data_2GPX # _entry.id 2GPX # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.377 _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 2GPX pdb_00002gpx 10.2210/pdb2gpx/pdb NDB AD0062 ? ? RCSB RCSB037409 ? ? WWPDB D_1000037409 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1Z7I ;2'-Me-Se Derivitation of A-DNA Octamer G(UMSe)GTACAC ; unspecified PDB 2DLJ ;2'-Me-Se and Br Derivitation of A-DNA Octamer G(UMS)G(BRU)ACAC ; unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2GPX _pdbx_database_status.recvd_initial_deposition_date 2006-04-18 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _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 'Jiang, J.' 1 'Huang, Z.' 2 # _citation.id primary _citation.title 'Selenium derivatization of nucleic acids for crystallography.' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 35 _citation.page_first 477 _citation.page_last 485 _citation.year 2007 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 17169989 _citation.pdbx_database_id_DOI 10.1093/nar/gkl1070 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Jiang, J.' 1 ? primary 'Sheng, J.' 2 ? primary 'Carrasco, N.' 3 ? primary 'Huang, Z.' 4 ? # _cell.entry_id 2GPX _cell.length_a 42.252 _cell.length_b 42.252 _cell.length_c 24.133 _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 2GPX _symmetry.space_group_name_H-M 'P 43 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? # 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*(UMS)P*GP*(BRU)P*AP*CP*AP*C)-3'" 2570.447 1 ? ? ? ? 2 non-polymer syn 'BARIUM ION' 137.327 1 ? ? ? ? 3 water nat water 18.015 31 ? ? ? ? # _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)(UMS)(DG)(BRU)(DA)(DC)(DA)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GUGUACAC _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # 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 UMS n 1 3 DG n 1 4 BRU n 1 5 DA n 1 6 DC n 1 7 DA n 1 8 DC n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'Solid Phase Synthesis via Phosphoramidite Chemistry' # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 2GPX _struct_ref.pdbx_db_accession 2GPX _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 2GPX _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 8 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 2GPX _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 8 _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 8 # 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 BA non-polymer . 'BARIUM ION' ? 'Ba 2' 137.327 BRU 'DNA linking' n "5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE" ? 'C9 H12 Br N2 O8 P' 387.078 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 HOH non-polymer . WATER ? 'H2 O' 18.015 UMS 'DNA linking' n "2'-METHYLSELENYL-2'-DEOXYURIDINE-5'-PHOSPHATE" ? 'C10 H15 N2 O8 P Se' 401.168 # _exptl.entry_id 2GPX _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.02 _exptl_crystal.density_percent_sol 39.10 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_details ;10% v/v MPD 40mM Sodium Cacodylate, 12mM Spermine tetra-HCI, 80 mM sodium Chloride, 20 mM Barium Chloride, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K ; _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 210' _diffrn_detector.pdbx_collection_date 2006-03-26 _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 MAD _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 1.1 1.0 2 0.9797 1.0 3 0.9196 1.0 4 0.94 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'NSLS BEAMLINE X12C' _diffrn_source.pdbx_synchrotron_site NSLS _diffrn_source.pdbx_synchrotron_beamline X12C _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list '1.1, 0.9797, 0.9196, 0.94' # _reflns.entry_id 2GPX _reflns.observed_criterion_sigma_I -3 _reflns.observed_criterion_sigma_F 0 _reflns.d_resolution_low 18.9 _reflns.d_resolution_high 1.6 _reflns.number_obs 3161 _reflns.number_all 3161 _reflns.percent_possible_obs 99.7 _reflns.pdbx_Rmerge_I_obs 0.084 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 7.7 _reflns.B_iso_Wilson_estimate 23.6 _reflns.pdbx_redundancy 12.4 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.6 _reflns_shell.d_res_low 1.66 _reflns_shell.percent_possible_all 99.3 _reflns_shell.Rmerge_I_obs 0.499 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.5 _reflns_shell.pdbx_redundancy 9.0 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 297 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 2GPX _refine.ls_number_reflns_obs 2909 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.0 _refine.pdbx_data_cutoff_high_absF 421128.02 _refine.pdbx_data_cutoff_low_absF 0.000000 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 18.90 _refine.ls_d_res_high 1.60 _refine.ls_percent_reflns_obs 92.4 _refine.ls_R_factor_obs 0.187 _refine.ls_R_factor_all 0.195 _refine.ls_R_factor_R_work 0.187 _refine.ls_R_factor_R_free 0.238 _refine.ls_R_factor_R_free_error 0.014 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 9.9 _refine.ls_number_reflns_R_free 289 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean 25.9 _refine.aniso_B[1][1] 0.31 _refine.aniso_B[2][2] 0.31 _refine.aniso_B[3][3] -0.62 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'FLAT MODEL' _refine.solvent_model_param_ksol 0.34 _refine.solvent_model_param_bsol 40.0464 _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model 'PDB ENTRY 1Z7I, 2DJL' _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model RESTRAINED _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD FUNCTION' _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.