data_3GNK # _entry.id 3GNK # _audit.revision_id 1 _audit.creation_date 2009-03-17 _audit.creation_method ;Created by mtz2various (CCP4) from /userhome/xtal/abeer/newtcgg/newtcgg_refmac1.mtz ; _audit.update_record ? # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.378 _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 3GNK pdb_00003gnk 10.2210/pdb3gnk/pdb NDB UD0078 ? ? RCSB RCSB052083 ? ? WWPDB D_1000052083 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1l4j 'Calcium bound to the Holliday junction sequence d(TCGGTACCGA)4' unspecified PDB 1NVY 'Strontium bound to the Holliday junction sequence d(TCGGTACCGA)4' unspecified # _pdbx_database_status.entry_id 3GNK _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2009-03-17 _pdbx_database_status.status_code REL _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.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Naseer, A.' 1 'Cardin, C.J.' 2 # _citation.id primary _citation.title 'Calcium bound to the Holliday junction sequence d(TCGGCGCCGA)4' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Naseer, A.' 1 ? primary 'Cardin, C.J.' 2 ? # _cell.entry_id 3GNK _cell.length_a 65.9700 _cell.length_b 24.1700 _cell.length_c 73.8900 _cell.angle_alpha 90.0000 _cell.angle_beta 110.3700 _cell.angle_gamma 90.0000 _cell.pdbx_unique_axis ? _cell.Z_PDB 16 _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 3GNK _symmetry.Int_Tables_number 5 _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _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(*TP*CP*GP*GP*CP*GP*CP*CP*GP*A)-3'" 3045.992 4 ? ? ? 'Holliday junctions' 2 non-polymer syn 'CALCIUM ION' 40.078 2 ? ? ? ? 3 non-polymer syn 'SODIUM ION' 22.990 2 ? ? ? ? 4 water nat water 18.015 183 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DT)(DC)(DG)(DG)(DC)(DG)(DC)(DC)(DG)(DA)' _entity_poly.pdbx_seq_one_letter_code_can TCGGCGCCGA _entity_poly.pdbx_strand_id A,B,C,D _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 DT n 1 2 DC n 1 3 DG n 1 4 DG n 1 5 DC n 1 6 DG n 1 7 DC n 1 8 DC n 1 9 DG n 1 10 DA n # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3GNK _struct_ref.pdbx_db_accession 3GNK _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_seq_one_letter_code TCGGCGCCGA _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 3GNK A 1 ? 10 ? 3GNK 1 ? 10 ? 1 10 2 1 3GNK B 1 ? 10 ? 3GNK 11 ? 20 ? 11 20 3 1 3GNK C 1 ? 10 ? 3GNK 21 ? 30 ? 21 30 4 1 3GNK D 1 ? 10 ? 3GNK 31 ? 40 ? 31 40 # 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 CA non-polymer . 'CALCIUM ION' ? 'Ca 2' 40.078 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 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 # _exptl.entry_id 3GNK _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 45.73 _exptl_crystal.density_Matthews 2.27 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pH 7 _exptl_crystal_grow.temp 290.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_details 'CaCl2, MPD, NaCacodylate , pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 290K, temperature 290.0K' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.details 1 1 1 CaCl2 ? ? ? 1 2 1 MPD ? ? ? 1 3 1 'Na Cacodylate' ? ? ? 1 4 2 CaCl2 ? ? ? 1 5 2 MPD ? ? ? 1 6 2 'Na 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 'OXFORD SAPPHIRE CCD' _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details 'multilayer optics' # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'SEALED TUBE' _diffrn_source.type 'OXFORD DIFFRACTION ENHANCE ULTRA' _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.5418 _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? # _reflns.entry_id 3GNK _reflns.d_resolution_high 2.100 _reflns.d_resolution_low 16.347 _reflns.limit_h_max 29 _reflns.limit_h_min -31 _reflns.limit_k_max 11 _reflns.limit_k_min 0 _reflns.limit_l_max 35 _reflns.limit_l_min 0 _reflns.number_all 6643 _reflns.number_obs 6622 _reflns.observed_criterion_sigma_F 1 _reflns.observed_criterion_sigma_I 1 _reflns.percent_possible_obs 99.410 _reflns.pdbx_Rmerge_I_obs 0.062 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 11.44 _reflns.B_iso_Wilson_estimate 17.122 _reflns.pdbx_redundancy 3.9 _reflns.R_free_details ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.100 _reflns_shell.d_res_low 2.155 _reflns_shell.percent_possible_obs ? _reflns_shell.percent_possible_all 99.410 _reflns_shell.Rmerge_I_obs 0.194 _reflns_shell.meanI_over_sigI_obs 2.35 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_redundancy 3.00 _reflns_shell.number_unique_all 1773 _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.ls_d_res_high 2.100 _refine.ls_d_res_low 16.347 _refine.pdbx_ls_sigma_F . _refine.ls_percent_reflns_obs 99.410 _refine.ls_number_reflns_obs 6622 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.ls_R_factor_all 0.218 _refine.ls_R_factor_R_work 0.214 _refine.ls_R_factor_R_free 0.306 _refine.ls_percent_reflns_R_free 4.700 _refine.ls_number_reflns_R_free 311 _refine.B_iso_mean 17.122 _refine.aniso_B[1][1] -1.240 _refine.aniso_B[2][2] 1.300 _refine.aniso_B[3][3] -0.020 _refine.aniso_B[1][2] 0.000 _refine.aniso_B[1][3] 0.060 _refine.aniso_B[2][3] 0.000 _refine.correlation_coeff_Fo_to_Fc 0.948 _refine.correlation_coeff_Fo_to_Fc_free 0.872 _refine.overall_SU_R_Cruickshank_DPI 0.299 _refine.pdbx_overall_ESU_R_Free 0.260 _refine.overall_SU_ML 0.158 _refine.overall_SU_B 5.862 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.200 _refine.pdbx_solvent_ion_probe_radii 0.800 _refine.pdbx_solvent_shrinkage_radii 0.800 _refine.entry_id 3GNK _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all 6622 _refine.ls_R_factor_obs 0.218 _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_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 1L4J' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_stereochemistry_target_values ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.details ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_free ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_overall_ESU_R ? _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_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 808 _refine_hist.pdbx_number_atoms_ligand 4 _refine_hist.number_atoms_solvent 183 _refine_hist.number_atoms_total 995 _refine_hist.d_res_high 2.100 _refine_hist.d_res_low 16.347 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.weight _refine_ls_restr.dev_ideal_target _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 904 0.005 0.021 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1388 1.285 3.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 156 0.053 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 416 0.005 0.020 ? 'X-RAY DIFFRACTION' ? r_nbd_refined 269 0.162 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 515 0.293 0.200 ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 170 0.119 0.200 ? 'X-RAY DIFFRACTION' ? 'POTENTIAL METAL-ION REFINED ATOMS (A)' 7 0.163 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 35 0.098 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 13 0.071 0.200 ? 'X-RAY DIFFRACTION' ? r_scbond_it 1103 0.716 3.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 1388 1.079 4.500 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 2.100 _refine_ls_shell.d_res_low 2.155 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 98.970 _refine_ls_shell.number_reflns_R_work 453 _refine_ls_shell.R_factor_R_work 0.256 _refine_ls_shell.R_factor_R_free 0.344 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 28 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_obs 6622 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3GNK _struct.title 'Calcium bound to the Holliday junction sequence d(TCGGCGCCGA)4' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3GNK _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Holliday junction Calcium ion Ca2+, DNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 1 ? D N N 1 ? E N N 2 ? F N N 3 ? G N N 3 ? H N N 2 ? I N N 4 ? J N N 4 ? K N N 4 ? L N N 4 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? I HOH . O ? ? ? 1_555 E CA . CA ? ? A HOH 59 A CA 60 1_555 ? ? ? ? ? ? ? 2.673 ? ? metalc2 metalc ? ? E CA . CA ? ? ? 1_555 I HOH . O ? ? A CA 60 A HOH 61 1_555 ? ? ? ? ? ? ? 2.424 ? ? metalc3 metalc ? ? E CA . CA ? ? ? 1_555 I HOH . O ? ? A CA 60 A HOH 62 1_555 ? ? ? ? ? ? ? 2.446 ? ? metalc4 metalc ? ? E CA . CA ? ? ? 1_555 I HOH . O ? ? A CA 60 A HOH 63 1_555 ? ? ? ? ? ? ? 2.314 ? ? metalc5 metalc ? ? E CA . CA ? ? ? 1_555 I HOH . O ? ? A CA 60 A HOH 64 1_555 ? ? ? ? ? ? ? 2.673 ? ? metalc6 metalc ? ? E CA . CA ? ? ? 1_555 L HOH . O ? ? A CA 60 D HOH 58 1_555 ? ? ? ? ? ? ? 2.458 ? ? metalc7 metalc ? ? I HOH . O ? ? ? 1_555 G NA . NA ? ? A HOH 126 D NA 42 1_555 ? ? ? ? ? ? ? 2.407 ? ? metalc8 metalc ? ? I HOH . O ? ? ? 1_555 F NA . NA ? ? A HOH 182 B NA 106 1_555 ? ? ? ? ? ? ? 2.092 ? ? metalc9 metalc ? ? J HOH . O ? ? ? 1_555 F NA . NA ? ? B HOH 105 B NA 106 1_555 ? ? ? ? ? ? ? 2.387 ? ? metalc10 metalc ? ? F NA . NA ? ? ? 1_555 J HOH . O ? ? B NA 106 B HOH 107 1_555 ? ? ? ? ? ? ? 2.572 ? ? metalc11 metalc ? ? F NA . NA ? ? ? 1_555 J HOH . O ? ? B NA 106 B HOH 108 1_555 ? ? ? ? ? ? ? 2.185 ? ? metalc12 metalc ? ? F NA . NA ? ? ? 1_555 J HOH . O ? ? B NA 106 B HOH 181 1_555 ? ? ? ? ? ? ? 2.314 ? ? metalc13 metalc ? ? K HOH . O ? ? ? 1_555 H CA . CA ? ? C HOH 77 D CA 77 1_555 ? ? ? ? ? ? ? 2.427 ? ? metalc14 metalc ? ? K HOH . O ? ? ? 1_555 H CA . CA ? ? C HOH 78 D CA 77 1_555 ? ? ? ? ? ? ? 2.307 ? ? metalc15 metalc ? ? L HOH . O ? ? ? 1_555 G NA . NA ? ? D HOH 41 D NA 42 1_555 ? ? ? ? ? ? ? 2.975 ? ? metalc16 metalc ? ? G NA . NA ? ? ? 1_555 L HOH . O ? ? D NA 42 D HOH 125 1_555 ? ? ? ? ? ? ? 2.721 ? ? metalc17 metalc ? ? G NA . NA ? ? ? 