data_1V3P # _entry.id 1V3P # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.380 _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 1V3P pdb_00001v3p 10.2210/pdb1v3p/pdb NDB UD0048 ? ? RCSB RCSB006166 ? ? WWPDB D_1000006166 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1V3N 'The same structure, Br-derivative' unspecified PDB 1V3O 'The same structure, I-derivative' unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1V3P _pdbx_database_status.recvd_initial_deposition_date 2003-11-03 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kondo, J.' 1 'Umeda, S.' 2 'Sunami, T.' 3 'Takenaka, A.' 4 # _citation.id primary _citation.title ;Crystal structures of a DNA octaplex with I-motif of G-quartets and its splitting into two quadruplexes suggest a folding mechanism of eight tandem repeats ; _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 32 _citation.page_first 2541 _citation.page_last 2549 _citation.year 2004 _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 15133122 _citation.pdbx_database_id_DOI 10.1093/nar/gkh575 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kondo, J.' 1 ? primary 'Adachi, W.' 2 ? primary 'Umeda, S.' 3 ? primary 'Sunami, T.' 4 ? primary 'Takenaka, A.' 5 ? # _cell.entry_id 1V3P _cell.length_a 36.180 _cell.length_b 36.380 _cell.length_c 63.120 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1V3P _symmetry.space_group_name_H-M 'I 2 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 # 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*(C38)P*GP*AP*GP*AP*GP*C)-3'" 2602.540 2 ? ? ? ? 2 non-polymer syn 'POTASSIUM ION' 39.098 2 ? ? ? ? 3 water nat water 18.015 97 ? ? ? ? # _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)(C38)(DG)(DA)(DG)(DA)(DG)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GCGAGAGC _entity_poly.pdbx_strand_id A,B _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 C38 n 1 3 DG n 1 4 DA n 1 5 DG n 1 6 DA n 1 7 DG n 1 8 DC n # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1V3P _struct_ref.pdbx_db_accession 1V3P _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1V3P A 1 ? 8 ? 1V3P 1 ? 8 ? 1 8 2 1 1V3P B 1 ? 8 ? 1V3P 9 ? 16 ? 9 16 # 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 C38 'DNA linking' n "5-IODO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 I N3 O7 P' 433.094 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 K non-polymer . 'POTASSIUM ION' ? 'K 1' 39.098 # _exptl.entry_id 1V3P _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.91 _exptl_crystal.density_percent_sol 35.70 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 277 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details ;2-methyl-2,4-pentanediol, spermine tetrahydrochloride, sodium chloride, potassium chloride, sodium cacodylate , pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K ; _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 2-methyl-2,4-pentanediol ? ? ? 1 2 1 'spermine tetrahydrochloride' ? ? ? 1 3 1 'sodium chloride' ? ? ? 1 4 1 'potassium chloride' ? ? ? 1 5 1 'sodium cacodylate' ? ? ? 1 6 2 'sodium chloride' ? ? ? 1 7 2 'potassium chloride' ? ? ? 1 8 2 'sodium cacodylate' ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 4' _diffrn_detector.pdbx_collection_date 2000-11-11 _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 1.0 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'PHOTON FACTORY BEAMLINE BL-18B' _diffrn_source.pdbx_synchrotron_site 'Photon Factory' _diffrn_source.pdbx_synchrotron_beamline BL-18B _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.0 # _reflns.entry_id 1V3P _reflns.observed_criterion_sigma_F 0.0 _reflns.observed_criterion_sigma_I 0.0 _reflns.d_resolution_high 2.3 _reflns.d_resolution_low 20 _reflns.number_all 2014 _reflns.number_obs 1980 _reflns.percent_possible_obs 98.4 _reflns.pdbx_Rmerge_I_obs 0.084 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 7.1 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.3 _reflns_shell.d_res_low 2.38 _reflns_shell.percent_possible_all 99.0 _reflns_shell.Rmerge_I_obs 0.24 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.4 _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 199 _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1V3P _refine.ls_d_res_high 2.3 _refine.ls_d_res_low 9.0 _refine.pdbx_ls_sigma_F 3.0 _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all 1972 _refine.ls_number_reflns_obs 1903 _refine.ls_number_reflns_R_free 174 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_R_work 0.234 _refine.ls_R_factor_R_free 0.265 _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 'PDB ENTRY 1V3N' _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_stereochemistry_target_values 'G. PARKINSON ET AL., (1996) ACTACRYST. D52, 57-64' _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.details ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_SU_B ? _refine.overall_SU_ML ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_data_cutoff_high_rms_absF ? _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 1V3P _refine_analyze.Luzzati_coordinate_error_obs 0.31 _refine_analyze.Luzzati_sigma_a_obs 0.29 _refine_analyze.Luzzati_d_res_low_obs 5.0 _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.occupancy_sum_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 332 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 97 _refine_hist.number_atoms_total 431 _refine_hist.d_res_high 2.3 _refine_hist.d_res_low 9.0 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function c_bond_d 0.005 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 0.9 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 20.8 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 0.8 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used ? _refine_ls_shell.d_res_high 2.3 _refine_ls_shell.d_res_low 2.38 _refine_ls_shell.number_reflns_R_work ? _refine_ls_shell.R_factor_R_work 0.37 _refine_ls_shell.percent_reflns_obs 87.1 _refine_ls_shell.R_factor_R_free 0.368 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 14 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # _struct.entry_id 1V3P _struct.title 'Crystal structure of d(GCGAGAGC): the DNA octaplex structure with I-motif of G-quartet' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1V3P _struct_keywords.pdbx_keywords DNA _struct_keywords.text ;octaplex, quadruplex, G-quartet, I-motif, I-motif of G-quartet, base-intercalated duplex, base-intercalated motif, sheared G:A pair, DNA, deoxyribonucleic acid, X-ray analysis ; # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 3 ? F N N 3 ? # _struct_biol.id 1 _struct_biol.details ;The biological assembly is an octaplex generated from the duplex in the asymmetric unit by the operations: (x, y, z), (1-x, 1-y, z), (x,1-y,2-z) and (1-x, y, 2-z). ; _struct_biol.pdbx_parent_biol_id ? # 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 C38 2 P ? ? A DG 1 A C38 2 1_555 ? ? ? ? ? ? ? 1.605 ? ? covale2 covale one ? A C38 2 "O3'" ? ? ? 1_555 A DG 3 P ? ? A C38 2 A DG 3 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale3 covale both ? B DG 1 "O3'" ? ? ? 1_555 B C38 2 P ? ? B DG 9 B C38 10 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale4 covale one ? B C38 2 "O3'" ? ? ? 1_555 B DG 3 P ? ? B C38 10 B DG 11 1_555 ? ? ? ? ? ? ? 1.602 ? ? metalc1 metalc ? ? A DG 5 O6 ? ? ? 1_555 C K . K ? ? A DG 5 A K 114 1_555 ? ? ? ? ? ? ? 2.689 ? ? metalc2 metalc ? ? A DG 5 O6 ? ? ? 3_655 C K . K ? ? A DG 5 A K 114 1_555 ? ? ? ? ? ? ? 2.689 ? ? metalc3 metalc ? ? A DG 5 O6 ? ? ? 2_665 C K . K ? ? A DG 5 A K 114 1_555 ? ? ? ? ? ? ? 2.689 ? ? metalc4 metalc ? ? A DG 5 O6 ? ? ? 4_565 C K . K ? ? A DG 5 A K 114 1_555 ? ? ? ? ? ? ? 2.689 ? ? metalc5 metalc ? ? A DG 5 O6 ? ? ? 4_565 D K . K ? ? A DG 5 B K 115 1_555 ? ? ? ? ? ? ? 2.887 ? ? metalc6 metalc ? ? A DG 5 O6 ? ? ? 3_655 D K . K ? ? A DG 5 B K 115 1_555 ? ? ? ? ? ? ? 2.887 ? ? metalc7 metalc ? ? E HOH . O ? ? ? 1_555 D K . K ? ? A HOH 49 B K 115 1_555 ? ? ? ? ? ? ? 2.675 ? ? metalc8 metalc ? ? E HOH . O ? ? ? 2_665 D K . K ? ? A HOH 49 B K 115 1_555 ? ? ? ? ? ? ? 