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _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 2GPX _refine_analyze.Luzzati_coordinate_error_obs 0.16 _refine_analyze.Luzzati_sigma_a_obs 0.12 _refine_analyze.Luzzati_d_res_low_obs 5.00 _refine_analyze.Luzzati_coordinate_error_free 0.22 _refine_analyze.Luzzati_sigma_a_free 0.12 _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 162 _refine_hist.pdbx_number_atoms_ligand 1 _refine_hist.number_atoms_solvent 31 _refine_hist.number_atoms_total 194 _refine_hist.d_res_high 1.60 _refine_hist.d_res_low 18.90 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function c_bond_d 0.010 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.8 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 30.5 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 2.09 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 6 _refine_ls_shell.d_res_high 1.60 _refine_ls_shell.d_res_low 1.70 _refine_ls_shell.number_reflns_R_work 333 _refine_ls_shell.R_factor_R_work 0.213 _refine_ls_shell.percent_reflns_obs 75.0 _refine_ls_shell.R_factor_R_free 0.244 _refine_ls_shell.R_factor_R_free_error 0.037 _refine_ls_shell.percent_reflns_R_free 11.7 _refine_ls_shell.number_reflns_R_free 44 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs 333 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 protein_rep.param protein.top 'X-RAY DIFFRACTION' 2 water_rep.param dna-rna.top 'X-RAY DIFFRACTION' 3 ion.param water.top 'X-RAY DIFFRACTION' 4 dna-rna_ums.par ion.top 'X-RAY DIFFRACTION' 5 ? ums.top 'X-RAY DIFFRACTION' # _struct.entry_id 2GPX _struct.title ;2'-Me-Se and Br Derivitation of A-DNA Octamer G(UMS)G(BRU)ACAC ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2GPX _struct_keywords.pdbx_keywords DNA _struct_keywords.text ;2'-Methylseleno-uridine, Se-DNA, Se-Br-DNA, Selenium Derivatization, 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 3 ? # 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 DG 1 "O3'" ? ? ? 1_555 A UMS 2 P ? ? A DG 1 A UMS 2 1_555 ? ? ? ? ? ? ? 1.625 ? ? covale2 covale both ? A UMS 2 "O3'" ? ? ? 1_555 A DG 3 P ? ? A UMS 2 A DG 3 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale3 covale both ? A DG 3 "O3'" ? ? ? 1_555 A BRU 4 P ? ? A DG 3 A BRU 4 1_555 ? ? ? ? ? ? ? 1.602 ? ? covale4 covale both ? A BRU 4 "O3'" ? ? ? 1_555 A DA 5 P ? ? A BRU 4 A DA 5 1_555 ? ? ? ? ? ? ? 1.605 ? ? metalc1 metalc ? ? A UMS 2 O4 ? ? ? 1_555 B BA . BA ? ? A UMS 2 A BA 101 1_555 ? ? ? ? ? ? ? 2.772 ? ? metalc2 metalc ? ? A DG 3 O6 ? ? ? 1_555 B BA . BA ? ? A DG 3 A BA 101 1_555 ? ? ? ? ? ? ? 2.911 ? ? metalc3 metalc ? ? B BA . BA ? ? ? 1_555 C HOH . O ? ? A BA 101 A HOH 105 1_555 ? ? ? ? ? ? ? 2.956 ? ? metalc4 metalc ? ? B BA . BA ? ? ? 1_555 C HOH . O ? ? A BA 101 A HOH 111 1_555 ? ? ? ? ? ? ? 2.716 ? ? metalc5 metalc ? ? B BA . BA ? ? ? 1_555 C HOH . O ? ? A BA 101 A HOH 116 7_555 ? ? ? ? ? ? ? 2.851 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 A DC 8 N3 ? ? A DG 1 A DC 8 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 A DC 8 O2 ? ? A DG 1 A DC 8 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 A DC 8 N4 ? ? A DG 1 A DC 8 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A UMS 2 N3 ? ? ? 1_555 A DA 7 N1 ? ? A UMS 2 A DA 7 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A UMS 2 O4 ? ? ? 1_555 A DA 7 N6 ? ? A UMS 2 A DA 7 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DC 6 N3 ? ? A DG 3 A DC 6 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DC 6 O2 ? ? A DG 3 A DC 6 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DC 6 N4 ? ? A DG 3 A DC 6 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A BRU 4 N3 ? ? ? 1_555 A DA 5 N1 ? ? A BRU 4 A DA 5 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A BRU 4 O4 ? ? ? 1_555 A DA 5 N6 ? ? A BRU 4 A DA 5 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 5 N1 ? ? ? 1_555 A BRU 4 N3 ? ? A DA 5 A BRU 4 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 5 N6 ? ? ? 1_555 A BRU 4 O4 ? ? A DA 5 A BRU 4 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 6 N3 ? ? ? 1_555 A DG 3 N1 ? ? A DC 6 A DG 3 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 6 N4 ? ? ? 1_555 A DG 3 O6 ? ? A DC 6 A DG 3 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 6 O2 ? ? ? 1_555 A DG 3 N2 ? ? A DC 6 A DG 3 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 7 N1 ? ? ? 1_555 A UMS 2 N3 ? ? A DA 7 A UMS 2 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DA 7 N6 ? ? ? 1_555 A UMS 2 O4 ? ? A DA 7 A UMS 2 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 8 N3 ? ? ? 1_555 A DG 1 N1 ? ? A DC 8 A DG 1 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 8 N4 ? ? ? 1_555 A DG 1 O6 ? ? A DC 8 A DG 1 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 O2 ? ? ? 