1_555 L HOH . O ? ? D NA 42 D HOH 165 1_555 ? ? ? ? ? ? ? 2.518 ? ? metalc18 metalc ? ? L HOH . O ? ? ? 1_555 H CA . CA ? ? D HOH 76 D CA 77 1_555 ? ? ? ? ? ? ? 2.627 ? ? hydrog1 hydrog ? ? A DT 1 N3 ? ? ? 1_555 D DA 10 N1 ? ? A DT 1 D DA 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DT 1 O4 ? ? ? 1_555 D DA 10 N6 ? ? A DT 1 D DA 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 2 N3 ? ? ? 1_555 D DG 9 N1 ? ? A DC 2 D DG 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N4 ? ? ? 1_555 D DG 9 O6 ? ? A DC 2 D DG 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 O2 ? ? ? 1_555 D DG 9 N2 ? ? A DC 2 D DG 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 3 N1 ? ? ? 1_555 D DC 8 N3 ? ? A DG 3 D DC 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N2 ? ? ? 1_555 D DC 8 O2 ? ? A DG 3 D DC 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 O6 ? ? ? 1_555 D DC 8 N4 ? ? A DG 3 D DC 38 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 4 N1 ? ? ? 1_555 D DC 7 N3 ? ? A DG 4 D DC 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N2 ? ? ? 1_555 D DC 7 O2 ? ? A DG 4 D DC 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 O6 ? ? ? 1_555 D DC 7 N4 ? ? A DG 4 D DC 37 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 6 N1 ? ? A DC 5 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 6 O6 ? ? A DC 5 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 6 N2 ? ? A DC 5 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 7 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 7 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 7 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 7 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 7 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 7 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 9 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 9 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 9 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DA 10 N1 ? ? ? 1_555 B DT 1 N3 ? ? A DA 10 B DT 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DA 10 N6 ? ? ? 1_555 B DT 1 O4 ? ? A DA 10 B DT 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? B DC 7 N3 ? ? ? 1_555 C DG 4 N1 ? ? B DC 17 C DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? B DC 7 N4 ? ? ? 1_555 C DG 4 O6 ? ? B DC 17 C DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? B DC 7 O2 ? ? ? 1_555 C DG 4 N2 ? ? B DC 17 C DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? B DC 8 N3 ? ? ? 1_555 C DG 3 N1 ? ? B DC 18 C DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? B DC 8 N4 ? ? ? 1_555 C DG 3 O6 ? ? B DC 18 C DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? B DC 8 O2 ? ? ? 1_555 C DG 3 N2 ? ? B DC 18 C DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? B DG 9 N1 ? ? ? 1_555 C DC 2 N3 ? ? B DG 19 C DC 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? B DG 9 N2 ? ? ? 1_555 C DC 2 O2 ? ? B DG 19 C DC 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? B DG 9 O6 ? ? ? 1_555 C DC 2 N4 ? ? B DG 19 C DC 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? B DA 10 N1 ? ? ? 1_555 C DT 1 N3 ? ? B DA 20 C DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? B DA 10 N6 ? ? ? 1_555 C DT 1 O4 ? ? B DA 20 C DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? C DC 5 N3 ? ? ? 1_555 D DG 6 N1 ? ? C DC 25 D DG 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? C DC 5 N4 ? ? ? 1_555 D DG 6 O6 ? ? C DC 25 D DG 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? C DC 5 O2 ? ? ? 1_555 D DG 6 N2 ? ? C DC 25 D DG 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C DG 6 N1 ? ? ? 1_555 D DC 5 N3 ? ? C DG 26 D DC 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? C DG 6 N2 ? ? ? 1_555 D DC 5 O2 ? ? C DG 26 D DC 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? C DG 6 O6 ? ? ? 1_555 D DC 5 N4 ? ? C DG 26 D DC 35 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? C DC 7 N3 ? ? ? 1_555 D DG 4 N1 ? ? C DC 27 D DG 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? C DC 7 N4 ? ? ? 1_555 D DG 4 O6 ? ? C DC 27 D DG 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? C DC 7 O2 ? ? ? 1_555 D DG 4 N2 ? ? C DC 27 D DG 34 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? C DC 8 N3 ? ? ? 1_555 D DG 3 N1 ? ? C DC 28 D DG 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? C DC 8 N4 ? ? ? 1_555 D DG 3 O6 ? ? C DC 28 D DG 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? C DC 8 O2 ? ? ? 1_555 D DG 3 N2 ? ? C DC 28 D DG 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? C DG 9 N1 ? ? ? 1_555 D DC 2 N3 ? ? C DG 29 D DC 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? C DG 9 N2 ? ? ? 1_555 D DC 2 O2 ? ? C DG 29 D DC 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? C DG 9 O6 ? ? ? 1_555 D DC 2 N4 ? ? C DG 29 D DC 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? C DA 10 N1 ? ? ? 