2.675 ? ? metalc9 metalc ? ? C K . K ? ? ? 1_555 B DG 5 O6 ? ? A K 114 B DG 13 1_555 ? ? ? ? ? ? ? 2.680 ? ? metalc10 metalc ? ? C K . K ? ? ? 1_555 B DG 5 O6 ? ? A K 114 B DG 13 3_655 ? ? ? ? ? ? ? 2.680 ? ? metalc11 metalc ? ? C K . K ? ? ? 1_555 B DG 5 O6 ? ? A K 114 B DG 13 4_565 ? ? ? ? ? ? ? 2.680 ? ? metalc12 metalc ? ? C K . K ? ? ? 1_555 B DG 5 O6 ? ? A K 114 B DG 13 2_665 ? ? ? ? ? ? ? 2.680 ? ? metalc13 metalc ? ? C K . K ? ? ? 1_555 D K . K ? ? A K 114 B K 115 1_555 ? ? ? ? ? ? ? 3.375 ? ? metalc14 metalc ? ? C K . K ? ? ? 1_555 D K . K ? ? A K 114 B K 115 3_655 ? ? ? ? ? ? ? 3.375 ? ? metalc15 metalc ? ? C K . K ? ? ? 1_555 D K . K ? ? A K 114 B K 115 4_565 ? ? ? ? ? ? ? 3.375 ? ? metalc16 metalc ? ? C K . K ? ? ? 1_555 D K . K ? ? A K 114 B K 115 2_665 ? ? ? ? ? ? ? 3.375 ? ? metalc17 metalc ? ? B DG 5 O6 ? ? ? 1_555 D K . K ? ? B DG 13 B K 115 1_555 ? ? ? ? ? ? ? 2.799 ? ? metalc18 metalc ? ? B DG 5 O6 ? ? ? 2_665 D K . K ? ? B DG 13 B K 115 1_555 ? ? ? ? ? ? ? 2.799 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DC 8 N3 ? ? A DG 1 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DC 8 O2 ? ? A DG 1 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DC 8 N4 ? ? A DG 1 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C38 2 N3 ? ? ? 1_555 B DG 7 N1 ? ? A C38 2 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C38 2 N4 ? ? ? 1_555 B DG 7 O6 ? ? A C38 2 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C38 2 O2 ? ? ? 1_555 B DG 7 N2 ? ? A C38 2 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DA 6 N7 ? ? A DG 3 B DA 14 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog8 hydrog ? ? A DG 3 N3 ? ? ? 1_555 B DA 6 N6 ? ? A DG 3 B DA 14 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog9 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DG 3 N3 ? ? A DA 6 B DG 11 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog10 hydrog ? ? A DA 6 N7 ? ? ? 1_555 B DG 3 N2 ? ? A DA 6 B DG 11 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog11 hydrog ? ? A DG 7 N1 ? ? ? 1_555 B C38 2 N3 ? ? A DG 7 B C38 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B C38 2 O2 ? ? A DG 7 B C38 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DG 7 O6 ? ? ? 1_555 B C38 2 N4 ? ? A DG 7 B C38 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 1 N2 ? ? A DC 8 B DG 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A K 114 ? 12 'BINDING SITE FOR RESIDUE K A 114' AC2 Software B K 115 ? 10 'BINDING SITE FOR RESIDUE K B 115' # 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 12 DG A 5 ? DG A 5 . ? 3_655 ? 2 AC1 12 DG A 5 ? DG A 5 . ? 2_665 ? 3 AC1 12 DG A 5 ? DG A 5 . ? 4_565 ? 4 AC1 12 DG A 5 ? DG A 5 . ? 1_555 ? 5 AC1 12 DG B 5 ? DG B 13 . ? 4_565 ? 6 AC1 12 DG B 5 ? DG B 13 . ? 3_655 ? 7 AC1 12 DG B 5 ? DG B 13 . ? 2_665 ? 8 AC1 12 DG B 5 ? DG B 13 . ? 1_555 ? 9 AC1 12 K D . ? K B 115 . ? 2_665 ? 10 AC1 12 K D . ? K B 115 . ? 1_555 ? 11 AC1 12 K D . ? K B 115 . ? 4_565 ? 12 AC1 12 K D . ? K B 115 . ? 3_655 ? 13 AC2 10 DG A 5 ? DG A 5 . ? 3_655 ? 14 AC2 10 DG A 5 ? DG A 5 . ? 4_565 ? 15 AC2 10 HOH E . ? HOH A 49 . ? 1_555 ? 16 AC2 10 HOH E . ? HOH A 49 . ? 2_665 ? 17 AC2 10 K C . ? K A 114 . ? 3_655 ? 18 AC2 10 K C . ? K A 114 . ? 2_665 ? 19 AC2 10 K C . ? K A 114 . ? 4_565 ? 20 AC2 10 K C . ? K A 114 . ? 1_555 ? 21 AC2 10 DG B 5 ? DG B 13 . ? 1_555 ? 22 AC2 10 DG B 5 ? DG B 13 . ? 2_665 ? # _database_PDB_matrix.entry_id 1V3P _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 1V3P _atom_sites.fract_transf_matrix[1][1] 0.027640 _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] 0.027488 _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] 0.015843 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C I K N O P # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DG 1 1 1 DG G A . n A 1 2 C38 2 2 2 C38 CID A . n A 1 3 DG 3 3 3 DG G A . n A 1 4 DA 4 4 4 DA A A . n A 1 5 DG 5 5 5 DG G A . n A 1 6 DA 6 6 6 DA A A . n A 1 7 DG 7 7 7 DG G A . n A 1 8 DC 8 8 8 DC C A . n B 1 1 DG 1 