1_555 A DG 1 N2 ? ? A DC 8 A DG 1 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id BA _struct_site.pdbx_auth_seq_id 101 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 5 _struct_site.details 'BINDING SITE FOR RESIDUE BA 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 5 UMS A 2 ? UMS A 2 . ? 1_555 ? 2 AC1 5 DG A 3 ? DG A 3 . ? 1_555 ? 3 AC1 5 HOH C . ? HOH A 105 . ? 1_555 ? 4 AC1 5 HOH C . ? HOH A 111 . ? 1_555 ? 5 AC1 5 HOH C . ? HOH A 116 . ? 7_555 ? # _database_PDB_matrix.entry_id 2GPX _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 # _atom_sites.entry_id 2GPX _atom_sites.fract_transf_matrix[1][1] 0.023668 _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] 0.023668 _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] 0.041437 _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 BA BR C N O P SE # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_alt_id _atom_site.label_comp_id _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.label_seq_id _atom_site.pdbx_PDB_ins_code _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_seq_id _atom_site.auth_comp_id _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.pdbx_PDB_model_num ATOM 1 O "O5'" . DG A 1 1 ? 7.241 -1.943 -5.277 1.00 22.07 ? 1 DG A "O5'" 1 ATOM 2 C "C5'" . DG A 1 1 ? 7.209 -3.358 -5.126 1.00 22.25 ? 1 DG A "C5'" 1 ATOM 3 C "C4'" . DG A 1 1 ? 8.343 -4.015 -4.373 1.00 20.77 ? 1 DG A "C4'" 1 ATOM 4 O "O4'" . DG A 1 1 ? 9.564 -3.842 -5.152 1.00 20.24 ? 1 DG A "O4'" 1 ATOM 5 C "C3'" . DG A 1 1 ? 8.653 -3.389 -3.014 1.00 22.05 ? 1 DG A "C3'" 1 ATOM 6 O "O3'" . DG A 1 1 ? 7.970 -3.967 -1.906 1.00 22.28 ? 1 DG A "O3'" 1 ATOM 7 C "C2'" . DG A 1 1 ? 10.159 -3.533 -2.874 1.00 20.94 ? 1 DG A "C2'" 1 ATOM 8 C "C1'" . DG A 1 1 ? 10.695 -3.676 -4.289 1.00 21.25 ? 1 DG A "C1'" 1 ATOM 9 N N9 . DG A 1 1 ? 11.104 -2.307 -4.636 1.00 21.16 ? 1 DG A N9 1 ATOM 10 C C8 . DG A 1 1 ? 10.381 -1.336 -5.297 1.00 20.25 ? 1 DG A C8 1 ATOM 11 N N7 . DG A 1 1 ? 11.018 -0.193 -5.390 1.00 20.80 ? 1 DG A N7 1 ATOM 12 C C5 . DG A 1 1 ? 12.239 -0.423 -4.761 1.00 20.56 ? 1 DG A C5 1 ATOM 13 C C6 . DG A 1 1 ? 13.394 0.463 -4.531 1.00 20.40 ? 1 DG A C6 1 ATOM 14 O O6 . DG A 1 1 ? 13.543 1.642 -4.856 1.00 19.76 ? 1 DG A O6 1 ATOM 15 N N1 . DG A 1 1 ? 14.415 -0.206 -3.851 1.00 21.34 ? 1 DG A N1 1 ATOM 16 C C2 . DG A 1 1 ? 14.371 -1.522 -3.455 1.00 21.53 ? 1 DG A C2 1 ATOM 17 N N2 . DG A 1 1 ? 15.495 -2.013 -2.868 1.00 24.45 ? 1 DG A N2 1 ATOM 18 N N3 . DG A 1 1 ? 13.330 -2.320 -3.632 1.00 20.96 ? 1 DG A N3 1 ATOM 19 C C4 . DG A 1 1 ? 12.313 -1.719 -4.293 1.00 20.64 ? 1 DG A C4 1 HETATM 20 P P . UMS A 1 2 ? 7.445 -2.997 -0.712 1.00 23.22 ? 2 UMS A P 1 HETATM 21 O OP1 . UMS A 1 2 ? 6.561 -3.828 0.159 1.00 24.36 ? 2 UMS A OP1 1 HETATM 22 O OP2 . UMS A 1 2 ? 6.934 -1.725 -1.279 1.00 23.21 ? 2 UMS A OP2 1 HETATM 23 O "O5'" . UMS A 1 2 ? 8.763 -2.661 0.105 1.00 23.54 ? 2 UMS A "O5'" 1 HETATM 24 C "C5'" . UMS A 1 2 ? 9.532 -3.725 0.639 1.00 23.47 ? 2 UMS A "C5'" 1 HETATM 25 C "C4'" . UMS A 1 2 ? 10.832 -3.232 1.228 1.00 24.18 ? 2 UMS A "C4'" 1 HETATM 26 O "O4'" . UMS A 1 2 ? 11.699 -2.802 0.149 1.00 22.87 ? 2 UMS A "O4'" 1 HETATM 27 C "C3'" . UMS A 1 2 ? 10.763 -2.030 2.162 1.00 25.53 ? 2 UMS A "C3'" 1 HETATM 28 O "O3'" . UMS A 1 2 ? 10.455 -2.391 3.502 1.00 28.21 ? 2 UMS A "O3'" 1 HETATM 29 C "C2'" . UMS A 1 2 ? 12.171 -1.459 2.053 1.00 25.39 ? 2 UMS A "C2'" 1 HETATM 30 SE "SE2'" . UMS A 1 2 ? 13.487 -2.690 3.163 0.79 30.49 ? 2 UMS A "SE2'" 1 HETATM 31 C "C1'" . UMS A 1 2 ? 12.591 -1.786 0.633 1.00 24.28 ? 2 UMS A "C1'" 1 HETATM 32 C "CA'" . UMS A 1 2 ? 15.109 -1.624 3.066 1.00 30.22 ? 2 UMS A "CA'" 1 HETATM 33 N N1 . UMS A 1 2 ? 12.267 -0.644 -0.295 1.00 22.58 ? 2 UMS A N1 1 HETATM 34 C C2 . UMS A 1 2 ? 13.272 0.313 -0.480 1.00 22.23 ? 2 UMS A C2 1 HETATM 35 O O2 . UMS A 1 2 ? 14.374 0.226 0.044 1.00 23.76 ? 2 UMS A O2 1 HETATM 36 N N3 . UMS A 1 2 ? 12.950 1.366 -1.297 1.00 20.86 ? 2 UMS A N3 1 HETATM 37 C C4 . UMS A 1 2 ? 11.759 1.588 -1.948 1.00 19.33 ? 2 UMS A C4 1 HETATM 38 O O4 . UMS A 1 2 ? 11.621 2.581 -2.629 1.00 20.80 ? 2 UMS A O4 1 HETATM 39 C C5 . UMS A 1 2 ? 10.710 0.538 -1.741 1.00 19.58 ? 2 UMS A C5 1 HETATM 40 C C6 . UMS A 1 2 ? 11.036 -0.527 -0.915 1.00 20.38 ? 2 UMS A C6 1 ATOM 41 P P . DG A 1 3 ? 9.647 -1.345 4.429 1.00 28.99 ? 3 DG A P 1 ATOM 42 O OP1 . DG A 1 3 ? 9.056 -2.148 5.528 1.00 31.99 ? 3 DG A OP1 1 ATOM 43 O OP2 . DG A 1 3 ? 8.783 -0.460 3.615 1.00 28.97 ? 3 DG A OP2 1 ATOM 44 O "O5'" . DG A 1 3 ? 10.830 -0.489 5.019 1.00 29.54 ? 3 DG A "O5'" 1 ATOM 45 C "C5'" . DG A 1 3 ? 10.846 0.905 4.898 1.00 27.34 ? 3 DG A "C5'" 1 ATOM 46 C "C4'" . DG A 1 3 ? 12.270 1.376 4.954 1.00 25.62 ? 3 DG A "C4'" 1 ATOM 47 O "O4'" . DG A 1 3 ? 12.782 1.279 3.598 1.00 25.58 ? 3 DG A "O4'" 1 ATOM 48 C "C3'" . DG A 1 3 ? 12.371 2.844 5.334 1.00 24.78 ? 3 DG A "C3'" 1 ATOM 49 O "O3'" . DG A 1 3 ? 12.768 3.042 6.677 1.00 24.48 ? 3 DG A "O3'" 1 ATOM 50 C "C2'" . DG A 1 3 ? 13.406 3.429 4.396 1.00 24.67 ? 3 DG A "C2'" 1 ATOM 51 C "C1'" . DG A 1 3 ? 13.568 2.412 3.273 1.00 24.10 ? 3 DG A "C1'" 1 ATOM 52 N N9 . DG A 1 3 ? 12.785 2.968 2.161 1.00 22.36 ? 3 DG A N9 1 ATOM 53 C C8 . DG A 1 3 ? 