data_4I9V # _entry.id 4I9V # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.379 _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 4I9V pdb_00004i9v 10.2210/pdb4i9v/pdb NDB NA2207 ? ? RCSB RCSB076486 ? ? WWPDB D_1000076486 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 355D _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4I9V _pdbx_database_status.recvd_initial_deposition_date 2012-12-05 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Nocek, B.' 1 'Szulik, M.W.' 2 'Joachimiak, A.' 3 'Stone, M.P.' 4 # _citation.id primary _citation.title ;Differential stabilities and sequence-dependent base pair opening dynamics of watson-crick base pairs with 5-hydroxymethylcytosine, 5-formylcytosine, or 5-carboxylcytosine. ; _citation.journal_abbrev Biochemistry _citation.journal_volume 54 _citation.page_first 1294 _citation.page_last 1305 _citation.year 2015 _citation.journal_id_ASTM BICHAW _citation.country US _citation.journal_id_ISSN 0006-2960 _citation.journal_id_CSD 0033 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 25632825 _citation.pdbx_database_id_DOI 10.1021/bi501534x # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Szulik, M.W.' 1 ? primary 'Pallan, P.S.' 2 ? primary 'Nocek, B.' 3 ? primary 'Voehler, M.' 4 ? primary 'Banerjee, S.' 5 ? primary 'Brooks, S.' 6 ? primary 'Joachimiak, A.' 7 ? primary 'Egli, M.' 8 ? primary 'Eichman, B.F.' 9 ? primary 'Stone, M.P.' 10 ? # _cell.entry_id 4I9V _cell.length_a 25.606 _cell.length_b 41.344 _cell.length_c 64.319 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 4I9V _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5HC)P*GP*CP*G)-3') ; 3693.418 2 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 3 non-polymer syn 'SPERMINE (FULLY PROTONATED FORM)' 206.372 2 ? ? ? ? 4 water nat water 18.015 187 ? ? ? ? # _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 '(DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(5HC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAATTXGCG _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 DC n 1 2 DG n 1 3 DC n 1 4 DG n 1 5 DA n 1 6 DA n 1 7 DT n 1 8 DT n 1 9 5HC n 1 10 DG n 1 11 DC n 1 12 DG n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific 'Synthetic DNA' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 4I9V _struct_ref.pdbx_db_accession 4I9V _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 4I9V A 1 ? 12 ? 4I9V 1 ? 12 ? 1 12 2 1 4I9V B 1 ? 12 ? 4I9V 13 ? 24 ? 13 24 # 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 5HC 'DNA linking' n ;2'-deoxy-5-(hydroxymethyl)cytidine 5'-(dihydrogen phosphate) ; ? 'C10 H16 N3 O8 P' 337.223 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 SPK non-polymer . 'SPERMINE (FULLY PROTONATED FORM)' ? 'C10 H30 N4 4' 206.372 # _exptl.entry_id 4I9V _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.30 _exptl_crystal.density_percent_sol 46.63 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details ;10% MPD,40mM cacodylate, 80mM NaCl,12 mM spermine tetrachloride, 20mM MgCl2, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K ; # _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 315r' _diffrn_detector.pdbx_collection_date 2012-06-14 _diffrn_detector.details mirrors # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'double crystal' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.979 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 19-ID' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 19-ID _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.979 # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 4I9V _reflns.observed_criterion_sigma_I 2.0 _reflns.observed_criterion_sigma_F 2.0 _reflns.d_resolution_low 14.90 _reflns.d_resolution_high 1.02 _reflns.number_obs 35974 _reflns.number_all 36693 _reflns.percent_possible_obs 98 _reflns.pdbx_Rmerge_I_obs 0.043 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 44.67 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 8.8 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 1.02 _reflns_shell.d_res_low 1.03 _reflns_shell.percent_possible_all 99.9 _reflns_shell.Rmerge_I_obs 0.78 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy 6.5 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 4I9V _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 32113 _refine.ls_number_reflns_all 33816 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F . _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 14.88 _refine.ls_d_res_high 1.02 _refine.ls_percent_reflns_obs 95.04 _refine.ls_R_factor_obs 0.16064 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.15947 _refine.ls_R_factor_R_free 0.18189 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.0 _refine.ls_number_reflns_R_free 1700 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.979 _refine.correlation_coeff_Fo_to_Fc_free 0.974 _refine.B_iso_mean 22.675 _refine.aniso_B[1][1] 0.24 _refine.aniso_B[2][2] -1.49 _refine.aniso_B[3][3] 1.26 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model 'PDB ENTRY 436D' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.029 _refine.pdbx_overall_ESU_R_Free 0.030 _refine.overall_SU_ML 0.023 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 0.990 _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? # _refine_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 490 _refine_hist.pdbx_number_atoms_ligand 26 _refine_hist.number_atoms_solvent 187 _refine_hist.number_atoms_total 703 _refine_hist.d_res_high 1.02 _refine_hist.d_res_low 14.88 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.020 0.012 ? 629 'X-RAY DIFFRACTION' ? r_bond_other_d 0.006 0.020 ? 375 'X-RAY DIFFRACTION' ? r_angle_refined_deg 2.488 1.354 ? 937 'X-RAY DIFFRACTION' ? r_angle_other_deg 2.562 3.000 ? 888 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_chiral_restr 0.406 0.200 ? 78 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.041 0.020 ? 337 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.008 0.020 ? 137 'X-RAY DIFFRACTION' ? r_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_rigid_bond_restr 4.594 3.000 ? 1002 'X-RAY DIFFRACTION' ? r_sphericity_free 8.840 5.000 ? 2 'X-RAY DIFFRACTION' ? r_sphericity_bonded 10.669 5.000 ? 1134 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.020 _refine_ls_shell.d_res_low 1.046 _refine_ls_shell.number_reflns_R_work 1374 _refine_ls_shell.R_factor_R_work 0.335 _refine_ls_shell.percent_reflns_obs 56.96 _refine_ls_shell.R_factor_R_free 0.302 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 82 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_obs ? # _struct.entry_id 4I9V _struct.title ;The atomic structure of 5-Hydroxymethyl 2'-deoxycitidine base paired with 2'-deoxyguanosine in Dickerson Drew Dodecamer ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4I9V _struct_keywords.pdbx_keywords DNA _struct_keywords.text ;5-Hydroxymethyl 2' deoxycitidine, 5-hydroxymethyl-dC adduct, modified DDD, Dodecamer of B-DNA, DNA ; # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 3 ? E N N 3 ? F N N 4 ? G 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 covale1 covale both ? A DT 8 "O3'" ? ? ? 1_555 A 5HC 9 P ? ? A DT 8 A 5HC 9 1_555 ? ? ? ? ? ? ? 1.591 ? ? covale2 covale both ? A 5HC 9 "O3'" ? ? ? 1_555 A DG 10 P ? ? A 5HC 9 A DG 10 1_555 ? ? ? ? ? ? ? 1.525 ? ? covale3 covale both ? B DT 8 "O3'" ? ? ? 1_555 B 5HC 9 P ? ? B DT 20 B 5HC 21 1_555 ? ? ? ? ? ? ? 1.566 ? ? covale4 covale both ? B 5HC 9 "O3'" ? ? ? 1_555 B DG 10 P ? ? B 5HC 21 B DG 22 1_555 ? ? ? ? ? ? ? 1.536 ? ? metalc1 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 101 A HOH 208 1_555 ? ? ? ? ? ? ? 2.044 ? ? metalc2 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 101 A HOH 249 1_555 ? ? ? ? ? ? ? 2.078 ? ? metalc3 metalc ? ? C MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 101 B HOH 206 1_555 ? ? ? ? ? ? ? 2.082 ? ? metalc4 metalc ? ? C MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 101 B HOH 261 1_555 ? ? ? ? ? ? ? 2.085 ? ? metalc5 metalc ? ? C MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 101 B HOH 262 1_555 ? ? ? ? ? ? ? 2.089 ? ? metalc6 metalc ? ? C MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 101 B HOH 270 1_555 ? ? ? ? ? ? ? 