1_555 D DT 1 N3 ? ? C DA 30 D DT 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? C DA 10 N6 ? ? ? 1_555 D DT 1 O4 ? ? C DA 30 D DT 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference 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 CA 60 ? 6 'BINDING SITE FOR RESIDUE CA A 60' AC2 Software B NA 106 ? 5 'BINDING SITE FOR RESIDUE NA B 106' AC3 Software D NA 42 ? 5 'BINDING SITE FOR RESIDUE NA D 42' AC4 Software D CA 77 ? 3 'BINDING SITE FOR RESIDUE CA D 77' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 6 HOH I . ? HOH A 59 . ? 1_555 ? 2 AC1 6 HOH I . ? HOH A 61 . ? 1_555 ? 3 AC1 6 HOH I . ? HOH A 62 . ? 1_555 ? 4 AC1 6 HOH I . ? HOH A 63 . ? 1_555 ? 5 AC1 6 HOH I . ? HOH A 64 . ? 1_555 ? 6 AC1 6 HOH L . ? HOH D 58 . ? 1_555 ? 7 AC2 5 HOH I . ? HOH A 182 . ? 1_555 ? 8 AC2 5 HOH J . ? HOH B 105 . ? 1_555 ? 9 AC2 5 HOH J . ? HOH B 107 . ? 1_555 ? 10 AC2 5 HOH J . ? HOH B 108 . ? 1_555 ? 11 AC2 5 HOH J . ? HOH B 181 . ? 1_555 ? 12 AC3 5 HOH I . ? HOH A 126 . ? 1_555 ? 13 AC3 5 DG D 6 ? DG D 36 . ? 1_555 ? 14 AC3 5 HOH L . ? HOH D 41 . ? 1_555 ? 15 AC3 5 HOH L . ? HOH D 125 . ? 1_555 ? 16 AC3 5 HOH L . ? HOH D 165 . ? 1_555 ? 17 AC4 3 HOH K . ? HOH C 77 . ? 1_555 ? 18 AC4 3 HOH K . ? HOH C 78 . ? 1_555 ? 19 AC4 3 HOH L . ? HOH D 76 . ? 1_555 ? # _atom_sites.entry_id 3GNK _atom_sites.fract_transf_matrix[1][1] 0.0152 _atom_sites.fract_transf_matrix[1][2] 0.0000 _atom_sites.fract_transf_matrix[1][3] 0.0056 _atom_sites.fract_transf_matrix[2][1] 0.0000 _atom_sites.fract_transf_matrix[2][2] 0.0414 _atom_sites.fract_transf_matrix[2][3] 0.0000 _atom_sites.fract_transf_matrix[3][1] 0.0000 _atom_sites.fract_transf_matrix[3][2] 0.0000 _atom_sites.fract_transf_matrix[3][3] 0.0144 _atom_sites.fract_transf_vector[1] 0.0000 _atom_sites.fract_transf_vector[2] 0.0000 _atom_sites.fract_transf_vector[3] 0.0000 # loop_ _atom_type.symbol C CA N NA 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 DT 1 1 1 DT DT A . n A 1 2 DC 2 2 2 DC DC A . n A 1 3 DG 3 3 3 DG DG A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DC 5 5 5 DC DC A . n A 1 6 DG 6 6 6 DG DG A . n A 1 7 DC 7 7 7 DC DC A . n A 1 8 DC 8 8 8 DC DC A . n A 1 9 DG 9 9 9 DG DG A . n A 1 10 DA 10 10 10 DA DA A . n B 1 1 DT 1 11 11 DT DT B . n B 1 2 DC 2 12 12 DC DC B . n B 1 3 DG 3 13 13 DG DG B . n B 1 4 DG 4 14 14 DG DG B . n B 1 5 DC 5 15 15 DC DC B . n B 1 6 DG 6 16 16 DG DG B . n B 1 7 DC 7 17 17 DC DC B . n B 1 8 DC 8 18 18 DC DC B . n B 1 9 DG 9 19 19 DG DG B . n B 1 10 DA 10 20 20 DA DA B . n C 1 1 DT 1 21 21 DT DT C . n C 1 2 DC 2 22 22 DC DC C . n C 1 3 DG 3 23 23 DG DG C . n C 1 4 DG 4 24 24 DG DG C . n C 1 5 DC 5 25 25 DC DC C . n C 1 6 DG 6 26 26 DG DG C . n C 1 7 DC 7 27 27 DC DC C . n C 1 8 DC 8 28 28 DC DC C . n C 1 9 DG 9 29 29 DG DG C . n C 1 10 DA 10 30 30 DA DA C . n D 1 1 DT 1 31 31 DT DT D . n D 1 2 DC 2 32 32 DC DC D . n D 1 3 DG 3 33 33 DG DG D . n D 1 4 DG 4 34 34 DG DG D . n D 1 5 DC 5 35 35 DC DC D . n D 1 6 DG 6 36 36 DG DG D . n D 1 7 DC 7 37 37 DC DC D . n D 1 8 DC 8 38 38 DC DC D . n D 1 9 DG 9 39 39 DG DG D . n D 1 10 DA 10 40 40 DA DA D . 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 E 2 CA 1 60 60 CA CA A . F 3 NA 1 106 106 NA NA B . G 3 NA 1 42 42 NA NA D . H 2 CA 1 77 77 CA CA D . I 4 HOH 1 44 44 HOH HOH A . I 4 HOH 2 46 46 HOH HOH A . I 4 HOH 3 52 52 HOH HOH A . I 4 HOH 4 53 53 HOH HOH A . I 4 HOH 5 55 55 HOH HOH A . I 4 HOH 6 57 57 HOH HOH A . I 4 HOH 7 59 59 HOH HOH A . I 4 HOH 8 61 61 HOH HOH A . I 4 HOH 9 62 62 HOH HOH A . I 4 HOH 10 63 63 HOH HOH A . I 4 HOH 11 64 64 HOH HOH A . I 4 HOH 12 67 67 HOH HOH A . I 4 HOH 13 68 68 HOH HOH A . I 4 HOH 14 74 74 HOH HOH A . I 4 HOH 15 100 100 HOH HOH A . I 4 HOH 16 102 102 HOH HOH A . I 4 HOH 17 115 115 HOH HOH A . I 4 HOH 18 123 123 HOH HOH A . I 4 HOH 19 126 126 HOH HOH A . I 4 HOH 20 137 137 HOH HOH A . I 4 HOH 21 138 138 HOH HOH A . I 4 HOH 22 139 139 HOH HOH A . I 4 HOH 23 153 153 HOH HOH A . I 4 HOH 24 154 154 HOH HOH A . I 4 HOH 25 156 156 HOH HOH A . I 4 HOH 26 157 157 HOH HOH A . I 4 HOH 27 158 158 HOH HOH A . I 4 HOH 28 159 159 HOH HOH A . I 4 HOH 29 169 169 HOH HOH A . I 4 HOH 30 170 170 HOH HOH A . I 4 HOH 31 171 171 HOH HOH A . I 4 HOH 32 172 172 HOH HOH A . I 4 HOH 33 179 179 HOH HOH A . I 4 HOH 34 180 180 HOH HOH A . I 4 HOH 35 182 182 HOH HOH A . I 4 HOH 36 185 185 HOH HOH A . I 4 HOH 37 186 186 HOH HOH A . I 4 HOH 38 190 190 HOH HOH A . I 4 HOH 39 194 194 HOH HOH A . I 4 HOH 40 195 195 HOH HOH A . I 4 HOH 41 200 200 HOH HOH A . I 4 HOH 42 201 201 HOH HOH A . I 4 HOH 43 202 202 HOH HOH A . I 4 HOH 44 210 210 HOH HOH A . I 4 HOH 45 215 215 HOH HOH A . I 4 HOH 46 216 216 HOH HOH A . J 4 HOH 1 43 43 HOH HOH B . J 4 HOH 2 47 47 HOH HOH B . J 4 HOH 3 51 51 HOH HOH B . J 4 HOH 4 73 73 HOH HOH B . J 4 HOH 5 96 96 HOH HOH B . J 4 HOH 6 101 101 HOH HOH B . J 4 HOH 7 103 103 HOH HOH B . J 4 