11.563 2.578 1.651 1.00 20.58 ? 3 DG A C8 1 ATOM 54 N N7 . DG A 1 3 ? 11.172 3.319 0.643 1.00 21.53 ? 3 DG A N7 1 ATOM 55 C C5 . DG A 1 3 ? 12.201 4.242 0.474 1.00 20.51 ? 3 DG A C5 1 ATOM 56 C C6 . DG A 1 3 ? 12.386 5.340 -0.505 1.00 19.54 ? 3 DG A C6 1 ATOM 57 O O6 . DG A 1 3 ? 11.662 5.667 -1.459 1.00 19.07 ? 3 DG A O6 1 ATOM 58 N N1 . DG A 1 3 ? 13.566 6.045 -0.256 1.00 18.94 ? 3 DG A N1 1 ATOM 59 C C2 . DG A 1 3 ? 14.462 5.760 0.753 1.00 18.80 ? 3 DG A C2 1 ATOM 60 N N2 . DG A 1 3 ? 15.523 6.577 0.865 1.00 18.70 ? 3 DG A N2 1 ATOM 61 N N3 . DG A 1 3 ? 14.326 4.755 1.604 1.00 19.28 ? 3 DG A N3 1 ATOM 62 C C4 . DG A 1 3 ? 13.187 4.050 1.413 1.00 21.13 ? 3 DG A C4 1 HETATM 63 N N1 . BRU A 1 4 ? 13.696 7.816 3.720 1.00 21.01 ? 4 BRU A N1 1 HETATM 64 C C2 . BRU A 1 4 ? 13.608 8.688 2.630 1.00 20.33 ? 4 BRU A C2 1 HETATM 65 N N3 . BRU A 1 4 ? 12.516 8.500 1.785 1.00 18.25 ? 4 BRU A N3 1 HETATM 66 C C4 . BRU A 1 4 ? 11.481 7.572 1.924 1.00 19.76 ? 4 BRU A C4 1 HETATM 67 C C5 . BRU A 1 4 ? 11.591 6.658 3.140 1.00 20.55 ? 4 BRU A C5 1 HETATM 68 C C6 . BRU A 1 4 ? 12.727 6.834 3.950 1.00 21.04 ? 4 BRU A C6 1 HETATM 69 O O2 . BRU A 1 4 ? 14.423 9.588 2.447 1.00 19.76 ? 4 BRU A O2 1 HETATM 70 O O4 . BRU A 1 4 ? 10.569 7.533 1.094 1.00 20.31 ? 4 BRU A O4 1 HETATM 71 BR BR . BRU A 1 4 ? 10.368 5.513 3.454 0.86 23.77 ? 4 BRU A BR 1 HETATM 72 C "C1'" . BRU A 1 4 ? 14.873 8.052 4.638 1.00 23.33 ? 4 BRU A "C1'" 1 HETATM 73 C "C2'" . BRU A 1 4 ? 14.374 8.883 5.808 1.00 23.96 ? 4 BRU A "C2'" 1 HETATM 74 C "C3'" . BRU A 1 4 ? 14.342 7.957 7.007 1.00 24.15 ? 4 BRU A "C3'" 1 HETATM 75 C "C4'" . BRU A 1 4 ? 15.132 6.721 6.576 1.00 24.17 ? 4 BRU A "C4'" 1 HETATM 76 O "O3'" . BRU A 1 4 ? 14.877 8.651 8.118 1.00 23.78 ? 4 BRU A "O3'" 1 HETATM 77 O "O4'" . BRU A 1 4 ? 15.112 6.727 5.119 1.00 24.09 ? 4 BRU A "O4'" 1 HETATM 78 C "C5'" . BRU A 1 4 ? 14.506 5.431 7.053 1.00 24.78 ? 4 BRU A "C5'" 1 HETATM 79 O "O5'" . BRU A 1 4 ? 13.089 5.505 6.959 1.00 23.62 ? 4 BRU A "O5'" 1 HETATM 80 P P . BRU A 1 4 ? 12.172 4.304 7.463 1.00 23.58 ? 4 BRU A P 1 HETATM 81 O OP1 . BRU A 1 4 ? 12.418 4.058 8.903 1.00 24.83 ? 4 BRU A OP1 1 HETATM 82 O OP2 . BRU A 1 4 ? 10.807 4.619 6.993 1.00 24.12 ? 4 BRU A OP2 1 ATOM 83 P P . DA A 1 5 ? 13.976 9.779 8.819 1.00 24.63 ? 5 DA A P 1 ATOM 84 O OP1 . DA A 1 5 ? 14.475 9.918 10.224 1.00 25.82 ? 5 DA A OP1 1 ATOM 85 O OP2 . DA A 1 5 ? 12.530 9.545 8.588 1.00 26.38 ? 5 DA A OP2 1 ATOM 86 O "O5'" . DA A 1 5 ? 14.405 11.085 8.030 1.00 23.79 ? 5 DA A "O5'" 1 ATOM 87 C "C5'" . DA A 1 5 ? 13.460 12.024 7.606 1.00 22.87 ? 5 DA A "C5'" 1 ATOM 88 C "C4'" . DA A 1 5 ? 14.103 12.932 6.590 1.00 22.57 ? 5 DA A "C4'" 1 ATOM 89 O "O4'" . DA A 1 5 ? 14.264 12.147 5.372 1.00 21.09 ? 5 DA A "O4'" 1 ATOM 90 C "C3'" . DA A 1 5 ? 13.220 14.109 6.214 1.00 22.73 ? 5 DA A "C3'" 1 ATOM 91 O "O3'" . DA A 1 5 ? 13.579 15.302 6.879 1.00 24.16 ? 5 DA A "O3'" 1 ATOM 92 C "C2'" . DA A 1 5 ? 13.378 14.245 4.711 1.00 21.45 ? 5 DA A "C2'" 1 ATOM 93 C "C1'" . DA A 1 5 ? 13.766 12.857 4.245 1.00 20.57 ? 5 DA A "C1'" 1 ATOM 94 N N9 . DA A 1 5 ? 12.564 12.158 3.792 1.00 19.60 ? 5 DA A N9 1 ATOM 95 C C8 . DA A 1 5 ? 11.901 11.122 4.422 1.00 19.78 ? 5 DA A C8 1 ATOM 96 N N7 . DA A 1 5 ? 10.860 10.679 3.752 1.00 19.67 ? 5 DA A N7 1 ATOM 97 C C5 . DA A 1 5 ? 10.834 11.470 2.610 1.00 18.94 ? 5 DA A C5 1 ATOM 98 C C6 . DA A 1 5 ? 9.971 11.494 1.500 1.00 19.06 ? 5 DA A C6 1 ATOM 99 N N6 . DA A 1 5 ? 8.941 10.657 1.339 1.00 18.10 ? 5 DA A N6 1 ATOM 100 N N1 . DA A 1 5 ? 10.201 12.424 0.549 1.00 17.68 ? 5 DA A N1 1 ATOM 101 C C2 . DA A 1 5 ? 11.227 13.268 0.715 1.00 16.78 ? 5 DA A C2 1 ATOM 102 N N3 . DA A 1 5 ? 12.109 13.346 1.715 1.00 18.09 ? 5 DA A N3 1 ATOM 103 C C4 . DA A 1 5 ? 11.862 12.402 2.633 1.00 19.01 ? 5 DA A C4 1 ATOM 104 P P . DC A 1 6 ? 12.414 16.279 7.383 1.00 25.77 ? 6 DC A P 1 ATOM 105 O OP1 . DC A 1 6 ? 13.115 17.345 8.159 1.00 25.11 ? 6 DC A OP1 1 ATOM 106 O OP2 . DC A 1 6 ? 11.303 15.509 7.993 1.00 23.71 ? 6 DC A OP2 1 ATOM 107 O "O5'" . DC A 1 6 ? 11.875 16.919 6.040 1.00 24.15 ? 6 DC A "O5'" 1 ATOM 108 C "C5'" . DC A 1 6 ? 12.753 17.624 5.189 1.00 23.66 ? 6 DC A "C5'" 1 ATOM 109 C "C4'" . DC A 1 6 ? 12.036 18.027 3.926 1.00 24.35 ? 6 DC A "C4'" 1 ATOM 110 O "O4'" . DC A 1 6 ? 11.861 16.829 3.123 1.00 22.88 ? 6 DC A "O4'" 1 ATOM 111 C "C3'" . DC A 1 6 ? 10.624 18.555 4.149 1.00 24.77 ? 6 DC A "C3'" 1 ATOM 112 O "O3'" . DC A 1 6 ? 10.533 19.962 4.262 1.00 26.00 ? 6 DC A "O3'" 1 ATOM 113 C "C2'" . DC A 1 6 ? 9.871 18.105 2.910 1.00 24.24 ? 6 DC A "C2'" 1 ATOM 114 C "C1'" . DC A 1 6 ? 10.642 16.896 2.394 1.00 22.92 ? 6 DC A "C1'" 1 ATOM 115 N N1 . DC A 1 6 ? 9.808 15.728 2.766 1.00 21.71 ? 6 DC A N1 1 ATOM 116 C C2 . DC A 1 6 ? 8.846 15.274 1.851 1.00 21.03 ? 6 DC A C2 1 ATOM 117 O O2 . DC A 1 6 ? 8.715 15.887 0.788 1.00 22.28 ? 6 DC A O2 1 ATOM 118 N N3 . DC A 1 6 ? 8.077 14.197 2.155 1.00 19.55 ? 6 DC A N3 1 ATOM 119 C C4 . DC A 1 6 ? 8.207 13.581 3.335 1.00 19.20 ? 6 DC A C4 1 ATOM 120 N N4 . DC A 1 6 ? 7.411 12.522 3.584 1.00 18.92 ? 6 DC A N4 1 ATOM 121 C C5 . DC A 1 6 ? 9.154 14.016 4.310 1.00 21.35 ? 6 DC A C5 1 ATOM 122 C C6 . DC A 1 6 ? 9.948 15.104 3.980 1.00 20.33 ? 