9 9 DG G B . n B 1 2 C38 2 10 10 C38 CID B . n B 1 3 DG 3 11 11 DG G B . n B 1 4 DA 4 12 12 DA A B . n B 1 5 DG 5 13 13 DG G B . n B 1 6 DA 6 14 14 DA A B . n B 1 7 DG 7 15 15 DG G B . n B 1 8 DC 8 16 16 DC C B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 K 1 114 114 K K A . D 2 K 1 115 115 K K B . E 3 HOH 1 17 17 HOH HOH A . E 3 HOH 2 19 19 HOH HOH A . E 3 HOH 3 21 21 HOH HOH A . E 3 HOH 4 23 23 HOH HOH A . E 3 HOH 5 24 24 HOH HOH A . E 3 HOH 6 25 25 HOH HOH A . E 3 HOH 7 26 26 HOH HOH A . E 3 HOH 8 28 28 HOH HOH A . E 3 HOH 9 29 29 HOH HOH A . E 3 HOH 10 31 31 HOH HOH A . E 3 HOH 11 33 33 HOH HOH A . E 3 HOH 12 35 35 HOH HOH A . E 3 HOH 13 37 37 HOH HOH A . E 3 HOH 14 38 38 HOH HOH A . E 3 HOH 15 42 42 HOH HOH A . E 3 HOH 16 44 44 HOH HOH A . E 3 HOH 17 46 46 HOH HOH A . E 3 HOH 18 47 47 HOH HOH A . E 3 HOH 19 49 49 HOH HOH A . E 3 HOH 20 51 51 HOH HOH A . E 3 HOH 21 53 53 HOH HOH A . E 3 HOH 22 55 55 HOH HOH A . E 3 HOH 23 58 58 HOH HOH A . E 3 HOH 24 61 61 HOH HOH A . E 3 HOH 25 63 63 HOH HOH A . E 3 HOH 26 64 64 HOH HOH A . E 3 HOH 27 66 66 HOH HOH A . E 3 HOH 28 67 67 HOH HOH A . E 3 HOH 29 71 71 HOH HOH A . E 3 HOH 30 76 76 HOH HOH A . E 3 HOH 31 81 81 HOH HOH A . E 3 HOH 32 85 85 HOH HOH A . E 3 HOH 33 86 86 HOH HOH A . E 3 HOH 34 87 87 HOH HOH A . E 3 HOH 35 90 90 HOH HOH A . E 3 HOH 36 92 92 HOH HOH A . E 3 HOH 37 93 93 HOH HOH A . E 3 HOH 38 94 94 HOH HOH A . E 3 HOH 39 97 97 HOH HOH A . E 3 HOH 40 98 98 HOH HOH A . E 3 HOH 41 99 99 HOH HOH A . E 3 HOH 42 100 100 HOH HOH A . E 3 HOH 43 102 102 HOH HOH A . E 3 HOH 44 103 103 HOH HOH A . E 3 HOH 45 105 105 HOH HOH A . E 3 HOH 46 106 106 HOH HOH A . E 3 HOH 47 109 109 HOH HOH A . E 3 HOH 48 110 110 HOH HOH A . E 3 HOH 49 112 112 HOH HOH A . E 3 HOH 50 113 113 HOH HOH A . F 3 HOH 1 18 18 HOH HOH B . F 3 HOH 2 20 20 HOH HOH B . F 3 HOH 3 22 22 HOH HOH B . F 3 HOH 4 27 27 HOH HOH B . F 3 HOH 5 30 30 HOH HOH B . F 3 HOH 6 32 32 HOH HOH B . F 3 HOH 7 34 34 HOH HOH B . F 3 HOH 8 36 36 HOH HOH B . F 3 HOH 9 39 39 HOH HOH B . F 3 HOH 10 40 40 HOH HOH B . F 3 HOH 11 41 41 HOH HOH B . F 3 HOH 12 43 43 HOH HOH B . F 3 HOH 13 45 45 HOH HOH B . F 3 HOH 14 48 48 HOH HOH B . F 3 HOH 15 50 50 HOH HOH B . F 3 HOH 16 52 52 HOH HOH B . F 3 HOH 17 54 54 HOH HOH B . F 3 HOH 18 56 56 HOH HOH B . F 3 HOH 19 57 57 HOH HOH B . F 3 HOH 20 59 59 HOH HOH B . F 3 HOH 21 60 60 HOH HOH B . F 3 HOH 22 62 62 HOH HOH B . F 3 HOH 23 65 65 HOH HOH B . F 3 HOH 24 68 68 HOH HOH B . F 3 HOH 25 69 69 HOH HOH B . F 3 HOH 26 70 70 HOH HOH B . F 3 HOH 27 72 72 HOH HOH B . F 3 HOH 28 73 73 HOH HOH B . F 3 HOH 29 74 74 HOH HOH B . F 3 HOH 30 75 75 HOH HOH B . F 3 HOH 31 77 77 HOH HOH B . F 3 HOH 32 78 78 HOH HOH B . F 3 HOH 33 79 79 HOH HOH B . F 3 HOH 34 80 80 HOH HOH B . F 3 HOH 35 82 82 HOH HOH B . F 3 HOH 36 83 83 HOH HOH B . F 3 HOH 37 84 84 HOH HOH B . F 3 HOH 38 88 88 HOH HOH B . F 3 HOH 39 89 89 HOH HOH B . F 3 HOH 40 91 91 HOH HOH B . F 3 HOH 41 95 95 HOH HOH B . F 3 HOH 42 96 96 HOH HOH B . F 3 HOH 43 101 101 HOH HOH B . F 3 HOH 44 104 104 HOH HOH B . F 3 HOH 45 107 107 HOH HOH B . F 3 HOH 46 108 108 HOH HOH B . F 3 HOH 47 111 111 HOH HOH B . # 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 C38 2 A C38 2 ? DC ? 2 B C38 2 B C38 10 ? DC ? # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 _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_665 -x+1,-y+1,z -1.0000000000 0.0000000000 0.0000000000 36.1800000000 0.0000000000 -1.0000000000 0.0000000000 36.3800000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 3_655 -x+1,y,-z -1.0000000000 0.0000000000 0.0000000000 36.1800000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 4 'crystal symmetry operation' 4_565 x,-y+1,-z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 36.3800000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 # 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 K 114 ? C K . 2 1 B K 115 ? D K . 3 1 A HOH 17 ? E HOH . 4 1 A HOH 64 ? E HOH . 5 1 B HOH 75 ? F HOH . # 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 O6 ? A DG 5 ? A DG 5 ? 