HOH 8 104 104 HOH HOH B . J 4 HOH 9 105 105 HOH HOH B . J 4 HOH 10 107 107 HOH HOH B . J 4 HOH 11 108 108 HOH HOH B . J 4 HOH 12 109 109 HOH HOH B . J 4 HOH 13 110 110 HOH HOH B . J 4 HOH 14 111 111 HOH HOH B . J 4 HOH 15 112 112 HOH HOH B . J 4 HOH 16 113 113 HOH HOH B . J 4 HOH 17 114 114 HOH HOH B . J 4 HOH 18 116 116 HOH HOH B . J 4 HOH 19 121 121 HOH HOH B . J 4 HOH 20 133 133 HOH HOH B . J 4 HOH 21 141 141 HOH HOH B . J 4 HOH 22 143 143 HOH HOH B . J 4 HOH 23 146 146 HOH HOH B . J 4 HOH 24 149 149 HOH HOH B . J 4 HOH 25 150 150 HOH HOH B . J 4 HOH 26 151 151 HOH HOH B . J 4 HOH 27 152 152 HOH HOH B . J 4 HOH 28 155 155 HOH HOH B . J 4 HOH 29 160 160 HOH HOH B . J 4 HOH 30 168 168 HOH HOH B . J 4 HOH 31 181 181 HOH HOH B . J 4 HOH 32 183 183 HOH HOH B . J 4 HOH 33 184 184 HOH HOH B . J 4 HOH 34 191 191 HOH HOH B . J 4 HOH 35 192 192 HOH HOH B . J 4 HOH 36 193 193 HOH HOH B . J 4 HOH 37 203 203 HOH HOH B . J 4 HOH 38 207 207 HOH HOH B . J 4 HOH 39 208 208 HOH HOH B . J 4 HOH 40 209 209 HOH HOH B . J 4 HOH 41 218 218 HOH HOH B . J 4 HOH 42 220 220 HOH HOH B . K 4 HOH 1 48 48 HOH HOH C . K 4 HOH 2 49 49 HOH HOH C . K 4 HOH 3 50 50 HOH HOH C . K 4 HOH 4 54 54 HOH HOH C . K 4 HOH 5 56 56 HOH HOH C . K 4 HOH 6 75 75 HOH HOH C . K 4 HOH 7 77 77 HOH HOH C . K 4 HOH 8 78 78 HOH HOH C . K 4 HOH 9 80 80 HOH HOH C . K 4 HOH 10 81 81 HOH HOH C . K 4 HOH 11 82 82 HOH HOH C . K 4 HOH 12 85 85 HOH HOH C . K 4 HOH 13 92 92 HOH HOH C . K 4 HOH 14 93 93 HOH HOH C . K 4 HOH 15 94 94 HOH HOH C . K 4 HOH 16 95 95 HOH HOH C . K 4 HOH 17 97 97 HOH HOH C . K 4 HOH 18 98 98 HOH HOH C . K 4 HOH 19 99 99 HOH HOH C . K 4 HOH 20 122 122 HOH HOH C . K 4 HOH 21 124 124 HOH HOH C . K 4 HOH 22 127 127 HOH HOH C . K 4 HOH 23 131 131 HOH HOH C . K 4 HOH 24 134 134 HOH HOH C . K 4 HOH 25 135 135 HOH HOH C . K 4 HOH 26 136 136 HOH HOH C . K 4 HOH 27 144 144 HOH HOH C . K 4 HOH 28 145 145 HOH HOH C . K 4 HOH 29 147 147 HOH HOH C . K 4 HOH 30 148 148 HOH HOH C . K 4 HOH 31 163 163 HOH HOH C . K 4 HOH 32 174 174 HOH HOH C . K 4 HOH 33 176 176 HOH HOH C . K 4 HOH 34 178 178 HOH HOH C . K 4 HOH 35 197 197 HOH HOH C . K 4 HOH 36 204 204 HOH HOH C . K 4 HOH 37 205 205 HOH HOH C . K 4 HOH 38 206 206 HOH HOH C . K 4 HOH 39 221 221 HOH HOH C . K 4 HOH 40 222 222 HOH HOH C . K 4 HOH 41 225 225 HOH HOH C . L 4 HOH 1 41 41 HOH HOH D . L 4 HOH 2 45 45 HOH HOH D . L 4 HOH 3 58 58 HOH HOH D . L 4 HOH 4 65 65 HOH HOH D . L 4 HOH 5 66 66 HOH HOH D . L 4 HOH 6 69 69 HOH HOH D . L 4 HOH 7 70 70 HOH HOH D . L 4 HOH 8 71 71 HOH HOH D . L 4 HOH 9 72 72 HOH HOH D . L 4 HOH 10 76 76 HOH HOH D . L 4 HOH 11 79 79 HOH HOH D . L 4 HOH 12 83 83 HOH HOH D . L 4 HOH 13 84 84 HOH HOH D . L 4 HOH 14 86 86 HOH HOH D . L 4 HOH 15 87 87 HOH HOH D . L 4 HOH 16 88 88 HOH HOH D . L 4 HOH 17 89 89 HOH HOH D . L 4 HOH 18 90 90 HOH HOH D . L 4 HOH 19 91 91 HOH HOH D . L 4 HOH 20 117 117 HOH HOH D . L 4 HOH 21 118 118 HOH HOH D . L 4 HOH 22 119 119 HOH HOH D . L 4 HOH 23 120 120 HOH HOH D . L 4 HOH 24 125 125 HOH HOH D . L 4 HOH 25 128 128 HOH HOH D . L 4 HOH 26 129 129 HOH HOH D . L 4 HOH 27 130 130 HOH HOH D . L 4 HOH 28 132 132 HOH HOH D . L 4 HOH 29 140 140 HOH HOH D . L 4 HOH 30 142 142 HOH HOH D . L 4 HOH 31 161 161 HOH HOH D . L 4 HOH 32 162 162 HOH HOH D . L 4 HOH 33 164 164 HOH HOH D . L 4 HOH 34 165 165 HOH HOH D . L 4 HOH 35 166 166 HOH HOH D . L 4 HOH 36 167 167 HOH HOH D . L 4 HOH 37 173 173 HOH HOH D . L 4 HOH 38 175 175 HOH HOH D . L 4 HOH 39 177 177 HOH HOH D . L 4 HOH 40 187 187 HOH HOH D . L 4 HOH 41 188 188 HOH HOH D . L 4 HOH 42 189 189 HOH HOH D . L 4 HOH 43 196 196 HOH HOH D . L 4 HOH 44 198 198 HOH HOH D . L 4 HOH 45 199 199 HOH HOH D . L 4 HOH 46 211 211 HOH HOH D . L 4 HOH 47 212 212 HOH HOH D . L 4 HOH 48 213 213 HOH HOH D . L 4 HOH 49 214 214 HOH HOH D . L 4 HOH 50 217 217 HOH HOH D . L 4 HOH 51 219 219 HOH HOH D . L 4 HOH 52 223 223 HOH HOH D . L 4 HOH 53 224 224 HOH HOH D . L 4 HOH 54 226 226 HOH HOH D . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 3280 ? 1 MORE -43 ? 1 'SSA (A^2)' 6910 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 190 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id I _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? I HOH . ? A HOH 59 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? I HOH . ? A HOH 61 ? 1_555 110.8 ? 2 O ? I HOH . ? A HOH 59 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? I HOH . ? A HOH 62 ? 1_555 139.5 ? 3 O ? I HOH . ? A HOH 61 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? I HOH . ? A HOH 62 ? 1_555 87.1 ? 4 O ? I HOH . ? A HOH 59 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? I HOH . ? A HOH 63 ? 1_555 70.8 ? 5 O ? I HOH . ? A HOH 61 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? I HOH . ? A HOH 63 ? 1_555 177.1 ? 6 O ? I HOH . ? A HOH 62 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? I HOH . ? A HOH 63 ? 