6 DC A C6 1 ATOM 123 P P . DA A 1 7 ? 9.259 20.584 5.005 1.00 26.66 ? 7 DA A P 1 ATOM 124 O OP1 . DA A 1 7 ? 9.634 21.993 5.360 1.00 28.52 ? 7 DA A OP1 1 ATOM 125 O OP2 . DA A 1 7 ? 8.776 19.667 6.074 1.00 27.11 ? 7 DA A OP2 1 ATOM 126 O "O5'" . DA A 1 7 ? 8.152 20.608 3.885 1.00 25.01 ? 7 DA A "O5'" 1 ATOM 127 C "C5'" . DA A 1 7 ? 8.411 21.255 2.650 1.00 24.95 ? 7 DA A "C5'" 1 ATOM 128 C "C4'" . DA A 1 7 ? 7.163 21.274 1.805 1.00 24.60 ? 7 DA A "C4'" 1 ATOM 129 O "O4'" . DA A 1 7 ? 7.025 19.952 1.225 1.00 23.62 ? 7 DA A "O4'" 1 ATOM 130 C "C3'" . DA A 1 7 ? 5.888 21.519 2.597 1.00 25.18 ? 7 DA A "C3'" 1 ATOM 131 O "O3'" . DA A 1 7 ? 5.387 22.841 2.510 1.00 26.53 ? 7 DA A "O3'" 1 ATOM 132 C "C2'" . DA A 1 7 ? 4.872 20.565 2.005 1.00 25.39 ? 7 DA A "C2'" 1 ATOM 133 C "C1'" . DA A 1 7 ? 5.667 19.543 1.213 1.00 22.90 ? 7 DA A "C1'" 1 ATOM 134 N N9 . DA A 1 7 ? 5.586 18.264 1.926 1.00 21.50 ? 7 DA A N9 1 ATOM 135 C C8 . DA A 1 7 ? 6.339 17.823 2.996 1.00 20.01 ? 7 DA A C8 1 ATOM 136 N N7 . DA A 1 7 ? 6.014 16.620 3.411 1.00 18.70 ? 7 DA A N7 1 ATOM 137 C C5 . DA A 1 7 ? 4.985 16.246 2.559 1.00 19.84 ? 7 DA A C5 1 ATOM 138 C C6 . DA A 1 7 ? 4.206 15.077 2.468 1.00 18.53 ? 7 DA A C6 1 ATOM 139 N N6 . DA A 1 7 ? 4.336 14.024 3.281 1.00 18.21 ? 7 DA A N6 1 ATOM 140 N N1 . DA A 1 7 ? 3.266 15.025 1.499 1.00 19.29 ? 7 DA A N1 1 ATOM 141 C C2 . DA A 1 7 ? 3.111 16.088 0.690 1.00 18.61 ? 7 DA A C2 1 ATOM 142 N N3 . DA A 1 7 ? 3.776 17.242 0.679 1.00 20.44 ? 7 DA A N3 1 ATOM 143 C C4 . DA A 1 7 ? 4.710 17.255 1.646 1.00 19.17 ? 7 DA A C4 1 ATOM 144 P P . DC A 1 8 ? 4.411 23.377 3.672 1.00 27.04 ? 8 DC A P 1 ATOM 145 O OP1 . DC A 1 8 ? 4.438 24.866 3.542 1.00 29.58 ? 8 DC A OP1 1 ATOM 146 O OP2 . DC A 1 8 ? 4.823 22.752 4.956 1.00 29.00 ? 8 DC A OP2 1 ATOM 147 O "O5'" . DC A 1 8 ? 2.969 22.842 3.277 1.00 26.76 ? 8 DC A "O5'" 1 ATOM 148 C "C5'" . DC A 1 8 ? 2.397 23.151 2.001 1.00 28.76 ? 8 DC A "C5'" 1 ATOM 149 C "C4'" . DC A 1 8 ? 1.078 22.435 1.810 1.00 29.92 ? 8 DC A "C4'" 1 ATOM 150 O "O4'" . DC A 1 8 ? 1.275 20.993 1.763 1.00 29.69 ? 8 DC A "O4'" 1 ATOM 151 C "C3'" . DC A 1 8 ? 0.016 22.684 2.888 1.00 30.46 ? 8 DC A "C3'" 1 ATOM 152 O "O3'" . DC A 1 8 ? -1.302 22.630 2.313 1.00 32.88 ? 8 DC A "O3'" 1 ATOM 153 C "C2'" . DC A 1 8 ? 0.123 21.448 3.759 1.00 29.72 ? 8 DC A "C2'" 1 ATOM 154 C "C1'" . DC A 1 8 ? 0.440 20.371 2.730 1.00 28.76 ? 8 DC A "C1'" 1 ATOM 155 N N1 . DC A 1 8 ? 1.183 19.251 3.355 1.00 26.98 ? 8 DC A N1 1 ATOM 156 C C2 . DC A 1 8 ? 0.664 17.938 3.232 1.00 25.98 ? 8 DC A C2 1 ATOM 157 O O2 . DC A 1 8 ? -0.358 17.757 2.550 1.00 26.49 ? 8 DC A O2 1 ATOM 158 N N3 . DC A 1 8 ? 1.288 16.903 3.858 1.00 24.42 ? 8 DC A N3 1 ATOM 159 C C4 . DC A 1 8 ? 2.389 17.121 4.594 1.00 24.65 ? 8 DC A C4 1 ATOM 160 N N4 . DC A 1 8 ? 2.934 16.080 5.242 1.00 21.53 ? 8 DC A N4 1 ATOM 161 C C5 . DC A 1 8 ? 2.976 18.420 4.710 1.00 24.86 ? 8 DC A C5 1 ATOM 162 C C6 . DC A 1 8 ? 2.332 19.468 4.062 1.00 25.63 ? 8 DC A C6 1 HETATM 163 BA BA . BA B 2 . ? 9.563 4.396 -3.025 0.88 27.30 ? 101 BA A BA 1 HETATM 164 O O . HOH C 3 . ? 14.510 14.973 1.257 1.00 20.26 ? 102 HOH A O 1 HETATM 165 O O . HOH C 3 . ? 2.349 19.579 -0.606 1.00 32.07 ? 103 HOH A O 1 HETATM 166 O O . HOH C 3 . ? 6.789 -1.450 -7.827 1.00 35.46 ? 104 HOH A O 1 HETATM 167 O O . HOH C 3 . ? 8.805 2.995 -0.535 1.00 28.99 ? 105 HOH A O 1 HETATM 168 O O . HOH C 3 . ? 8.982 9.067 4.799 1.00 25.51 ? 106 HOH A O 1 HETATM 169 O O . HOH C 3 . ? 5.991 -3.785 2.712 1.00 43.03 ? 107 HOH A O 1 HETATM 170 O O . HOH C 3 . ? 12.704 5.151 11.303 1.00 29.24 ? 108 HOH A O 1 HETATM 171 O O . HOH C 3 . ? 4.085 -4.672 -0.809 1.00 33.23 ? 109 HOH A O 1 HETATM 172 O O . HOH C 3 . ? 16.649 4.569 3.273 1.00 29.11 ? 110 HOH A O 1 HETATM 173 O O . HOH C 3 . ? 9.700 2.470 -4.935 1.00 33.19 ? 111 HOH A O 1 HETATM 174 O O . HOH C 3 . ? 11.995 3.593 -5.925 1.00 39.03 ? 112 HOH A O 1 HETATM 175 O O . HOH C 3 . ? 4.041 26.202 1.226 1.00 33.60 ? 113 HOH A O 1 HETATM 176 O O . HOH C 3 . ? 5.434 -1.048 -3.477 1.00 37.13 ? 114 HOH A O 1 HETATM 177 O O . HOH C 3 . ? 7.059 1.094 -0.401 1.00 46.87 ? 115 HOH A O 1 HETATM 178 O O . HOH C 3 . ? 7.102 8.693 2.802 1.00 28.95 ? 116 HOH A O 1 HETATM 179 O O . HOH C 3 . ? 6.519 15.249 6.006 1.00 39.38 ? 117 HOH A O 1 HETATM 180 O O . HOH C 3 . ? 4.028 -5.695 -3.364 1.00 26.34 ? 118 HOH A O 1 HETATM 181 O O . HOH C 3 . ? 8.656 16.426 7.171 1.00 43.19 ? 119 HOH A O 1 HETATM 182 O O . HOH C 3 . ? 17.170 3.748 5.917 1.00 42.82 ? 120 HOH A O 1 HETATM 183 O O . HOH C 3 . ? 12.100 -3.189 7.752 1.00 46.41 ? 121 HOH A O 1 HETATM 184 O O . HOH C 3 . ? 8.386 3.061 6.455 1.00 51.32 ? 122 HOH A O 1 HETATM 185 O O . HOH C 3 . ? 8.417 3.325 3.807 1.00 37.34 ? 123 HOH A O 1 HETATM 186 O O . HOH C 3 . ? 9.869 2.003 -7.479 1.00 47.57 ? 124 HOH A O 1 HETATM 187 O O . HOH C 3 . ? 8.262 5.889 0.450 1.00 46.35 ? 125 HOH A O 1 HETATM 188 O O . HOH C 3 . ? 8.535 1.450 1.731 1.00 52.58 ? 126 HOH A O 1 HETATM 189 O O . HOH C 3 . ? 13.407 2.842 12.301 1.00 58.07 ? 127 HOH A O 1 HETATM 190 O O . HOH C 3 . ? 10.121 -4.435 6.157 1.00 51.12 ? 128 HOH A O 1 HETATM 191 O O . HOH C 3 . ? 13.103 -0.663 8.384 1.00 54.67 ? 129 HOH A O 1 HETATM 192 O O . HOH C 3 . ? 