DA 4 ? ? "C1'" A DA 4 ? ? 138.12 126.30 11.82 1.80 N 15 1 "C1'" A DC 5 ? ? "O4'" A DC 5 ? ? "C4'" A DC 5 ? ? 103.44 110.10 -6.66 1.00 N 16 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? N1 A DC 5 ? ? 100.43 108.00 -7.57 0.70 N 17 1 C6 A DC 5 ? ? N1 A DC 5 ? ? C2 A DC 5 ? ? 123.62 120.30 3.32 0.40 N 18 1 N1 A DC 5 ? ? C2 A DC 5 ? ? N3 A DC 5 ? ? 110.30 119.20 -8.90 0.70 N 19 1 C2 A DC 5 ? ? N3 A DC 5 ? ? C4 A DC 5 ? ? 126.56 119.90 6.66 0.50 N 20 1 N3 A DC 5 ? ? C2 A DC 5 ? ? O2 A DC 5 ? ? 129.86 121.90 7.96 0.70 N 21 1 "C3'" A DC 5 ? ? "O3'" A DC 5 ? ? P A DG 6 ? ? 129.15 119.70 9.45 1.20 Y 22 1 C6 A DG 6 ? ? N1 A DG 6 ? ? C2 A DG 6 ? ? 120.61 125.10 -4.49 0.60 N 23 1 C4 A DG 6 ? ? C5 A DG 6 ? ? N7 A DG 6 ? ? 107.89 110.80 -2.91 0.40 N 24 1 C5 A DG 6 ? ? N7 A DG 6 ? ? C8 A DG 6 ? ? 108.20 104.30 3.90 0.50 N 25 1 N7 A DG 6 ? ? C8 A DG 6 ? ? N9 A DG 6 ? ? 110.00 113.10 -3.10 0.50 N 26 1 C8 A DG 6 ? ? N9 A DG 6 ? ? C4 A DG 6 ? ? 102.96 106.40 -3.44 0.40 N 27 1 N9 A DG 6 ? ? C4 A DG 6 ? ? C5 A DG 6 ? ? 110.92 105.40 5.52 0.40 N 28 1 C5 A DT 7 ? ? C6 A DT 7 ? ? N1 A DT 7 ? ? 119.78 123.70 -3.92 0.60 N 29 1 "O5'" A DT 8 ? B "C5'" A DT 8 ? B "C4'" A DT 8 ? B 104.24 109.40 -5.16 0.80 N # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DA A 3 ? A 0.072 'SIDE CHAIN' 2 1 DC A 5 ? ? 0.064 'SIDE CHAIN' 3 1 DT A 7 ? A 0.075 'SIDE CHAIN' 4 1 DG A 9 ? ? 0.069 'SIDE CHAIN' # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A MG 111 ? B MG . 2 1 A HOH 217 ? F HOH . 3 1 A HOH 219 ? F HOH . # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal 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 HOH O O N N 144 HOH H1 H N N 145 HOH H2 H N N 146 MG MG MG 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 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 HOH O H1 sing N N 150 HOH O H2 sing N N 151 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1EN3 'double helix' 1EN3 'b-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 DC 1 1_555 A DG 10 2_656 0.200 -0.150 0.141 -6.248 -12.791 0.513 1 A_DC1:DG10_A A 1 ? A 10 ? 19 1 1 A DC 2 1_555 A DG 9 2_656 0.190 -0.187 -0.019 0.588 -7.659 -1.360 2 A_DC2:DG9_A A 2 ? A 9 ? 19 1 1 A DA 3 1_555 A DT 8 2_656 -0.041 -0.162 0.075 3.969 -7.323 1.420 3 A_DA3:DT8_A A 3 ? A 8 ? 20 1 1 A DA 4 1_555 A DT 7 2_656 0.075 -0.181 0.216 7.371 -12.300 4.883 4 A_DA4:DT7_A A 4 ? A 7 ? 20 1 1 A DC 5 1_555 A DG 6 2_656 0.149 -0.101 -0.129 12.456 -12.628 2.054 5 A_DC5:DG6_A A 5 ? A 6 ? 19 1 1 A DG 6 1_555 A DC 5 2_656 -0.149 -0.101 -0.129 -12.456 -12.628 2.054 6 A_DG6:DC5_A A 6 ? A 5 ? 