1_555 90.1 ? 7 O ? I HOH . ? A HOH 59 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? I HOH . ? A HOH 64 ? 1_555 75.6 ? 8 O ? I HOH . ? A HOH 61 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? I HOH . ? A HOH 64 ? 1_555 77.8 ? 9 O ? I HOH . ? A HOH 62 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? I HOH . ? A HOH 64 ? 1_555 73.1 ? 10 O ? I HOH . ? A HOH 63 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? I HOH . ? A HOH 64 ? 1_555 100.4 ? 11 O ? I HOH . ? A HOH 59 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? L HOH . ? D HOH 58 ? 1_555 72.5 ? 12 O ? I HOH . ? A HOH 61 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? L HOH . ? D HOH 58 ? 1_555 85.9 ? 13 O ? I HOH . ? A HOH 62 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? L HOH . ? D HOH 58 ? 1_555 147.0 ? 14 O ? I HOH . ? A HOH 63 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? L HOH . ? D HOH 58 ? 1_555 97.0 ? 15 O ? I HOH . ? A HOH 64 ? 1_555 CA ? E CA . ? A CA 60 ? 1_555 O ? L HOH . ? D HOH 58 ? 1_555 136.0 ? 16 O ? I HOH . ? A HOH 126 ? 1_555 NA ? G NA . ? D NA 42 ? 1_555 O ? L HOH . ? D HOH 41 ? 1_555 101.9 ? 17 O ? I HOH . ? A HOH 126 ? 1_555 NA ? G NA . ? D NA 42 ? 1_555 O ? L HOH . ? D HOH 125 ? 1_555 109.1 ? 18 O ? L HOH . ? D HOH 41 ? 1_555 NA ? G NA . ? D NA 42 ? 1_555 O ? L HOH . ? D HOH 125 ? 1_555 110.8 ? 19 O ? I HOH . ? A HOH 126 ? 1_555 NA ? G NA . ? D NA 42 ? 1_555 O ? L HOH . ? D HOH 165 ? 1_555 120.8 ? 20 O ? L HOH . ? D HOH 41 ? 1_555 NA ? G NA . ? D NA 42 ? 1_555 O ? L HOH . ? D HOH 165 ? 1_555 113.9 ? 21 O ? L HOH . ? D HOH 125 ? 1_555 NA ? G NA . ? D NA 42 ? 1_555 O ? L HOH . ? D HOH 165 ? 1_555 100.4 ? 22 O ? I HOH . ? A HOH 182 ? 1_555 NA ? F NA . ? B NA 106 ? 1_555 O ? J HOH . ? B HOH 105 ? 1_555 74.1 ? 23 O ? I HOH . ? A HOH 182 ? 1_555 NA ? F NA . ? B NA 106 ? 1_555 O ? J HOH . ? B HOH 107 ? 1_555 71.4 ? 24 O ? J HOH . ? B HOH 105 ? 1_555 NA ? F NA . ? B NA 106 ? 1_555 O ? J HOH . ? B HOH 107 ? 1_555 125.8 ? 25 O ? I HOH . ? A HOH 182 ? 1_555 NA ? F NA . ? B NA 106 ? 1_555 O ? J HOH . ? B HOH 108 ? 1_555 136.4 ? 26 O ? J HOH . ? B HOH 105 ? 1_555 NA ? F NA . ? B NA 106 ? 1_555 O ? J HOH . ? B HOH 108 ? 1_555 77.8 ? 27 O ? J HOH . ? B HOH 107 ? 1_555 NA ? F NA . ? B NA 106 ? 1_555 O ? J HOH . ? B HOH 108 ? 1_555 100.6 ? 28 O ? I HOH . ? A HOH 182 ? 1_555 NA ? F NA . ? B NA 106 ? 1_555 O ? J HOH . ? B HOH 181 ? 1_555 135.5 ? 29 O ? J HOH . ? B HOH 105 ? 1_555 NA ? F NA . ? B NA 106 ? 1_555 O ? J HOH . ? B HOH 181 ? 1_555 83.4 ? 30 O ? J HOH . ? B HOH 107 ? 1_555 NA ? F NA . ? B NA 106 ? 1_555 O ? J HOH . ? B HOH 181 ? 1_555 148.3 ? 31 O ? J HOH . ? B HOH 108 ? 1_555 NA ? F NA . ? B NA 106 ? 1_555 O ? J HOH . ? B HOH 181 ? 1_555 71.5 ? 32 O ? K HOH . ? C HOH 77 ? 1_555 CA ? H CA . ? D CA 77 ? 1_555 O ? K HOH . ? C HOH 78 ? 1_555 85.9 ? 33 O ? K HOH . ? C HOH 77 ? 1_555 CA ? H CA . ? D CA 77 ? 1_555 O ? L HOH . ? D HOH 76 ? 1_555 71.2 ? 34 O ? K HOH . ? C HOH 78 ? 1_555 CA ? H CA . ? D CA 77 ? 1_555 O ? L HOH . ? D HOH 76 ? 1_555 105.8 ? # 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 2009-03-31 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-11-01 4 'Structure model' 1 3 2018-04-04 5 'Structure model' 1 4 2023-09-06 # _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' 'Refinement description' 3 4 'Structure model' 'Data collection' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' 7 5 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' software 2 4 'Structure model' diffrn_source 3 5 'Structure model' chem_comp_atom 4 5 'Structure model' chem_comp_bond 5 5 'Structure model' database_2 6 5 'Structure model' pdbx_initial_refinement_model 7 5 'Structure model' pdbx_struct_conn_angle 8 5 'Structure model' struct_conn 9 5 '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 3 'Structure model' '_software.name' 2 4 'Structure model' '_diffrn_source.type' 3 5 'Structure model' '_database_2.pdbx_DOI' 4 5 'Structure model' '_database_2.pdbx_database_accession' 5 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_asym_id' 9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 14 5 'Structure model' '_pdbx_struct_conn_angle.value' 15 5 'Structure model' '_struct_conn.pdbx_dist_value' 16 5 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 17 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 18 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 19 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 20 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 21 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 22 5 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 23 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 24 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 25 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 26 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 27 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 28 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 29 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 30 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _symmetry_equiv.id _symmetry_equiv.pos_as_xyz 1 'X, Y, Z' 2 '-X, Y, -Z' 3 'X+1/2, Y+1/2, Z' 4 '-X+1/2, Y+1/2, -Z' # loop_ _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id _software.pdbx_ordinal CNS . ? package 'Axel T. Brunger' axel.brunger@yale.edu refinement http://cns.csb.yale.edu/v1.1/ Fortran_77 ? 