11.164 0.704 9.495 1.00 63.61 ? 130 HOH A O 1 HETATM 193 O O . HOH C 3 . ? 15.008 -1.302 6.596 1.00 47.68 ? 131 HOH A O 1 HETATM 194 O O . HOH C 3 . ? 9.401 -1.372 8.650 1.00 61.87 ? 132 HOH A O 1 # 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 GUA A . n A 1 2 UMS 2 2 2 UMS UMS A . n A 1 3 DG 3 3 3 DG GUA A . n A 1 4 BRU 4 4 4 BRU BRU A . n A 1 5 DA 5 5 5 DA ADE A . n A 1 6 DC 6 6 6 DC CYT A . n A 1 7 DA 7 7 7 DA ADE A . n A 1 8 DC 8 8 8 DC CYT 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 BA 1 101 101 BA BA A . C 3 HOH 1 102 1 HOH HOH A . C 3 HOH 2 103 2 HOH HOH A . C 3 HOH 3 104 3 HOH HOH A . C 3 HOH 4 105 4 HOH HOH A . C 3 HOH 5 106 5 HOH HOH A . C 3 HOH 6 107 6 HOH HOH A . C 3 HOH 7 108 7 HOH HOH A . C 3 HOH 8 109 8 HOH HOH A . C 3 HOH 9 110 9 HOH HOH A . C 3 HOH 10 111 10 HOH HOH A . C 3 HOH 11 112 11 HOH HOH A . C 3 HOH 12 113 12 HOH HOH A . C 3 HOH 13 114 13 HOH HOH A . C 3 HOH 14 115 14 HOH HOH A . C 3 HOH 15 116 15 HOH HOH A . C 3 HOH 16 117 16 HOH HOH A . C 3 HOH 17 118 17 HOH HOH A . C 3 HOH 18 119 18 HOH HOH A . C 3 HOH 19 120 19 HOH HOH A . C 3 HOH 20 121 20 HOH HOH A . C 3 HOH 21 122 21 HOH HOH A . C 3 HOH 22 123 22 HOH HOH A . C 3 HOH 23 124 23 HOH HOH A . C 3 HOH 24 125 24 HOH HOH A . C 3 HOH 25 126 25 HOH HOH A . C 3 HOH 26 127 26 HOH HOH A . C 3 HOH 27 128 27 HOH HOH A . C 3 HOH 28 129 28 HOH HOH A . C 3 HOH 29 130 29 HOH HOH A . C 3 HOH 30 131 30 HOH HOH A . C 3 HOH 31 132 31 HOH HOH A . # 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 UMS 2 A UMS 2 ? DU ? 2 A BRU 4 A BRU 4 ? DU ? # _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 # 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' 7_555 y,x,-z 0.0000000000 1.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 # 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 O4 ? A UMS 2 ? A UMS 2 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O6 ? A DG 3 ? A DG 3 ? 1_555 71.0 ? 2 O4 ? A UMS 2 ? A UMS 2 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? C HOH . ? A HOH 105 ? 1_555 76.1 ? 3 O6 ? A DG 3 ? A DG 3 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? C HOH . ? A HOH 105 ? 1_555 86.5 ? 4 O4 ? A UMS 2 ? A UMS 2 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? C HOH . ? A HOH 111 ? 1_555 66.3 ? 5 O6 ? A DG 3 ? A DG 3 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? C HOH . ? A HOH 111 ? 1_555 130.7 ? 6 O ? C HOH . ? A HOH 105 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? C HOH . ? A HOH 111 ? 1_555 105.6 ? 7 O4 ? A UMS 2 ? A UMS 2 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? C HOH . ? A HOH 116 ? 7_555 146.8 ? 8 O6 ? A DG 3 ? A DG 3 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? C HOH . ? A HOH 116 ? 7_555 76.3 ? 9 O ? C HOH . ? A HOH 105 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? C HOH . ? A HOH 116 ? 7_555 107.8 ? 10 O ? C HOH . ? A HOH 111 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? C HOH . ? A HOH 116 ? 7_555 138.0 ? # 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 2006-05-23 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2023-08-30 # _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 4 '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_initial_refinement_model 5 4 'Structure model' pdbx_struct_conn_angle 6 4 'Structure model' struct_conn 7 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_comp_id' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 15 4 'Structure model' '_pdbx_struct_conn_angle.value' 16 4 'Structure model' '_struct_conn.pdbx_dist_value' 17 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 18 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 19 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 20 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 21 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 22 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 23 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 24 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 25 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 26 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 27 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 28 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 29 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 30 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 31 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 32 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CNS refinement 1.1 ? 1 CBASS 'data collection' . ? 2 HKL-2000 'data scaling' . ? 3 CNS phasing . ? 4 # 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 C5 A DG 3 ? ? C6 A DG 3 ? ? 1.483 1.419 0.064 0.010 N 2 1 C5 A DC 8 ? ? C6 A DC 8 ? ? 1.390 1.339 0.051 0.008 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 DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 100.68 108.00 -7.32 0.70 N 2 1 "O4'" A DG 3 ? ? "C1'" A DG 3 ? ? N9 A DG 3 ? ? 