2.039 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 A ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 A ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 A ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 A ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 13 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 MG 101 ? 6 'BINDING SITE FOR RESIDUE MG A 101' AC2 Software B SPK 101 ? 7 'BINDING SITE FOR RESIDUE SPK B 101' AC3 Software B SPK 102 ? 8 'BINDING SITE FOR RESIDUE SPK B 102' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 6 HOH F . ? HOH A 208 . ? 1_555 ? 2 AC1 6 HOH F . ? HOH A 249 . ? 1_555 ? 3 AC1 6 HOH G . ? HOH B 206 . ? 1_555 ? 4 AC1 6 HOH G . ? HOH B 261 . ? 1_555 ? 5 AC1 6 HOH G . ? HOH B 262 . ? 1_555 ? 6 AC1 6 HOH G . ? HOH B 270 . ? 1_555 ? 7 AC2 7 DG A 12 ? DG A 12 . ? 4_555 ? 8 AC2 7 HOH F . ? HOH A 264 . ? 4_555 ? 9 AC2 7 HOH F . ? HOH A 271 . ? 4_555 ? 10 AC2 7 DA B 6 ? DA B 18 . ? 4_555 ? 11 AC2 7 DT B 7 ? DT B 19 . ? 1_555 ? 12 AC2 7 DT B 8 ? DT B 20 . ? 1_555 ? 13 AC2 7 HOH G . ? HOH B 250 . ? 4_555 ? 14 AC3 8 5HC A 9 ? 5HC A 9 . ? 1_555 ? 15 AC3 8 DG A 10 ? DG A 10 . ? 1_555 ? 16 AC3 8 HOH F . ? HOH A 231 . ? 1_555 ? 17 AC3 8 DG B 2 ? DG B 14 . ? 1_555 ? 18 AC3 8 DC B 3 ? DC B 15 . ? 1_555 ? 19 AC3 8 DC B 11 ? DC B 23 . ? 2_555 ? 20 AC3 8 HOH G . ? HOH B 219 . ? 1_655 ? 21 AC3 8 HOH G . ? HOH B 257 . ? 1_555 ? # _database_PDB_matrix.entry_id 4I9V _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 4I9V _atom_sites.fract_transf_matrix[1][1] 0.039053 _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] 0.024187 _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] 0.015548 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C MG N O P # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DC 1 1 1 DC DC A . n A 1 2 DG 2 2 2 DG DG A . n A 1 3 DC 3 3 3 DC DC A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DA 5 5 5 DA DA A . n A 1 6 DA 6 6 6 DA DA A . n A 1 7 DT 7 7 7 DT DT A . n A 1 8 DT 8 8 8 DT DT A . n A 1 9 5HC 9 9 9 5HC 5HC A . n A 1 10 DG 10 10 10 DG DG A . n A 1 11 DC 11 11 11 DC DC A . n A 1 12 DG 12 12 12 DG DG A . n B 1 1 DC 1 13 13 DC DC B . n B 1 2 DG 2 14 14 DG DG B . n B 1 3 DC 3 15 15 DC DC B . n B 1 4 DG 4 16 16 DG DG B . n B 1 5 DA 5 17 17 DA DA B . n B 1 6 DA 6 18 18 DA DA B . n B 1 7 DT 7 19 19 DT DT B . n B 1 8 DT 8 20 20 DT DT B . n B 1 9 5HC 9 21 21 5HC 5HC B . n B 1 10 DG 10 22 22 DG DG B . n B 1 11 DC 11 23 23 DC DC B . n B 1 12 DG 12 24 24 DG DG B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 MG 1 101 101 MG MG A . D 3 SPK 1 101 101 SPK SPK B . E 3 SPK 1 102 102 SPK SPK B . F 4 HOH 1 201 201 HOH HOH A . F 4 HOH 2 202 202 HOH HOH A . F 4 HOH 3 203 203 HOH HOH A . F 4 HOH 4 204 205 HOH HOH A . F 4 HOH 5 205 206 HOH HOH A . F 4 HOH 6 206 207 HOH HOH A . F 4 HOH 7 207 208 HOH HOH A . F 4 HOH 8 208 209 HOH HOH A . F 4 HOH 9 209 210 HOH HOH A . F 4 HOH 10 210 211 HOH HOH A . F 4 HOH 11 211 212 HOH HOH A . F 4 HOH 12 212 213 HOH HOH A . F 4 HOH 13 213 214 HOH HOH A . F 4 HOH 14 214 215 HOH HOH A . F 4 HOH 15 215 216 HOH HOH A . F 4 HOH 16 216 217 HOH HOH A . F 4 HOH 17 217 218 HOH HOH A . F 4 HOH 18 218 219 HOH HOH A . F 4 HOH 19 219 220 HOH HOH A . F 4 HOH 20 220 221 HOH HOH A . F 4 HOH 21 221 222 HOH HOH A . F 4 HOH 22 222 223 HOH HOH A . F 4 HOH 23 223 224 HOH HOH A . F 4 HOH 24 224 225 HOH HOH A . F 4 HOH 25 225 226 HOH HOH A . F 4 HOH 26 226 227 HOH HOH A . F 4 HOH 27 227 228 HOH HOH A . F 4 HOH 28 228 229 HOH HOH A . F 4 HOH 29 229 230 HOH HOH A . F 4 HOH 30 230 231 HOH HOH A . F 4 HOH 31 231 232 HOH HOH A . F 4 HOH 32 232 233 HOH HOH A . F 4 HOH 33 233 234 HOH HOH A . F 4 HOH 34 234 235 HOH HOH A . F 4 HOH 35 235 236 HOH HOH A . F 4 HOH 36 236 237 HOH HOH A . F 4 HOH 37 237 238 HOH HOH A . F 4 HOH 38 238 239 HOH HOH A . F 4 HOH 39 239 240 HOH HOH A . F 4 HOH 40 240 242 HOH HOH A . F 4 HOH 41 241 243 HOH HOH A . F 4 HOH 42 242 244 HOH HOH A . F 4 HOH 43 243 245 HOH HOH A . F 4 HOH 44 244 246 HOH HOH A . F 4 HOH 45 245 247 HOH HOH A . F 4 HOH 46 246 248 HOH HOH A . F 4 HOH 47 247 249 HOH HOH A . F 4 HOH 48 248 250 HOH HOH A . F 4 HOH 49 249 251 HOH HOH A . F 4 HOH 50 250 252 HOH HOH A . F 4 HOH 51 251 253 HOH HOH A . F 4 HOH 52 252 254 HOH HOH A . F 4 HOH 53 253 255 HOH HOH A . F 4 HOH 54 254 256 