1_555 K ? C K . ? A K 114 ? 1_555 O6 ? A DG 5 ? A DG 5 ? 3_655 122.2 ? 2 O6 ? A DG 5 ? A DG 5 ? 1_555 K ? C K . ? A K 114 ? 1_555 O6 ? A DG 5 ? A DG 5 ? 2_665 111.0 ? 3 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? C K . ? A K 114 ? 1_555 O6 ? A DG 5 ? A DG 5 ? 2_665 96.3 ? 4 O6 ? A DG 5 ? A DG 5 ? 1_555 K ? C K . ? A K 114 ? 1_555 O6 ? A DG 5 ? A DG 5 ? 4_565 96.3 ? 5 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? C K . ? A K 114 ? 1_555 O6 ? A DG 5 ? A DG 5 ? 4_565 111.0 ? 6 O6 ? A DG 5 ? A DG 5 ? 2_665 K ? C K . ? A K 114 ? 1_555 O6 ? A DG 5 ? A DG 5 ? 4_565 122.2 ? 7 O6 ? A DG 5 ? A DG 5 ? 1_555 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 1_555 73.8 ? 8 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 1_555 67.6 ? 9 O6 ? A DG 5 ? A DG 5 ? 2_665 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 1_555 162.1 ? 10 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 1_555 73.0 ? 11 O6 ? A DG 5 ? A DG 5 ? 1_555 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 3_655 67.6 ? 12 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 3_655 73.8 ? 13 O6 ? A DG 5 ? A DG 5 ? 2_665 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 3_655 73.0 ? 14 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 3_655 162.1 ? 15 O6 ? B DG 5 ? B DG 13 ? 1_555 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 3_655 94.1 ? 16 O6 ? A DG 5 ? A DG 5 ? 1_555 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 4_565 73.0 ? 17 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 4_565 162.1 ? 18 O6 ? A DG 5 ? A DG 5 ? 2_665 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 4_565 67.6 ? 19 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 4_565 73.8 ? 20 O6 ? B DG 5 ? B DG 13 ? 1_555 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 4_565 129.3 ? 21 O6 ? B DG 5 ? B DG 13 ? 3_655 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 4_565 107.2 ? 22 O6 ? A DG 5 ? A DG 5 ? 1_555 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 162.1 ? 23 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 73.0 ? 24 O6 ? A DG 5 ? A DG 5 ? 2_665 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 73.8 ? 25 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 67.6 ? 26 O6 ? B DG 5 ? B DG 13 ? 1_555 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 107.2 ? 27 O6 ? B DG 5 ? B DG 13 ? 3_655 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 129.3 ? 28 O6 ? B DG 5 ? B DG 13 ? 4_565 K ? C K . ? A K 114 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 94.1 ? 29 O6 ? A DG 5 ? A DG 5 ? 1_555 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 1_555 124.5 ? 30 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 1_555 55.5 ? 31 O6 ? A DG 5 ? A DG 5 ? 2_665 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 1_555 124.5 ? 32 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 1_555 55.5 ? 33 O6 ? B DG 5 ? B DG 13 ? 1_555 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 1_555 53.6 ? 34 O6 ? B DG 5 ? B DG 13 ? 3_655 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 1_555 126.4 ? 35 O6 ? B DG 5 ? B DG 13 ? 4_565 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 1_555 126.4 ? 36 O6 ? B DG 5 ? B DG 13 ? 2_665 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 1_555 53.6 ? 37 O6 ? A DG 5 ? A DG 5 ? 1_555 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 3_655 55.5 ? 38 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 3_655 124.5 ? 39 O6 ? A DG 5 ? A DG 5 ? 2_665 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 3_655 55.5 ? 40 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 3_655 124.5 ? 41 O6 ? B DG 5 ? B DG 13 ? 1_555 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 3_655 126.4 ? 42 O6 ? B DG 5 ? B DG 13 ? 3_655 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 3_655 53.6 ? 43 O6 ? B DG 5 ? B DG 13 ? 4_565 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 3_655 53.6 ? 44 O6 ? B DG 5 ? B DG 13 ? 2_665 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 3_655 126.4 ? 