1 PDB_EXTRACT 1.401 'March 3, 2004' program H.Yang sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C/C++ ? 2 CrysalisPro Red ? ? ? ? 'data collection' ? ? ? 3 CrysalisPro Red ? ? ? ? 'data reduction' ? ? ? 4 MOLREP . ? ? ? ? phasing ? ? ? 5 REFMAC 5.0 ? ? ? ? refinement ? ? ? 6 # 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 DT 1 ? ? "C1'" A DT 1 ? ? N1 A DT 1 ? ? 110.77 108.30 2.47 0.30 N 2 1 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 111.01 108.30 2.71 0.30 N 3 1 "O4'" B DC 17 ? ? "C1'" B DC 17 ? ? N1 B DC 17 ? ? 110.14 108.30 1.84 0.30 N 4 1 "O4'" B DG 19 ? ? "C1'" B DG 19 ? ? N9 B DG 19 ? ? 110.13 108.30 1.83 0.30 N 5 1 "O4'" C DG 26 ? ? "C1'" C DG 26 ? ? N9 C DG 26 ? ? 110.69 108.30 2.39 0.30 N 6 1 "O4'" D DT 31 ? ? "C1'" D DT 31 ? ? N1 D DT 31 ? ? 110.71 108.30 2.41 0.30 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 CA CA CA N N 1 DA OP3 O N N 2 DA P P N N 3 DA OP1 O N N 4 DA OP2 O N N 5 DA "O5'" O N N 6 DA "C5'" C N N 7 DA "C4'" C N R 8 DA "O4'" O N N 9 DA "C3'" C N S 10 DA "O3'" O N N 11 DA "C2'" C N N 12 DA "C1'" C N R 13 DA N9 N Y N 14 DA C8 C Y N 15 DA N7 N Y N 16 DA C5 C Y N 17 DA C6 C Y N 18 DA N6 N N N 19 DA N1 N Y N 20 DA C2 C Y N 21 DA N3 N Y N 22 DA C4 C Y N 23 DA HOP3 H N N 24 DA HOP2 H N N 25 DA "H5'" H N N 26 DA "H5''" H N N 27 DA "H4'" H N N 28 DA "H3'" H N N 29 DA "HO3'" H N N 30 DA "H2'" H N N 31 DA "H2''" H N N 32 DA "H1'" H N N 33 DA H8 H N N 34 DA H61 H N N 35 DA H62 H N N 36 DA H2 H N N 37 DC OP3 O N N 38 DC P P N N 39 DC OP1 O N N 40 DC OP2 O N N 41 DC "O5'" O N N 42 DC "C5'" C N N 43 DC "C4'" C N R 44 DC "O4'" O N N 45 DC "C3'" C N S 46 DC "O3'" O N N 47 DC "C2'" C N N 48 DC "C1'" C N R 49 DC N1 N N N 50 DC C2 C N N 51 DC O2 O N N 52 DC N3 N N N 53 DC C4 C N N 54 DC N4 N N N 55 DC C5 C N N 56 DC C6 C N N 57 DC HOP3 H N N 58 DC HOP2 H N N 59 DC "H5'" H N N 60 DC "H5''" H N N 61 DC "H4'" H N N 62 DC "H3'" H N N 63 DC "HO3'" H N N 64 DC "H2'" H N N 65 DC "H2''" H N N 66 DC "H1'" H N N 67 DC H41 H N N 68 DC H42 H N N 69 DC H5 H N N 70 DC H6 H N N 71 DG OP3 O N N 72 DG P P N N 73 DG OP1 O N N 74 DG OP2 O N N 75 DG "O5'" O N N 76 DG "C5'" C N N 77 DG "C4'" C N R 78 DG "O4'" O N N 79 DG "C3'" C N S 80 DG "O3'" O N N 81 DG "C2'" C N N 82 DG "C1'" C N R 83 DG N9 N Y N 84 DG C8 C Y N 85 DG N7 N Y N 86 DG C5 C Y N 87 DG C6 C N N 88 DG O6 O N N 89 DG N1 N N N 90 DG C2 C N N 91 DG N2 N N N 92 DG N3 N N N 93 DG C4 C Y N 94 DG HOP3 H N N 95 DG HOP2 H N N 96 DG "H5'" H N N 97 DG "H5''" H N N 98 DG "H4'" H N N 99 DG "H3'" H N N 100 DG "HO3'" H N N 101 DG "H2'" H N N 102 DG "H2''" H N N 103 DG "H1'" H N N 104 DG H8 H N N 105 DG H1 H N N 106 DG H21 H N N 107 DG H22 H N N 108 DT OP3 O N N 109 DT P P N N 110 DT OP1 O N N 111 DT OP2 O N N 112 DT "O5'" O N N 113 DT "C5'" C N N 114 DT "C4'" C N R 115 DT "O4'" O N N 116 DT "C3'" C N S 117 DT "O3'" O N N 118 DT "C2'" C N N 119 DT "C1'" C N R 120 DT N1 N N N 121 DT C2 C N N 122 DT O2 O N N 123 DT N3 N N N 124 DT C4 C N N 125 DT O4 O N N 126 DT C5 C N N 127 DT C7 C N N 128 DT C6 C N N 129 DT HOP3 H N N 130 DT HOP2 H N N 131 DT "H5'" H N N 132 DT "H5''" H N N 133 DT "H4'" H N N 134 DT "H3'" H N N 135 DT "HO3'" H N N 136 DT "H2'" H N N 137 DT "H2''" H N N 138 DT "H1'" H N N 139 DT H3 H N N 140 DT H71 H N N 141 DT H72 H N N 142 DT H73 H N N 143 DT H6 H N N 144 HOH O O N N 145 HOH H1 H N N 146 HOH H2 H N N 147 NA NA NA N N 148 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3GNK 'b-form double helix' 3GNK 'four-way junction' # 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 DT 1 1_555 D DA 10 1_555 0.004 -0.231 0.187 0.423 -18.076 6.871 1 A_DT1:DA40_D A 1 ? D 40 ? 20 1 1 A DC 2 1_555 D DG 9 1_555 0.049 -0.331 0.445 3.934 -2.947 -1.769 2 A_DC2:DG39_D A 2 ? D 39 ? 19 1 1 A DG 3 1_555 D DC 8 1_555 -0.328 -0.256 0.129 2.474 -4.630 -0.855 3 A_DG3:DC38_D A 3 ? D 38 ? 19 1 1 A DG 4 1_555 D DC 7 1_555 -0.224 -0.339 0.562 6.414 -15.274 -2.203 4 A_DG4:DC37_D A 4 ? D 37 ? 19 1 1 A DC 5 1_555 B DG 6 1_555 0.300 -0.120 0.112 -4.255 -13.495 -2.076 5 A_DC5:DG16_B A 5 ? B 16 ? 19 1 1 A DG 6 1_555 B DC 5 1_555 -0.152 -0.147 0.351 12.636 -6.850 0.295 6 A_DG6:DC15_B A 6 ? B 15 ? 19 1 1 A DC 7 1_555 B DG 4 1_555 0.362 -0.023 0.550 -0.913 -20.661 0.788 7 A_DC7:DG14_B A 7 ? B 14 ? 19 1 1 A DC 8 1_555 B DG 3 1_555 0.364 -0.305 0.257 -8.043 -0.172 -2.857 8 A_DC8:DG13_B A 8 ? B 13 ? 