HOH HOH A . F 4 HOH 55 255 257 HOH HOH A . F 4 HOH 56 256 258 HOH HOH A . F 4 HOH 57 257 259 HOH HOH A . F 4 HOH 58 258 260 HOH HOH A . F 4 HOH 59 259 261 HOH HOH A . F 4 HOH 60 260 262 HOH HOH A . F 4 HOH 61 261 263 HOH HOH A . F 4 HOH 62 262 264 HOH HOH A . F 4 HOH 63 263 265 HOH HOH A . F 4 HOH 64 264 266 HOH HOH A . F 4 HOH 65 265 267 HOH HOH A . F 4 HOH 66 266 268 HOH HOH A . F 4 HOH 67 267 269 HOH HOH A . F 4 HOH 68 268 270 HOH HOH A . F 4 HOH 69 269 271 HOH HOH A . F 4 HOH 70 270 272 HOH HOH A . F 4 HOH 71 271 273 HOH HOH A . F 4 HOH 72 272 274 HOH HOH A . F 4 HOH 73 273 275 HOH HOH A . F 4 HOH 74 274 276 HOH HOH A . F 4 HOH 75 275 277 HOH HOH A . F 4 HOH 76 276 278 HOH HOH A . F 4 HOH 77 277 279 HOH HOH A . F 4 HOH 78 278 280 HOH HOH A . F 4 HOH 79 279 281 HOH HOH A . F 4 HOH 80 280 282 HOH HOH A . F 4 HOH 81 281 283 HOH HOH A . F 4 HOH 82 282 294 HOH HOH A . F 4 HOH 83 283 241 HOH HOH A . G 4 HOH 1 201 204 HOH HOH B . G 4 HOH 2 202 201 HOH HOH B . G 4 HOH 3 203 202 HOH HOH B . G 4 HOH 4 204 203 HOH HOH B . G 4 HOH 5 205 204 HOH HOH B . G 4 HOH 6 206 205 HOH HOH B . G 4 HOH 7 207 206 HOH HOH B . G 4 HOH 8 208 207 HOH HOH B . G 4 HOH 9 209 208 HOH HOH B . G 4 HOH 10 210 209 HOH HOH B . G 4 HOH 11 211 210 HOH HOH B . G 4 HOH 12 212 211 HOH HOH B . G 4 HOH 13 213 212 HOH HOH B . G 4 HOH 14 214 213 HOH HOH B . G 4 HOH 15 215 214 HOH HOH B . G 4 HOH 16 216 215 HOH HOH B . G 4 HOH 17 217 216 HOH HOH B . G 4 HOH 18 218 217 HOH HOH B . G 4 HOH 19 219 218 HOH HOH B . G 4 HOH 20 220 219 HOH HOH B . G 4 HOH 21 221 220 HOH HOH B . G 4 HOH 22 222 221 HOH HOH B . G 4 HOH 23 223 222 HOH HOH B . G 4 HOH 24 224 223 HOH HOH B . G 4 HOH 25 225 224 HOH HOH B . G 4 HOH 26 226 225 HOH HOH B . G 4 HOH 27 227 226 HOH HOH B . G 4 HOH 28 228 227 HOH HOH B . G 4 HOH 29 229 228 HOH HOH B . G 4 HOH 30 230 229 HOH HOH B . G 4 HOH 31 231 230 HOH HOH B . G 4 HOH 32 232 231 HOH HOH B . G 4 HOH 33 233 232 HOH HOH B . G 4 HOH 34 234 233 HOH HOH B . G 4 HOH 35 235 234 HOH HOH B . G 4 HOH 36 236 235 HOH HOH B . G 4 HOH 37 237 236 HOH HOH B . G 4 HOH 38 238 237 HOH HOH B . G 4 HOH 39 239 238 HOH HOH B . G 4 HOH 40 240 239 HOH HOH B . G 4 HOH 41 241 240 HOH HOH B . G 4 HOH 42 242 241 HOH HOH B . G 4 HOH 43 243 242 HOH HOH B . G 4 HOH 44 244 243 HOH HOH B . G 4 HOH 45 245 244 HOH HOH B . G 4 HOH 46 246 245 HOH HOH B . G 4 HOH 47 247 246 HOH HOH B . G 4 HOH 48 248 247 HOH HOH B . G 4 HOH 49 249 248 HOH HOH B . G 4 HOH 50 250 249 HOH HOH B . G 4 HOH 51 251 250 HOH HOH B . G 4 HOH 52 252 251 HOH HOH B . G 4 HOH 53 253 252 HOH HOH B . G 4 HOH 54 254 253 HOH HOH B . G 4 HOH 55 255 254 HOH HOH B . G 4 HOH 56 256 255 HOH HOH B . G 4 HOH 57 257 256 HOH HOH B . G 4 HOH 58 258 257 HOH HOH B . G 4 HOH 59 259 258 HOH HOH B . G 4 HOH 60 260 259 HOH HOH B . G 4 HOH 61 261 260 HOH HOH B . G 4 HOH 62 262 261 HOH HOH B . G 4 HOH 63 263 262 HOH HOH B . G 4 HOH 64 264 263 HOH HOH B . G 4 HOH 65 265 264 HOH HOH B . G 4 HOH 66 266 265 HOH HOH B . G 4 HOH 67 267 266 HOH HOH B . G 4 HOH 68 268 267 HOH HOH B . G 4 HOH 69 269 268 HOH HOH B . G 4 HOH 70 270 269 HOH HOH B . G 4 HOH 71 271 270 HOH HOH B . G 4 HOH 72 272 271 HOH HOH B . G 4 HOH 73 273 272 HOH HOH B . G 4 HOH 74 274 273 HOH HOH B . G 4 HOH 75 275 274 HOH HOH B . G 4 HOH 76 276 275 HOH HOH B . G 4 HOH 77 277 276 HOH HOH B . G 4 HOH 78 278 277 HOH HOH B . G 4 HOH 79 279 278 HOH HOH B . G 4 HOH 80 280 279 HOH HOH B . G 4 HOH 81 281 280 HOH HOH B . G 4 HOH 82 282 281 HOH HOH B . G 4 HOH 83 283 282 HOH HOH B . G 4 HOH 84 284 283 HOH HOH B . G 4 HOH 85 285 284 HOH HOH B . G 4 HOH 86 286 285 HOH HOH B . G 4 HOH 87 287 286 HOH HOH B . G 4 HOH 88 288 287 HOH HOH B . G 4 HOH 89 289 288 HOH HOH B . G 4 HOH 90 290 289 HOH HOH B . G 4 HOH 91 291 290 HOH HOH B . G 4 HOH 92 292 291 HOH HOH B . G 4 HOH 93 293 292 HOH HOH B . G 4 HOH 94 294 293 HOH HOH B . G 4 HOH 95 295 295 HOH HOH B . G 4 HOH 96 296 296 HOH HOH B . G 4 HOH 97 297 297 HOH HOH B . G 4 HOH 98 298 298 HOH HOH B . G 4 HOH 99 299 299 HOH HOH B . G 4 HOH 100 300 300 HOH HOH B . G 4 HOH 101 301 301 HOH HOH B . G 4 HOH 102 302 302 HOH HOH B . G 4 HOH 103 303 303 HOH HOH B . G 4 HOH 104 304 304 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 5HC 9 A 5HC 9 ? DC ? 