45 K ? D K . ? B K 115 ? 1_555 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 3_655 180.0 ? 46 O6 ? A DG 5 ? A DG 5 ? 1_555 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 4_565 55.5 ? 47 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 4_565 124.5 ? 48 O6 ? A DG 5 ? A DG 5 ? 2_665 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 4_565 55.5 ? 49 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 4_565 124.5 ? 50 O6 ? B DG 5 ? B DG 13 ? 1_555 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 4_565 126.4 ? 51 O6 ? B DG 5 ? B DG 13 ? 3_655 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 4_565 53.6 ? 52 O6 ? B DG 5 ? B DG 13 ? 4_565 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 4_565 53.6 ? 53 O6 ? B DG 5 ? B DG 13 ? 2_665 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 4_565 126.4 ? 54 K ? D K . ? B K 115 ? 1_555 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 4_565 180.0 ? 55 K ? D K . ? B K 115 ? 3_655 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 4_565 0.0 ? 56 O6 ? A DG 5 ? A DG 5 ? 1_555 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 2_665 124.5 ? 57 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 2_665 55.5 ? 58 O6 ? A DG 5 ? A DG 5 ? 2_665 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 2_665 124.5 ? 59 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 2_665 55.5 ? 60 O6 ? B DG 5 ? B DG 13 ? 1_555 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 2_665 53.6 ? 61 O6 ? B DG 5 ? B DG 13 ? 3_655 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 2_665 126.4 ? 62 O6 ? B DG 5 ? B DG 13 ? 4_565 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 2_665 126.4 ? 63 O6 ? B DG 5 ? B DG 13 ? 2_665 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 2_665 53.6 ? 64 K ? D K . ? B K 115 ? 1_555 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 2_665 0.0 ? 65 K ? D K . ? B K 115 ? 3_655 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 2_665 180.0 ? 66 K ? D K . ? B K 115 ? 4_565 K ? C K . ? A K 114 ? 1_555 K ? D K . ? B K 115 ? 2_665 180.0 ? 67 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? D K . ? B K 115 ? 1_555 O6 ? A DG 5 ? A DG 5 ? 3_655 100.2 ? 68 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? D K . ? B K 115 ? 1_555 O ? E HOH . ? A HOH 49 ? 1_555 80.8 ? 69 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? D K . ? B K 115 ? 1_555 O ? E HOH . ? A HOH 49 ? 1_555 173.7 ? 70 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? D K . ? B K 115 ? 1_555 O ? E HOH . ? A HOH 49 ? 2_665 173.7 ? 71 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? D K . ? B K 115 ? 1_555 O ? E HOH . ? A HOH 49 ? 2_665 80.8 ? 72 O ? E HOH . ? A HOH 49 ? 1_555 K ? D K . ? B K 115 ? 1_555 O ? E HOH . ? A HOH 49 ? 2_665 98.8 ? 73 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? D K . ? B K 115 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 1_555 68.3 ? 74 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? D K . ? B K 115 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 1_555 63.4 ? 75 O ? E HOH . ? A HOH 49 ? 1_555 K ? D K . ? B K 115 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 1_555 111.7 ? 76 O ? E HOH . ? A HOH 49 ? 2_665 K ? D K . ? B K 115 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 1_555 117.4 ? 77 O6 ? A DG 5 ? A DG 5 ? 4_565 K ? D K . ? B K 115 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 63.4 ? 78 O6 ? A DG 5 ? A DG 5 ? 3_655 K ? D K . ? B K 115 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 68.3 ? 79 O ? E HOH . ? A HOH 49 ? 1_555 K ? D K . ? B K 115 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 117.4 ? 80 O ? E HOH . ? A HOH 49 ? 2_665 K ? D K . ? B K 115 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 111.7 ? 81 O6 ? B DG 5 ? B DG 13 ? 1_555 K ? D K . ? B K 115 ? 1_555 O6 ? B DG 5 ? B DG 13 ? 