19 1 1 A DG 9 1_555 B DC 2 1_555 -0.300 -0.171 -0.003 -3.892 -2.839 0.947 9 A_DG9:DC12_B A 9 ? B 12 ? 19 1 1 A DA 10 1_555 B DT 1 1_555 -0.054 -0.288 0.277 5.817 -14.779 1.008 10 A_DA10:DT11_B A 10 ? B 11 ? 20 1 1 C DT 1 1_555 B DA 10 1_555 -0.047 -0.071 0.090 -3.495 -18.522 0.231 11 C_DT21:DA20_B C 21 ? B 20 ? 20 1 1 C DC 2 1_555 B DG 9 1_555 0.047 -0.224 0.013 1.165 -6.924 1.127 12 C_DC22:DG19_B C 22 ? B 19 ? 19 1 1 C DG 3 1_555 B DC 8 1_555 -0.519 -0.226 0.222 0.349 -6.440 1.771 13 C_DG23:DC18_B C 23 ? B 18 ? 19 1 1 C DG 4 1_555 B DC 7 1_555 -0.388 -0.254 0.281 2.671 -17.544 1.706 14 C_DG24:DC17_B C 24 ? B 17 ? 19 1 1 C DC 5 1_555 D DG 6 1_555 0.177 -0.220 0.304 -7.713 -12.249 -2.997 15 C_DC25:DG36_D C 25 ? D 36 ? 19 1 1 C DG 6 1_555 D DC 5 1_555 -0.045 -0.191 0.261 9.391 -8.215 -2.982 16 C_DG26:DC35_D C 26 ? D 35 ? 19 1 1 C DC 7 1_555 D DG 4 1_555 0.267 -0.220 0.466 -2.263 -20.794 -2.731 17 C_DC27:DG34_D C 27 ? D 34 ? 19 1 1 C DC 8 1_555 D DG 3 1_555 0.480 -0.313 0.412 -8.210 1.315 0.480 18 C_DC28:DG33_D C 28 ? D 33 ? 19 1 1 C DG 9 1_555 D DC 2 1_555 -0.206 -0.207 0.215 -1.423 -0.040 -0.607 19 C_DG29:DC32_D C 29 ? D 32 ? 19 1 1 C DA 10 1_555 D DT 1 1_555 0.054 -0.179 0.193 1.387 -18.838 5.400 20 C_DA30:DT31_D C 30 ? D 31 ? 20 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DT 1 1_555 D DA 10 1_555 A DC 2 1_555 D DG 9 1_555 0.106 2.510 3.525 1.814 5.405 40.048 2.948 0.077 3.819 7.844 -2.633 40.435 1 AA_DT1DC2:DG39DA40_DD A 1 ? D 40 ? A 2 ? D 39 ? 1 A DC 2 1_555 D DG 9 1_555 A DG 3 1_555 D DC 8 1_555 0.452 2.891 3.437 4.867 0.108 37.167 4.485 -0.027 3.475 0.169 -7.595 37.473 2 AA_DC2DG3:DC38DG39_DD A 2 ? D 39 ? A 3 ? D 38 ? 1 A DG 3 1_555 D DC 8 1_555 A DG 4 1_555 D DC 7 1_555 -0.277 2.294 3.459 -8.000 0.028 43.768 3.029 -0.422 3.457 0.037 10.626 44.457 3 AA_DG3DG4:DC37DC38_DD A 3 ? D 38 ? A 4 ? D 37 ? 1 A DG 4 1_555 D DC 7 1_555 A DC 5 1_555 B DG 6 1_555 -0.430 -0.518 3.524 2.997 1.685 32.790 -1.219 1.303 3.442 2.975 -5.291 32.965 4 AA_DG4DC5:DG16DC37_BD A 4 ? D 37 ? A 5 ? B 16 ? 1 A DC 5 1_555 B DG 6 1_555 A DG 6 1_555 B DC 5 1_555 0.483 1.017 3.044 -1.410 6.506 28.910 0.669 -1.230 3.165 12.817 2.777 29.650 5 AA_DC5DG6:DC15DG16_BB A 5 ? B 16 ? A 6 ? B 15 ? 1 A DG 6 1_555 B DC 5 1_555 A DC 7 1_555 B DG 4 1_555 -0.874 0.504 3.712 -3.493 -5.055 42.409 1.263 0.801 3.689 -6.943 4.798 42.832 6 AA_DG6DC7:DG14DC15_BB A 6 ? B 15 ? A 7 ? B 14 ? 1 A DC 7 1_555 B DG 4 1_555 A DC 8 1_555 B DG 3 1_555 1.049 1.283 3.654 5.525 2.541 35.953 1.644 -0.793 3.846 4.081 -8.872 36.447 7 AA_DC7DC8:DG13DG14_BB A 7 ? B 14 ? A 8 ? B 13 ? 1 A DC 8 1_555 B DG 3 1_555 A DG 9 1_555 B DC 2 1_555 -0.193 2.586 3.317 1.407 -1.799 38.589 4.128 0.464 3.189 -2.720 -2.127 38.654 8 AA_DC8DG9:DC12DG13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A DG 9 1_555 B DC 2 1_555 A DA 10 1_555 B DT 1 1_555 -0.394 2.016 3.269 -5.189 4.995 37.968 2.404 -0.074 3.518 7.594 7.889 38.620 9 AA_DG9DA10:DT11DC12_BB A 9 ? B 12 ? A 10 ? B 11 ? 1 C DT 1 1_555 B DA 10 1_555 C DC 2 1_555 B DG 9 1_555 0.587 1.229 3.332 5.860 5.308 37.339 1.171 -0.113 3.517 8.178 -9.030 38.138 10 CC_DT21DC22:DG19DA20_BB C 21 ? B 20 ? C 22 ? B 19 ? 1 C DC 2 1_555 B DG 9 1_555 C DG 3 1_555 B DC 8 1_555 0.186 2.403 3.366 0.226 2.415 34.189 3.678 -0.279 3.524 4.102 -0.383 34.272 11 CC_DC22DG23:DC18DG19_BB C 22 ? B 19 ? C 23 ? B 18 ? 1 C DG 3 1_555 B DC 8 1_555 C DG 4 1_555 B DC 7 1_555 -0.368 2.365 3.498 -4.938 2.056 42.624 3.008 -0.032 3.622 2.816 6.761 42.943 12 CC_DG23DG24:DC17DC18_BB C 23 ? B 18 ? C 24 ? B 17 ? 1 C DG 4 1_555 B DC 7 1_555 C DC 5 1_555 D DG 6 1_555 -0.692 -0.644 3.478 -0.823 2.050 31.298 -1.600 1.115 3.446 3.794 1.523 31.374 13 CC_DG24DC25:DG36DC17_DB C 24 ? B 17 ? C 25 ? D 36 ? 1 C DC 5 1_555 D DG 6 1_555 C DG 6 1_555 D DC 5 1_555 -0.162 0.819 3.023 0.947 7.929 28.124 -0.028 0.518 3.125 15.915 -1.900 29.214 14 CC_DC25DG26:DC35DG36_DD C 25 ? D 36 ? C 26 ? D 35 ? 1 C DG 6 1_555 D DC 5 1_555 C DC 7 1_555 D DG 4 1_555 -0.612 0.665 3.609 -3.492 -3.759 43.275 1.296 0.454 3.579 -5.076 4.715 43.563 15 CC_DG26DC27:DG34DC35_DD C 26 ? D 35 ? C 27 ? D 34 ? 1 C DC 7 1_555 D DG 4 1_555 C DC 8 1_555 D DG 3 1_555 1.299 1.408 3.703 3.677 2.521 39.255 1.738 -1.419 3.884 3.738 -5.452 39.498 16 CC_DC27DC28:DG33DG34_DD C 27 ? D 34 ? C 28 ? D 33 ? 1 C DC 8 1_555 D DG 3 1_555 C DG 9 1_555 D DC 2 1_555 -0.267 2.461 3.309 1.253 -1.731 37.537 4.043 0.577 3.186 -2.687 -1.945 37.596 17 CC_DC28DG29:DC32DG33_DD C 28 ? D 33 ? C 29 ? D 32 ? 1 C DG 9 1_555 D DC 2 1_555 C DA 10 1_555 D DT 1 1_555 -0.285 2.524 3.520 -2.667 6.200 41.831 2.777 0.086 3.850 8.616 3.707 42.348 18 CC_DG29DA30:DT31DC32_DD C 29 ? D 32 ? C 30 ? D 31 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CALCIUM ION' CA 3 'SODIUM ION' NA 4 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 1L4J _pdbx_initial_refinement_model.details 'PDB entry 1L4J' # _reflns_scale.group_code 1 #