100.40 108.00 -7.60 0.70 N # 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 BA BA BA N N 1 BRU N1 N N N 2 BRU C2 C N N 3 BRU N3 N N N 4 BRU C4 C N N 5 BRU C5 C N N 6 BRU C6 C N N 7 BRU O2 O N N 8 BRU O4 O N N 9 BRU BR BR N N 10 BRU "C1'" C N R 11 BRU "C2'" C N N 12 BRU "C3'" C N S 13 BRU "C4'" C N R 14 BRU "O3'" O N N 15 BRU "O4'" O N N 16 BRU "C5'" C N N 17 BRU "O5'" O N N 18 BRU P P N N 19 BRU OP1 O N N 20 BRU OP2 O N N 21 BRU OP3 O N N 22 BRU HN3 H N N 23 BRU H6 H N N 24 BRU "H1'" H N N 25 BRU "H2'" H N N 26 BRU "H2''" H N N 27 BRU "H3'" H N N 28 BRU "H4'" H N N 29 BRU "HO3'" H N N 30 BRU "H5'" H N N 31 BRU "H5''" H N N 32 BRU HOP2 H N N 33 BRU HOP3 H N N 34 DA OP3 O N N 35 DA P P N N 36 DA OP1 O N N 37 DA OP2 O N N 38 DA "O5'" O N N 39 DA "C5'" C N N 40 DA "C4'" C N R 41 DA "O4'" O N N 42 DA "C3'" C N S 43 DA "O3'" O N N 44 DA "C2'" C N N 45 DA "C1'" C N R 46 DA N9 N Y N 47 DA C8 C Y N 48 DA N7 N Y N 49 DA C5 C Y N 50 DA C6 C Y N 51 DA N6 N N N 52 DA N1 N Y N 53 DA C2 C Y N 54 DA N3 N Y N 55 DA C4 C Y N 56 DA HOP3 H N N 57 DA HOP2 H N N 58 DA "H5'" H N N 59 DA "H5''" H N N 60 DA "H4'" H N N 61 DA "H3'" H N N 62 DA "HO3'" H N N 63 DA "H2'" H N N 64 DA "H2''" H N N 65 DA "H1'" H N N 66 DA H8 H N N 67 DA H61 H N N 68 DA H62 H N N 69 DA H2 H N N 70 DC OP3 O N N 71 DC P P N N 72 DC OP1 O N N 73 DC OP2 O N N 74 DC "O5'" O N N 75 DC "C5'" C N N 76 DC "C4'" C N R 77 DC "O4'" O N N 78 DC "C3'" C N S 79 DC "O3'" O N N 80 DC "C2'" C N N 81 DC "C1'" C N R 82 DC N1 N N N 83 DC C2 C N N 84 DC O2 O N N 85 DC N3 N N N 86 DC C4 C N N 87 DC N4 N N N 88 DC C5 C N N 89 DC C6 C N N 90 DC HOP3 H N N 91 DC HOP2 H N N 92 DC "H5'" H N N 93 DC "H5''" H N N 94 DC "H4'" H N N 95 DC "H3'" H N N 96 DC "HO3'" H N N 97 DC "H2'" H N N 98 DC "H2''" H N N 99 DC "H1'" H N N 100 DC H41 H N N 101 DC H42 H N N 102 DC H5 H N N 103 DC H6 H N N 104 DG OP3 O N N 105 DG P P N N 106 DG OP1 O N N 107 DG OP2 O N N 108 DG "O5'" O N N 109 DG "C5'" C N N 110 DG "C4'" C N R 111 DG "O4'" O N N 112 DG "C3'" C N S 113 DG "O3'" O N N 114 DG "C2'" C N N 115 DG "C1'" C N R 116 DG N9 N Y N 117 DG C8 C Y N 118 DG N7 N Y N 119 DG C5 C Y N 120 DG C6 C N N 121 DG O6 O N N 122 DG N1 N N N 123 DG C2 C N N 124 DG N2 N N N 125 DG N3 N N N 126 DG C4 C Y N 127 DG HOP3 H N N 128 DG HOP2 H N N 129 DG "H5'" H N N 130 DG "H5''" H N N 131 DG "H4'" H N N 132 DG "H3'" H N N 133 DG "HO3'" H N N 134 DG "H2'" H N N 135 DG "H2''" H N N 136 DG "H1'" H N N 137 DG H8 H N N 138 DG H1 H N N 139 DG H21 H N N 140 DG H22 H N N 141 HOH O O N N 142 HOH H1 H N N 143 HOH H2 H N N 144 UMS OP3 O N N 145 UMS P P N N 146 UMS OP1 O N N 147 UMS OP2 O N N 148 UMS "O5'" O N N 149 UMS "C5'" C N N 150 UMS "C4'" C N R 151 UMS "O4'" O N N 152 UMS "C3'" C N R 153 UMS "O3'" O N N 154 UMS "C2'" C N R 155 UMS "SE2'" SE N N 156 UMS "C1'" C N R 157 UMS "CA'" C N N 158 UMS N1 N N N 159 UMS C2 C N N 160 UMS O2 O N N 161 UMS N3 N N N 162 UMS C4 C N N 163 UMS O4 O N N 164 UMS C5 C N N 165 UMS C6 C N N 166 UMS HOP3 H N N 167 UMS HOP2 H N N 168 UMS "H5'" H N N 169 UMS "H5'2" H N N 170 UMS "H4'" H N N 171 UMS "H3'" H N N 172 UMS "HO3'" H N N 173 UMS "H2'" H N N 174 UMS "H1'" H N N 175 UMS "HA'" H N N 176 UMS "HA'2" H N N 177 UMS "HA'3" H N N 178 UMS H3 H N N 179 UMS H5 H N N 180 UMS H6 H N N 181 # 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 BRU N1 C2 sing N N 1 BRU N1 C6 sing N N 2 BRU N1 "C1'" sing N N 3 BRU C2 N3 sing N N 4 BRU C2 O2 doub N N 5 BRU N3 C4 sing N N 6 BRU N3 HN3 sing N N 7 BRU C4 C5 sing N N 8 BRU C4 O4 doub N N 9 BRU C5 C6 doub N N 10 BRU C5 BR sing N N 11 BRU C6 H6 sing N N 12 BRU "C1'" "C2'" sing N N 13 BRU "C1'" "O4'" sing N N 14 BRU "C1'" "H1'" sing N N 15 BRU "C2'" "C3'" sing N N 16 BRU "C2'" "H2'" sing N N 17 BRU "C2'" "H2''" sing N N 18 BRU "C3'" "C4'" sing N N 19 BRU "C3'" "O3'" sing N N 20 BRU "C3'" "H3'" sing N N 21 BRU "C4'" "O4'" sing N N 22 BRU "C4'" "C5'" sing N N 23 BRU "C4'" "H4'" sing N N 24 BRU "O3'" "HO3'" sing N N 25 BRU "C5'" "O5'" sing N N 26 BRU "C5'" "H5'" sing N N 27 BRU "C5'" "H5''" sing N N 28 BRU "O5'" P sing N N 29 BRU P OP1 doub N N 30 BRU P OP2 sing N N 31 BRU P OP3 sing N N 32 BRU OP2 HOP2 sing N N 33 BRU OP3 HOP3 sing N N 34 DA OP3 P sing N N 35 DA OP3 HOP3 sing N N 36 DA P OP1 doub N N 37 DA P OP2 sing N N 38 DA P "O5'" sing N N 39 DA OP2 HOP2 sing N N 40 DA "O5'" "C5'" sing N N 41 DA "C5'" "C4'" sing N N 42 DA "C5'" "H5'" sing N N 43 DA "C5'" "H5''" sing N N 44 DA "C4'" "O4'" sing N N 45 DA "C4'" "C3'" sing N N 46 DA "C4'" "H4'" sing N N 47 DA "O4'" "C1'" sing N N 48 DA "C3'" "O3'" sing N N 49 DA "C3'" "C2'" sing N N 50 DA "C3'" "H3'" sing N N 51 DA "O3'" "HO3'" sing N N 52 DA "C2'" "C1'" sing N N 53 DA "C2'" "H2'" sing N N 54 DA "C2'" "H2''" sing N N 55 DA "C1'" N9 sing N N 56 DA "C1'" "H1'" sing N N 57 DA N9 C8 sing Y N 58 DA N9 C4 sing Y N 59 DA C8 N7 doub Y N 60 DA C8 H8 sing N N 61 DA N7 C5 sing Y N 62 DA C5 C6 sing Y N 63 DA C5 C4 doub Y N 64 DA C6 N6 sing N N 65 DA C6 N1 doub Y N 66 DA N6 H61 sing N N 67 DA N6 H62 sing N N 68 DA N1 C2 sing Y N 69 DA C2 N3 doub Y N 70 DA C2 H2 sing N N 71 DA N3 C4 sing Y N 72 DC OP3 P sing N N 73 DC OP3 HOP3 sing N N 74 DC P OP1 doub N N 75 DC P OP2 sing N N 76 DC P "O5'" sing N N 77 DC OP2 HOP2 sing N N 78 DC "O5'" "C5'" sing N N 79 DC "C5'" "C4'" sing N N 80 DC "C5'" "H5'" sing N N 81 DC "C5'" "H5''" sing N N 82 DC "C4'" "O4'" sing N N 83 DC "C4'" "C3'" sing N N 84 DC "C4'" "H4'" sing N N 85 DC "O4'" "C1'" sing N N 86 DC "C3'" "O3'" sing N N 87 DC "C3'" "C2'" sing N N 88 DC "C3'" "H3'" sing N N 89 DC "O3'" "HO3'" sing N N 90 DC "C2'" "C1'" sing N N 91 DC "C2'" "H2'" sing N N 92 DC "C2'" "H2''" sing N N 93 DC "C1'" N1 sing N N 94 DC "C1'" "H1'" sing N N 95 DC N1 C2 sing N N 96 DC N1 C6 sing N N 97 DC C2 O2 doub N N 98 DC C2 N3 sing N N 99 DC N3 C4 doub N N 100 DC C4 N4 sing N N 101 DC C4 C5 sing N N 102 DC N4 H41 sing N N 103 DC N4 H42 sing N N 104 DC C5 C6 doub N N 105 DC C5 H5 sing N N 106 DC C6 H6 sing N N 107 DG OP3 P sing N N 108 DG OP3 HOP3 sing N N 109 DG P OP1 doub N N 110 DG P OP2 sing N N 111 DG P "O5'" sing N N 112 DG OP2 HOP2 sing N N 113 DG "O5'" "C5'" sing N N 114 DG "C5'" "C4'" sing N N 115 DG "C5'" "H5'" sing N N 116 DG "C5'" "H5''" sing N N 117 DG "C4'" "O4'" sing N N 118 DG "C4'" "C3'" sing N N 119 DG "C4'" "H4'" sing N N 120 DG "O4'" "C1'" sing N N 121 DG "C3'" "O3'" sing N N 122 DG "C3'" "C2'" sing N N 123 DG "C3'" "H3'" sing N N 124 DG "O3'" "HO3'" sing N N 125 DG "C2'" "C1'" sing N N 126 DG "C2'" "H2'" sing N N 127 DG "C2'" "H2''" sing N N 128 DG "C1'" N9 sing N N 129 DG "C1'" "H1'" sing N N 130 DG N9 C8 sing Y N 131 DG N9 C4 sing Y N 132 DG C8 N7 doub Y N 133 DG C8 H8 sing N N 134 DG N7 C5 sing Y N 135 DG C5 C6 sing N N 136 DG C5 C4 doub Y N 137 DG C6 O6 doub N N 138 DG C6 N1 sing N N 139 DG N1 C2 sing N N 140 DG N1 H1 sing N N 141 DG C2 N2 sing N N 142 DG C2 N3 doub N N 143 DG N2 H21 sing N N 144 DG N2 H22 sing N N 145 DG N3 C4 sing N N 146 HOH O H1 sing N N 147 HOH O H2 sing N N 148 UMS OP3 P sing N N 149 UMS OP3 HOP3 sing N N 150 UMS P OP1 doub N N 151 UMS P OP2 sing N N 152 UMS P "O5'" sing N N 153 UMS OP2 HOP2 sing N N 154 UMS "O5'" "C5'" sing N N 155 UMS "C5'" "C4'" sing N N 156 UMS "C5'" "H5'" sing N N 157 UMS "C5'" "H5'2" sing N N 158 UMS "C4'" "O4'" sing N N 159 UMS "C4'" "C3'" sing N N 160 UMS "C4'" "H4'" sing N N 161 UMS "O4'" "C1'" sing N N 162 UMS "C3'" "O3'" sing N N 163 UMS "C3'" "C2'" sing N N 164 UMS "C3'" "H3'" sing N N 165 UMS "O3'" "HO3'" sing N N 166 UMS "C2'" "SE2'" sing N N 167 UMS "C2'" "C1'" sing N N 168 UMS "C2'" "H2'" sing N N 169 UMS "SE2'" "CA'" sing N N 170 UMS "C1'" N1 sing N N 171 UMS "C1'" "H1'" sing N N 172 UMS "CA'" "HA'" sing N N 173 UMS "CA'" "HA'2" sing N N 174 UMS "CA'" "HA'3" sing N N 175 UMS N1 C2 sing N N 176 UMS N1 C6 sing N N 177 UMS C2 O2 doub N N 178 UMS C2 N3 sing N N 179 UMS N3 C4 sing N N 180 UMS N3 H3 sing N N 181 UMS C4 O4 doub N N 182 UMS C4 C5 sing N N 183 UMS C5 C6 doub N N 184 UMS C5 H5 sing N N 185 UMS C6 H6 sing N N 186 # _ndb_struct_conf_na.entry_id 2GPX _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 A DC 8 7_555 -0.324 -0.087 -0.087 -17.278 -11.004 -0.400 1 A_DG1:DC8_A A 1 ? A 8 ? 19 1 1 A UMS 2 1_555 A DA 7 7_555 0.095 -0.082 0.015 -6.327 -11.445 4.517 2 A_UMS2:DA7_A A 2 ? A 7 ? 20 1 1 A DG 3 1_555 A DC 6 7_555 -0.242 -0.125 0.026 -7.201 -13.786 1.945 3 A_DG3:DC6_A A 3 ? A 6 ? 19 1 1 A BRU 4 1_555 A DA 5 7_555 0.026 -0.071 0.218 -2.882 -8.458 -3.720 4 A_BRU4:DA5_A A 4 ? A 5 ? 20 1 1 A DA 5 1_555 A BRU 4 7_555 -0.026 -0.071 0.218 2.882 -8.458 -3.720 5 A_DA5:BRU4_A A 5 ? A 4 ? 20 1 1 A DC 6 1_555 A DG 3 7_555 0.242 -0.125 0.026 7.201 -13.786 1.945 6 A_DC6:DG3_A A 6 ? A 3 ? 19 1 1 A DA 7 1_555 A UMS 2 7_555 -0.095 -0.082 0.015 6.327 -11.445 4.517 7 A_DA7:UMS2_A A 7 ? A 2 ? 20 1 1 A DC 8 1_555 A DG 1 7_555 0.324 -0.087 -0.087 17.278 -11.004 -0.400 8 A_DC8:DG1_A A 8 ? 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 DG 1 1_555 A DC 8 7_555 A UMS 2 1_555 A DA 7 7_555 0.461 -0.981 3.063 1.044 13.297 31.729 -3.498 -0.637 2.479 23.087 -1.813 34.352 1 AA_DG1UMS2:DA7DC8_AA A 1 ? A 8 ? A 2 ? A 7 ? 1 A UMS 2 1_555 A DA 7 7_555 A DG 3 1_555 A DC 6 7_555 0.733 -1.485 3.107 1.853 15.879 27.268 -5.221 -1.058 2.004 30.575 -3.568 31.532 2 AA_UMS2DG3:DC6DA7_AA A 2 ? A 7 ? A 3 ? A 6 ? 1 A DG 3 1_555 A DC 6 7_555 A BRU 4 1_555 A DA 5 7_555 -0.605 -1.433 3.102 -1.484 2.082 37.580 -2.474 0.757 3.042 3.228 2.300 37.664 3 AA_DG3BRU4:DA5DC6_AA A 3 ? A 6 ? A 4 ? A 5 ? 1 A BRU 4 1_555 A DA 5 7_555 A DA 5 1_555 A BRU 4 7_555 0.000 -1.359 3.073 0.000 3.428 28.997 -3.380 0.000 2.896 6.816 0.000 29.194 4 AA_BRU4DA5:BRU4DA5_AA A 4 ? A 5 ? A 5 ? A 4 ? 1 A DA 5 1_555 A BRU 4 7_555 A DC 6 1_555 A DG 3 7_555 0.605 -1.433 3.102 1.484 2.082 37.580 -2.474 -0.757 3.042 3.228 -2.300 37.664 5 AA_DA5DC6:DG3BRU4_AA A 5 ? A 4 ? A 6 ? A 3 ? 1 A DC 6 1_555 A DG 3 7_555 A DA 7 1_555 A UMS 2 7_555 -0.733 -1.485 3.107 -1.853 15.879 27.268 -5.221 1.058 2.004 30.575 3.568 31.532 6 AA_DC6DA7:UMS2DG3_AA A 6 ? A 3 ? A 7 ? A 2 ? 1 A DA 7 1_555 A UMS 2 7_555 A DC 8 1_555 A DG 1 7_555 -0.461 -0.981 3.063 -1.044 13.297 31.729 -3.498 0.637 2.479 23.087 1.813 34.352 7 AA_DA7DC8:DG1UMS2_AA A 7 ? A 2 ? A 8 ? A 1 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'BARIUM ION' BA 3 water HOH # loop_ _pdbx_initial_refinement_model.id _pdbx_initial_refinement_model.entity_id_list _pdbx_initial_refinement_model.type _pdbx_initial_refinement_model.source_name _pdbx_initial_refinement_model.accession_code _pdbx_initial_refinement_model.details 1 ? 'experimental model' PDB 1Z7I 'PDB ENTRY 1Z7I, 2DJL' 2 ? 'experimental model' PDB 2DJL 'PDB ENTRY 1Z7I, 2DJL' #