2_665 100.8 ? # 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 2004-06-08 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2023-10-25 # _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_asym_id' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 15 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 16 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 17 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 18 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 19 4 'Structure model' '_pdbx_struct_conn_angle.value' 20 4 'Structure model' '_struct_conn.conn_type_id' 21 4 'Structure model' '_struct_conn.id' 22 4 'Structure model' '_struct_conn.pdbx_dist_value' 23 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 24 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 25 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 26 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 27 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 28 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 29 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 30 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 31 4 'Structure model' '_struct_conn.ptnr1_symmetry' 32 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 33 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 34 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 35 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 36 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 37 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 38 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 39 4 'Structure model' '_struct_conn.ptnr2_symmetry' 40 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 41 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 42 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CrystalClear 'data collection' . ? 1 SCALA 'data scaling' . ? 2 AMoRE phasing . ? 3 CNS refinement 1.0 ? 4 CrystalClear 'data reduction' '(MSC/RIGAKU)' ? 5 CCP4 'data scaling' '(SCALA)' ? 6 # 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 C38 O3P O N N 1 C38 P P N N 2 C38 O1P O N N 3 C38 O2P O N N 4 C38 "O5'" O N N 5 C38 "C5'" C N N 6 C38 "C4'" C N R 7 C38 "O4'" O N N 8 C38 "C3'" C N S 9 C38 "O3'" O N N 10 C38 "C2'" C N N 11 C38 "C1'" C N R 12 C38 N1 N N N 13 C38 C2 C N N 14 C38 O2 O N N 15 C38 N3 N N N 16 C38 C4 C N N 17 C38 N4 N N N 18 C38 C5 C N N 19 C38 C6 C N N 20 C38 I I N N 21 C38 H3P H N N 22 C38 H2P H N N 23 C38 "H5'1" H N N 24 C38 "H5'2" H N N 25 C38 "H4'" H N N 26 C38 "H3'" H N N 27 C38 HA H N N 28 C38 "H2'1" H N N 29 C38 "H2'2" H N N 30 C38 "H1'" H N N 31 C38 H4N1 H N N 32 C38 H4N2 H N N 33 C38 H6 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 K K K N N 145 # 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 C38 O3P P sing N N 1 C38 O3P H3P sing N N 2 C38 P O1P doub N N 3 C38 P O2P sing N N 4 C38 P "O5'" sing N N 5 C38 O2P H2P sing N N 6 C38 "O5'" "C5'" sing N N 7 C38 "C5'" "C4'" sing N N 8 C38 "C5'" "H5'1" sing N N 9 C38 "C5'" "H5'2" sing N N 10 C38 "C4'" "O4'" sing N N 11 C38 "C4'" "C3'" sing N N 12 C38 "C4'" "H4'" sing N N 13 C38 "O4'" "C1'" sing N N 14 C38 "C3'" "O3'" sing N N 15 C38 "C3'" "C2'" sing N N 16 C38 "C3'" "H3'" sing N N 17 C38 "O3'" HA sing N N 18 C38 "C2'" "C1'" sing N N 19 C38 "C2'" "H2'1" sing N N 20 C38 "C2'" "H2'2" sing N N 21 C38 "C1'" N1 sing N N 22 C38 "C1'" "H1'" sing N N 23 C38 N1 C2 sing N N 24 C38 N1 C6 sing N N 25 C38 C2 O2 doub N N 26 C38 C2 N3 sing N N 27 C38 N3 C4 doub N N 28 C38 C4 N4 sing N N 29 C38 C4 C5 sing N N 30 C38 N4 H4N1 sing N N 31 C38 N4 H4N2 sing N N 32 C38 C5 C6 doub N N 33 C38 C5 I sing N N 34 C38 C6 H6 sing N N 35 DA OP3 P sing N N 36 DA OP3 HOP3 sing N N 37 DA P OP1 doub N N 38 DA P OP2 sing N N 39 DA P "O5'" sing N N 40 DA OP2 HOP2 sing N N 41 DA "O5'" "C5'" sing N N 42 DA "C5'" "C4'" sing N N 43 DA "C5'" "H5'" sing N N 44 DA "C5'" "H5''" sing N N 45 DA "C4'" "O4'" sing N N 46 DA "C4'" "C3'" sing N N 47 DA "C4'" "H4'" sing N N 48 DA "O4'" "C1'" sing N N 49 DA "C3'" "O3'" sing N N 50 DA "C3'" "C2'" sing N N 51 DA "C3'" "H3'" sing N N 52 DA "O3'" "HO3'" sing N N 53 DA "C2'" "C1'" sing N N 54 DA "C2'" "H2'" sing N N 55 DA "C2'" "H2''" sing