2 B 5HC 9 B 5HC 21 ? DC ? # _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G # 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)' 1470 ? 1 MORE -11 ? 1 'SSA (A^2)' 5150 ? # _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 # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? F HOH . ? A HOH 208 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? F HOH . ? A HOH 249 ? 1_555 93.8 ? 2 O ? F HOH . ? A HOH 208 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 206 ? 1_555 86.7 ? 3 O ? F HOH . ? A HOH 249 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 206 ? 1_555 90.0 ? 4 O ? F HOH . ? A HOH 208 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 261 ? 1_555 86.2 ? 5 O ? F HOH . ? A HOH 249 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 261 ? 1_555 178.7 ? 6 O ? G HOH . ? B HOH 206 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 261 ? 1_555 91.4 ? 7 O ? F HOH . ? A HOH 208 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 262 ? 1_555 173.7 ? 8 O ? F HOH . ? A HOH 249 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 262 ? 1_555 89.2 ? 9 O ? G HOH . ? B HOH 206 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 262 ? 1_555 87.9 ? 10 O ? G HOH . ? B HOH 261 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 262 ? 1_555 90.9 ? 11 O ? F HOH . ? A HOH 208 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 270 ? 1_555 93.2 ? 12 O ? F HOH . ? A HOH 249 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 270 ? 1_555 89.9 ? 13 O ? G HOH . ? B HOH 206 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 270 ? 1_555 179.8 ? 14 O ? G HOH . ? B HOH 261 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 270 ? 1_555 88.8 ? 15 O ? G HOH . ? B HOH 262 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 270 ? 1_555 92.3 ? # 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 2013-11-20 2 'Structure model' 1 1 2015-02-11 3 'Structure model' 1 2 2015-02-25 4 'Structure model' 1 3 2023-09-20 # _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' 'Database references' 2 3 'Structure model' 'Database references' 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_seq_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.value' 10 4 'Structure model' '_struct_conn.pdbx_dist_value' 11 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 12 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 13 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 14 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 15 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 16 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 17 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal SBC-Collect 'data collection' . ? 1 MOLREP phasing . ? 2 REFMAC refinement 5.7.0029 ? 3 HKL-3000 'data reduction' . ? 4 HKL-3000 'data scaling' . ? 5 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 "O3'" _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 5HC _pdbx_validate_rmsd_bond.auth_seq_id_1 9 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 P _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 DG _pdbx_validate_rmsd_bond.auth_seq_id_2 10 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.525 _pdbx_validate_rmsd_bond.bond_target_value 1.607 _pdbx_validate_rmsd_bond.bond_deviation -0.082 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.012 _pdbx_validate_rmsd_bond.linker_flag Y # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 "O5'" _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 DG _pdbx_validate_rmsd_angle.auth_seq_id_1 12 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 P _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 DG _pdbx_validate_rmsd_angle.auth_seq_id_2 12 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 OP2 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 DG _pdbx_validate_rmsd_angle.auth_seq_id_3 12 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 89.52 _pdbx_validate_rmsd_angle.angle_target_value 105.70 _pdbx_validate_rmsd_angle.angle_deviation -16.18 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.90 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 