19 1 1 A DT 7 1_555 A DA 4 2_656 -0.075 -0.181 0.216 -7.371 -12.300 4.883 7 A_DT7:DA4_A A 7 ? A 4 ? 20 1 1 A DT 8 1_555 A DA 3 2_656 0.041 -0.162 0.075 -3.969 -7.323 1.420 8 A_DT8:DA3_A A 8 ? A 3 ? 20 1 1 A DG 9 1_555 A DC 2 2_656 -0.190 -0.187 -0.019 -0.588 -7.659 -1.360 9 A_DG9:DC2_A A 9 ? A 2 ? 19 1 1 A DG 10 1_555 A DC 1 2_656 -0.200 -0.150 0.141 6.248 -12.791 0.513 10 A_DG10:DC1_A A 10 ? A 1 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DC 1 1_555 A DG 10 2_656 A DC 2 1_555 A DG 9 2_656 -0.395 0.628 3.156 3.487 8.142 26.259 -0.633 1.658 3.129 17.307 -7.411 27.688 1 AA_DC1DC2:DG9DG10_AA A 1 ? A 10 ? A 2 ? A 9 ? 1 A DC 2 1_555 A DG 9 2_656 A DA 3 1_555 A DT 8 2_656 0.320 2.751 3.169 1.229 -7.223 50.203 3.678 -0.295 2.780 -8.461 -1.439 50.700 2 AA_DC2DA3:DT8DG9_AA A 2 ? A 9 ? A 3 ? A 8 ? 1 A DA 3 1_555 A DT 8 2_656 A DA 4 1_555 A DT 7 2_656 0.444 0.364 3.227 -2.092 7.789 29.361 -0.861 -1.263 3.178 15.013 4.032 30.425 3 AA_DA3DA4:DT7DT8_AA A 3 ? A 8 ? A 4 ? A 7 ? 1 A DA 4 1_555 A DT 7 2_656 A DC 5 1_555 A DG 6 2_656 0.340 -0.374 3.131 2.352 -1.039 29.962 -0.516 -0.192 3.159 -2.004 -4.539 30.070 4 AA_DA4DC5:DG6DT7_AA A 4 ? A 7 ? A 5 ? A 6 ? 1 A DC 5 1_555 A DG 6 2_656 A DG 6 1_555 A DC 5 2_656 0.000 -0.134 3.762 0.000 8.705 43.930 -1.087 0.000 3.672 11.502 0.000 44.742 5 AA_DC5DG6:DC5DG6_AA A 5 ? A 6 ? A 6 ? A 5 ? 1 A DG 6 1_555 A DC 5 2_656 A DT 7 1_555 A DA 4 2_656 -0.340 -0.374 3.131 -2.352 -1.039 29.962 -0.516 0.192 3.159 -2.004 4.539 30.070 6 AA_DG6DT7:DA4DC5_AA A 6 ? A 5 ? A 7 ? A 4 ? 1 A DT 7 1_555 A DA 4 2_656 A DT 8 1_555 A DA 3 2_656 -0.444 0.364 3.227 2.092 7.789 29.361 -0.861 1.263 3.178 15.013 -4.032 30.425 7 AA_DT7DT8:DA3DA4_AA A 7 ? A 4 ? A 8 ? A 3 ? 1 A DT 8 1_555 A DA 3 2_656 A DG 9 1_555 A DC 2 2_656 -0.320 2.751 3.169 -1.229 -7.223 50.203 3.678 0.295 2.780 -8.461 1.439 50.700 8 AA_DT8DG9:DC2DA3_AA A 8 ? A 3 ? A 9 ? A 2 ? 1 A DG 9 1_555 A DC 2 2_656 A DG 10 1_555 A DC 1 2_656 0.395 0.628 3.156 -3.487 8.142 26.259 -0.633 -1.658 3.129 17.307 7.411 27.688 9 AA_DG9DG10:DC1DC2_AA A 9 ? A 2 ? A 10 ? A 1 ? # _pdbx_initial_refinement_model.accession_code 5DNB _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.details BDJ019 # _atom_sites.entry_id 1EN3 _atom_sites.fract_transf_matrix[1][1] 0.031249 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.013252 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.039418 _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] 0.032296 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C H MG N O P # loop_