N N 56 DA "C1'" N9 sing N N 57 DA "C1'" "H1'" sing N N 58 DA N9 C8 sing Y N 59 DA N9 C4 sing Y N 60 DA C8 N7 doub Y N 61 DA C8 H8 sing N N 62 DA N7 C5 sing Y N 63 DA C5 C6 sing Y N 64 DA C5 C4 doub Y N 65 DA C6 N6 sing N N 66 DA C6 N1 doub Y N 67 DA N6 H61 sing N N 68 DA N6 H62 sing N N 69 DA N1 C2 sing Y N 70 DA C2 N3 doub Y N 71 DA C2 H2 sing N N 72 DA N3 C4 sing Y N 73 DC OP3 P sing N N 74 DC OP3 HOP3 sing N N 75 DC P OP1 doub N N 76 DC P OP2 sing N N 77 DC P "O5'" sing N N 78 DC OP2 HOP2 sing N N 79 DC "O5'" "C5'" sing N N 80 DC "C5'" "C4'" sing N N 81 DC "C5'" "H5'" sing N N 82 DC "C5'" "H5''" sing N N 83 DC "C4'" "O4'" sing N N 84 DC "C4'" "C3'" sing N N 85 DC "C4'" "H4'" sing N N 86 DC "O4'" "C1'" sing N N 87 DC "C3'" "O3'" sing N N 88 DC "C3'" "C2'" sing N N 89 DC "C3'" "H3'" sing N N 90 DC "O3'" "HO3'" sing N N 91 DC "C2'" "C1'" sing N N 92 DC "C2'" "H2'" sing N N 93 DC "C2'" "H2''" sing N N 94 DC "C1'" N1 sing N N 95 DC "C1'" "H1'" sing N N 96 DC N1 C2 sing N N 97 DC N1 C6 sing N N 98 DC C2 O2 doub N N 99 DC C2 N3 sing N N 100 DC N3 C4 doub N N 101 DC C4 N4 sing N N 102 DC C4 C5 sing N N 103 DC N4 H41 sing N N 104 DC N4 H42 sing N N 105 DC C5 C6 doub N N 106 DC C5 H5 sing N N 107 DC C6 H6 sing N N 108 DG OP3 P sing N N 109 DG OP3 HOP3 sing N N 110 DG P OP1 doub N N 111 DG P OP2 sing N N 112 DG P "O5'" sing N N 113 DG OP2 HOP2 sing N N 114 DG "O5'" "C5'" sing N N 115 DG "C5'" "C4'" sing N N 116 DG "C5'" "H5'" sing N N 117 DG "C5'" "H5''" sing N N 118 DG "C4'" "O4'" sing N N 119 DG "C4'" "C3'" sing N N 120 DG "C4'" "H4'" sing N N 121 DG "O4'" "C1'" sing N N 122 DG "C3'" "O3'" sing N N 123 DG "C3'" "C2'" sing N N 124 DG "C3'" "H3'" sing N N 125 DG "O3'" "HO3'" sing N N 126 DG "C2'" "C1'" sing N N 127 DG "C2'" "H2'" sing N N 128 DG "C2'" "H2''" sing N N 129 DG "C1'" N9 sing N N 130 DG "C1'" "H1'" sing N N 131 DG N9 C8 sing Y N 132 DG N9 C4 sing Y N 133 DG C8 N7 doub Y N 134 DG C8 H8 sing N N 135 DG N7 C5 sing Y N 136 DG C5 C6 sing N N 137 DG C5 C4 doub Y N 138 DG C6 O6 doub N N 139 DG C6 N1 sing N N 140 DG N1 C2 sing N N 141 DG N1 H1 sing N N 142 DG C2 N2 sing N N 143 DG C2 N3 doub N N 144 DG N2 H21 sing N N 145 DG N2 H22 sing N N 146 DG N3 C4 sing N N 147 HOH O H1 sing N N 148 HOH O H2 sing N N 149 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1V3P 'b-form double helix' 1V3P 'mismatched base pair' 1V3P 'internal loop' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DG 1 1_555 B DC 8 1_555 -0.473 0.035 -0.317 -10.542 3.740 0.255 1 A_DG1:DC16_B A 1 ? B 16 ? 19 1 1 A C38 2 1_555 B DG 7 1_555 0.511 -0.091 0.050 16.170 3.583 3.599 2 A_C382:DG15_B A 2 ? B 15 ? 19 1 1 A DG 3 1_555 B DA 6 1_555 6.418 -4.642 1.476 26.533 -22.600 7.540 3 A_DG3:DA14_B A 3 ? B 14 ? 11 9 1 A DA 6 1_555 B DG 3 1_555 -6.137 -4.029 1.547 -25.910 -22.469 16.130 4 A_DA6:DG11_B A 6 ? B 11 ? 11 9 1 A DG 7 1_555 B C38 2 1_555 -0.298 -0.212 0.080 -16.031 4.366 -0.066 5 A_DG7:C3810_B A 7 ? B 10 ? 19 1 1 A DC 8 1_555 B DG 1 1_555 0.012 -0.288 0.045 -0.182 2.943 -0.846 6 A_DC8:DG9_B A 8 ? B 9 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DG 1 1_555 B DC 8 1_555 A C38 2 1_555 B DG 7 1_555 0.568 -0.153 2.793 -1.065 0.141 30.796 -0.312 -1.245 2.771 0.265 2.004 30.814 1 AA_DG1C382:DG15DC16_BB A 1 ? B 16 ? A 2 ? B 15 ? 1 A C38 2 1_555 B DG 7 1_555 A DG 3 1_555 B DA 6 1_555 0.440 1.409 3.217 0.790 9.294 50.962 0.973 -0.449 3.413 10.698 -0.909 51.753 2 AA_C382DG3:DA14DG15_BB A 2 ? B 15 ? A 3 ? B 14 ? 1 A DA 6 1_555 B DG 3 1_555 A DG 7 1_555 B C38 2 1_555 -0.645 1.782 3.379 -2.366 5.776 57.779 1.511 0.531 3.548 5.958 2.441 58.087 3 AA_DA6DG7:C3810DG11_BB A 6 ? B 11 ? A 7 ? B 10 ? 1 A DG 7 1_555 B C38 2 1_555 A DC 8 1_555 B DG 1 1_555 -0.216 0.203 3.072 -0.365 0.601 28.721 0.282 0.357 3.078 1.211 0.736 28.729 4 AA_DG7DC8:DG9C3810_BB A 7 ? B 10 ? A 8 ? B 9 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'POTASSIUM ION' K 3 water HOH # _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.accession_code 1V3N _pdbx_initial_refinement_model.details 'PDB ENTRY 1V3N' #