N 1 B SPK 101 ? C12 ? D SPK 1 C12 2 1 N 1 B SPK 101 ? C13 ? D SPK 1 C13 3 1 N 1 B SPK 101 ? N14 ? D SPK 1 N14 4 1 N 0 B HOH 285 ? O A G HOH ? O # 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 5HC P P N N 1 5HC OP1 O N N 2 5HC OP2 O N N 3 5HC "O5'" O N N 4 5HC "C5'" C N N 5 5HC "C4'" C N R 6 5HC "O4'" O N N 7 5HC "C3'" C N S 8 5HC "O3'" O N N 9 5HC "C2'" C N N 10 5HC "C1'" C N R 11 5HC N1 N N N 12 5HC C2 C N N 13 5HC O2 O N N 14 5HC N3 N N N 15 5HC C4 C N N 16 5HC N4 N N N 17 5HC C5 C N N 18 5HC C5M C N N 19 5HC O5 O N N 20 5HC C6 C N N 21 5HC OP3 O N N 22 5HC HOP2 H N N 23 5HC "H5'" H N N 24 5HC "H5''" H N N 25 5HC H4 H N N 26 5HC "H3'" H N N 27 5HC "HO3'" H N N 28 5HC "H2'" H N N 29 5HC "H2''" H N N 30 5HC "H1'" H N N 31 5HC HN41 H N N 32 5HC HN42 H N N 33 5HC H5M2 H N N 34 5HC H5M1 H N N 35 5HC HO5 H N N 36 5HC H6 H N N 37 5HC HOP3 H N N 38 DA OP3 O N N 39 DA P P N N 40 DA OP1 O N N 41 DA OP2 O N N 42 DA "O5'" O N N 43 DA "C5'" C N N 44 DA "C4'" C N R 45 DA "O4'" O N N 46 DA "C3'" C N S 47 DA "O3'" O N N 48 DA "C2'" C N N 49 DA "C1'" C N R 50 DA N9 N Y N 51 DA C8 C Y N 52 DA N7 N Y N 53 DA C5 C Y N 54 DA C6 C Y N 55 DA N6 N N N 56 DA N1 N Y N 57 DA C2 C Y N 58 DA N3 N Y N 59 DA C4 C Y N 60 DA HOP3 H N N 61 DA HOP2 H N N 62 DA "H5'" H N N 63 DA "H5''" H N N 64 DA "H4'" H N N 65 DA "H3'" H N N 66 DA "HO3'" H N N 67 DA "H2'" H N N 68 DA "H2''" H N N 69 DA "H1'" H N N 70 DA H8 H N N 71 DA H61 H N N 72 DA H62 H N N 73 DA H2 H N N 74 DC OP3 O N N 75 DC P P N N 76 DC OP1 O N N 77 DC OP2 O N N 78 DC "O5'" O N N 79 DC "C5'" C N N 80 DC "C4'" C N R 81 DC "O4'" O N N 82 DC "C3'" C N S 83 DC "O3'" O N N 84 DC "C2'" C N N 85 DC "C1'" C N R 86 DC N1 N N N 87 DC C2 C N N 88 DC O2 O N N 89 DC N3 N N N 90 DC C4 C N N 91 DC N4 N N N 92 DC C5 C N N 93 DC C6 C N N 94 DC HOP3 H N N 95 DC HOP2 H N N 96 DC "H5'" H N N 97 DC "H5''" H N N 98 DC "H4'" H N N 99 DC "H3'" H N N 100 DC "HO3'" H N N 101 DC "H2'" H N N 102 DC "H2''" H N N 103 DC "H1'" H N N 104 DC H41 H N N 105 DC H42 H N N 106 DC H5 H N N 107 DC H6 H N N 108 DG OP3 O N N 109 DG P P N N 110 DG OP1 O N N 111 DG OP2 O N N 112 DG "O5'" O N N 113 DG "C5'" C N N 114 DG "C4'" C N R 115 DG "O4'" O N N 116 DG "C3'" C N S 117 DG "O3'" O N N 118 DG "C2'" C N N 119 DG "C1'" C N R 120 DG N9 N Y N 121 DG C8 C Y N 122 DG N7 N Y N 123 DG C5 C Y N 124 DG C6 C N N 125 DG O6 O N N 126 DG N1 N N N 127 DG C2 C N N 128 DG N2 N N N 129 DG N3 N N N 130 DG C4 C Y N 131 DG HOP3 H N N 132 DG HOP2 H N N 133 DG "H5'" H N N 134 DG "H5''" H N N 135 DG "H4'" H N N 136 DG "H3'" H N N 137 DG "HO3'" H N N 138 DG "H2'" H N N 139 DG "H2''" H N N 140 DG "H1'" H N N 141 DG H8 H N N 142 DG H1 H N N 143 DG H21 H N N 144 DG H22 H N N 145 DT OP3 O N N 146 DT P P N N 147 DT OP1 O N N 148 DT OP2 O N N 149 DT "O5'" O N N 150 DT "C5'" C N N 151 DT "C4'" C N R 152 DT "O4'" O N N 153 DT "C3'" C N S 154 DT "O3'" O N N 155 DT "C2'" C N N 156 DT "C1'" C N R 157 DT N1 N N N 158 DT C2 C N N 159 DT O2 O N N 160 DT N3 N N N 161 DT C4 C N N 162 DT O4 O N N 163 DT C5 C N N 164 DT C7 C N N 165 DT C6 C N N 166 DT HOP3 H N N 167 DT HOP2 H N N 168 DT "H5'" H N N 169 DT "H5''" H N N 170 DT "H4'" H N N 171 DT "H3'" H N N 172 DT "HO3'" H N N 173 DT "H2'" H N N 174 DT "H2''" H N N 175 DT "H1'" H N N 176 DT H3 H N N 177 DT H71 H N N 178 DT H72 H N N 179 DT H73 H N N 180 DT H6 H N N 181 HOH O O N N 182 HOH H1 H N N 183 HOH H2 H N N 184 MG MG MG N N 185 SPK N1 N N N 186 SPK C2 C N N 187 SPK C3 C N N 188 SPK C4 C N N 189 SPK N5 N N N 190 SPK C6 C N N 191 SPK C7 C N N 192 SPK C8 C N N 193 SPK C9 C N N 194 SPK N10 N N N 195 SPK C11 C N N 196 SPK C12 C N N 197 SPK C13 C N N 198 SPK N14 N N N 199 SPK H1A H N N 200 SPK H1B H N N 201 SPK H1C H N N 202 SPK H2A H N N 203 SPK H2B H N N 204 SPK H3A H N N 205 SPK H3B H N N 206 SPK H4A H N N 207 SPK H4B H N N 208 SPK H5A H N N 209 SPK H5B H N N 210 SPK H6A H N N 211 SPK H6B H N N 212 SPK H7A H N N 213 SPK H7B H N N 214 SPK H8A H N N 215 SPK H8B H N N 216 SPK H9A H N N 217 SPK H9B H N N 218 SPK H101 H N N 219 SPK H102 H N N 220 SPK H111 H N N 221 SPK H112 H N N 222 SPK H121 H N N 223 SPK H122 H N N 224 SPK H131 H N N 225 SPK H132 H N N 226 SPK H141 H N N 227 SPK H142 H N N 228 SPK H143 H N N 229 # 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 5HC "O4'" "C4'" sing N N 1 5HC "O4'" "C1'" sing N N 2 5HC "C4'" "C5'" sing N N 3 5HC "C4'" "C3'" sing N N 4 5HC O2 C2 doub N N 5 5HC "C1'" N1 sing N N 6 5HC "C1'" "C2'" sing N N 7 5HC "C5'" "O5'" sing N N 8 5HC C2 N1 sing N N 9 5HC C2 N3 sing N N 10 5HC N1 C6 sing N N 11 5HC N3 C4 doub N N 12 5HC "O5'" P sing N N 13 5HC "C2'" "C3'" sing N N 14 5HC C6 C5 doub N N 15 5HC "C3'" "O3'" sing N N 16 5HC P OP1 doub N N 17 5HC P OP2 sing N N 18 5HC C4 C5 sing N N 19 5HC C4 N4 sing N N 20 5HC C5 C5M sing N N 21 5HC C5M O5 sing N N 22 5HC P OP3 sing N N 23 5HC OP2 HOP2 sing N N 24 5HC "C5'" "H5'" sing N N 25 5HC "C5'" "H5''" sing N N 26 5HC "C4'" H4 sing N N 27 5HC "C3'" "H3'" sing N N 28 5HC "O3'" "HO3'" sing N N 29 5HC "C2'" "H2'" sing N N 30 5HC "C2'" "H2''" sing N N 31 5HC "C1'" "H1'" sing N N 32 5HC N4 HN41 sing N N 33 5HC N4 HN42 sing N N 34 5HC C5M H5M2 sing N N 35 5HC C5M H5M1 sing N N 36 5HC O5 HO5 sing N N 37 5HC C6 H6 sing N N 38 5HC OP3 HOP3 sing N N 39 DA OP3 P sing N N 40 DA OP3 HOP3 sing N N 41 DA P OP1 doub N N 42 DA P OP2 sing N N 43 DA P "O5'" sing N N 44 DA OP2 HOP2 sing N N 45 DA "O5'" "C5'" sing N N 46 DA "C5'" "C4'" sing N N 47 DA "C5'" "H5'" sing N N 48 DA "C5'" "H5''" sing N N 49 DA "C4'" "O4'" sing N N 50 DA "C4'" "C3'" sing N N 51 DA "C4'" "H4'" sing N N 52 DA "O4'" "C1'" sing N N 53 DA "C3'" "O3'" sing N N 54 DA "C3'" "C2'" sing N N 55 DA "C3'" "H3'" sing N N 56 DA "O3'" "HO3'" sing N N 57 DA "C2'" "C1'" sing N N 58 DA "C2'" "H2'" sing N N 59 DA "C2'" "H2''" sing N N 60 DA "C1'" N9 sing N N 61 DA "C1'" "H1'" sing N N 62 DA N9 C8 sing Y N 63 DA N9 C4 sing Y N 64 DA C8 N7 doub Y N 65 DA C8 H8 sing N N 66 DA N7 C5 sing Y N 67 DA C5 C6 sing Y N 68 DA C5 C4 doub Y N 69 DA C6 N6 sing N N 70 DA C6 N1 doub Y N 71 DA N6 H61 sing N N 72 DA N6 H62 sing N N 73 DA N1 C2 sing Y N 74 DA C2 N3 doub Y N 75 DA C2 H2 sing N N 76 DA N3 C4 sing Y N 77 DC OP3 P sing N N 78 DC OP3 HOP3 sing N N 79 DC P OP1 doub N N 80 DC P OP2 sing N N 81 DC P "O5'" sing N N 82 DC OP2 HOP2 sing N N 83 DC "O5'" "C5'" sing N N 84 DC "C5'" "C4'" sing N N 85 DC "C5'" "H5'" sing N N 86 DC "C5'" "H5''" sing N N 87 DC "C4'" "O4'" sing N N 88 DC "C4'" "C3'" sing N N 89 DC "C4'" "H4'" sing N N 90 DC "O4'" "C1'" sing N N 91 DC "C3'" "O3'" sing N N 92 DC "C3'" "C2'" sing N N 93 DC "C3'" "H3'" sing N N 94 DC "O3'" "HO3'" sing N N 95 DC "C2'" "C1'" sing N N 96 DC "C2'" "H2'" sing N N 97 DC "C2'" "H2''" sing N N 98 DC "C1'" N1 sing N N 99 DC "C1'" "H1'" sing N N 100 DC N1 C2 sing N N 101 DC N1 C6 sing N N 102 DC C2 O2 doub N N 103 DC C2 N3 sing N N 104 DC N3 C4 doub N N 105 DC C4 N4 sing N N 106 DC C4 C5 sing N N 107 DC N4 H41 sing N N 108 DC N4 H42 sing N N 109 DC C5 C6 doub N N 110 DC C5 H5 sing N N 111 DC C6 H6 sing N N 112 DG OP3 P sing N N 113 DG OP3 HOP3 sing N N 114 DG P OP1 doub N N 115 DG P OP2 sing N N 116 DG P "O5'" sing N N 117 DG OP2 HOP2 sing N N 118 DG "O5'" "C5'" sing N N 119 DG "C5'" "C4'" sing N N 120 DG "C5'" "H5'" sing N N 121 DG "C5'" "H5''" sing N N 122 DG "C4'" "O4'" sing N N 123 DG "C4'" "C3'" sing N N 124 DG "C4'" "H4'" sing N N 125 DG "O4'" "C1'" sing N N 126 DG "C3'" "O3'" sing N N 127 DG "C3'" "C2'" sing N N 128 DG "C3'" "H3'" sing N N 129 DG "O3'" "HO3'" sing N N 130 DG "C2'" "C1'" sing N N 131 DG "C2'" "H2'" sing N N 132 DG "C2'" "H2''" sing N N 133 DG "C1'" N9 sing N N 134 DG "C1'" "H1'" sing N N 135 DG N9 C8 sing Y N 136 DG N9 C4 sing Y N 137 DG C8 N7 doub Y N 138 DG C8 H8 sing N N 139 DG N7 C5 sing Y N 140 DG C5 C6 sing N N 141 DG C5 C4 doub Y N 142 DG C6 O6 doub N N 143 DG C6 N1 sing N N 144 DG N1 C2 sing N N 145 DG N1 H1 sing N N 146 DG C2 N2 sing N N 147 DG C2 N3 doub N N 148 DG N2 H21 sing N N 149 DG N2 H22 sing N N 150 DG N3 C4 sing N N 151 DT OP3 P sing N N 152 DT OP3 HOP3 sing N N 153 DT P OP1 doub N N 154 DT P OP2 sing N N 155 DT P "O5'" sing N N 156 DT OP2 HOP2 sing N N 157 DT "O5'" "C5'" sing N N 158 DT "C5'" "C4'" sing N N 159 DT "C5'" "H5'" sing N N 160 DT "C5'" "H5''" sing N N 161 DT "C4'" "O4'" sing N N 162 DT "C4'" "C3'" sing N N 163 DT "C4'" "H4'" sing N N 164 DT "O4'" "C1'" sing N N 165 DT "C3'" "O3'" sing N N 166 DT "C3'" "C2'" sing N N 167 DT "C3'" "H3'" sing N N 168 DT "O3'" "HO3'" sing N N 169 DT "C2'" "C1'" sing N N 170 DT "C2'" "H2'" sing N N 171 DT "C2'" "H2''" sing N N 172 DT "C1'" N1 sing N N 173 DT "C1'" "H1'" sing N N 174 DT N1 C2 sing N N 175 DT N1 C6 sing N N 176 DT C2 O2 doub N N 177 DT C2 N3 sing N N 178 DT N3 C4 sing N N 179 DT N3 H3 sing N N 180 DT C4 O4 doub N N 181 DT C4 C5 sing N N 182 DT C5 C7 sing N N 183 DT C5 C6 doub N N 184 DT C7 H71 sing N N 185 DT C7 H72 sing N N 186 DT C7 H73 sing N N 187 DT C6 H6 sing N N 188 HOH O H1 sing N N 189 HOH O H2 sing N N 190 SPK N1 C2 sing N N 191 SPK N1 H1A sing N N 192 SPK N1 H1B sing N N 193 SPK N1 H1C sing N N 194 SPK C2 C3 sing N N 195 SPK C2 H2A sing N N 196 SPK C2 H2B sing N N 197 SPK C3 C4 sing N N 198 SPK C3 H3A sing N N 199 SPK C3 H3B sing N N 200 SPK C4 N5 sing N N 201 SPK C4 H4A sing N N 202 SPK C4 H4B sing N N 203 SPK N5 C6 sing N N 204 SPK N5 H5A sing N N 205 SPK N5 H5B sing N N 206 SPK C6 C7 sing N N 207 SPK C6 H6A sing N N 208 SPK C6 H6B sing N N 209 SPK C7 C8 sing N N 210 SPK C7 H7A sing N N 211 SPK C7 H7B sing N N 212 SPK C8 C9 sing N N 213 SPK C8 H8A sing N N 214 SPK C8 H8B sing N N 215 SPK C9 N10 sing N N 216 SPK C9 H9A sing N N 217 SPK C9 H9B sing N N 218 SPK N10 C11 sing N N 219 SPK N10 H101 sing N N 220 SPK N10 H102 sing N N 221 SPK C11 C12 sing N N 222 SPK C11 H111 sing N N 223 SPK C11 H112 sing N N 224 SPK C12 C13 sing N N 225 SPK C12 H121 sing N N 226 SPK C12 H122 sing N N 227 SPK C13 N14 sing N N 228 SPK C13 H131 sing N N 229 SPK C13 H132 sing N N 230 SPK N14 H141 sing N N 231 SPK N14 H142 sing N N 232 SPK N14 H143 sing N N 233 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 4I9V 'double helix' 4I9V 'b-form double helix' 4I9V 'mismatched base pair' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DC 1 1_555 B DG 12 1_555 0.248 -0.134 0.123 4.154 -17.046 0.200 1 A_DC1:DG24_B A 1 ? B 24 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.222 -0.185 0.559 6.362 -15.684 -3.159 2 A_DG2:DC23_B A 2 ? B 23 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.125 -0.147 0.095 -2.401 -1.522 -1.171 3 A_DC3:DG22_B A 3 ? B 22 ? 19 1 1 A DA 5 1_555 B DT 8 1_555 0.033 -0.122 -0.001 7.315 -19.263 1.247 4 A_DA5:DT20_B A 5 ? B 20 ? 20 1 1 A DA 6 1_555 B DT 7 1_555 0.017 -0.118 0.109 2.884 -16.032 4.476 5 A_DA6:DT19_B A 6 ? B 19 ? 20 1 1 A DT 7 1_555 B DA 6 1_555 -0.031 -0.126 0.082 0.093 -16.342 4.116 6 A_DT7:DA18_B A 7 ? B 18 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 -0.022 -0.168 0.020 -3.290 -12.687 4.516 7 A_DT8:DA17_B A 8 ? B 17 ? 20 1 1 A DG 10 1_555 B DC 3 1_555 -0.128 -0.070 0.184 6.980 -8.001 3.406 8 A_DG10:DC15_B A 10 ? B 15 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.121 -0.171 0.174 2.696 -19.754 -2.759 9 A_DC11:DG14_B A 11 ? B 14 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.288 -0.106 0.305 4.472 -4.767 -1.040 10 A_DG12:DC13_B A 12 ? B 13 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DC 1 1_555 B DG 12 1_555 A DG 2 1_555 B DC 11 1_555 -0.025 0.177 3.217 -3.416 6.028 34.124 -0.613 -0.473 3.189 10.142 5.748 34.799 1 AA_DC1DG2:DC23DG24_BB A 1 ? B 24 ? A 2 ? B 23 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.694 0.510 3.585 4.179 -7.979 41.733 1.579 -0.494 3.486 -11.046 -5.785 42.652 2 AA_DG2DC3:DG22DC23_BB A 2 ? B 23 ? A 3 ? B 22 ? 1 A DC 3 1_555 B DG 10 1_555 A DA 5 1_555 B DT 8 1_555 -0.663 0.238 6.521 -0.464 5.359 63.842 -0.236 0.586 6.525 5.058 0.438 64.044 3 AA_DC3DA5:DT20DG22_BB A 3 ? B 22 ? A 5 ? B 20 ? 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B DT 7 1_555 0.262 -0.192 3.270 -1.625 0.752 38.825 -0.380 -0.590 3.252 1.131 2.444 38.865 4 AA_DA5DA6:DT19DT20_BB A 5 ? B 20 ? A 6 ? B 19 ? 1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 0.058 -0.541 3.284 0.089 -2.484 31.593 -0.528 -0.090 3.315 -4.554 -0.164 31.688 5 AA_DA6DT7:DA18DT19_BB A 6 ? B 19 ? A 7 ? B 18 ? 1 A DT 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 0.031 -0.385 3.275 1.516 -1.811 36.132 -0.363 0.164 3.289 -2.916 -2.440 36.206 6 AA_DT7DT8:DA17DA18_BB A 7 ? B 18 ? A 8 ? B 17 ? 1 A DT 8 1_555 B DA 5 1_555 A DG 10 1_555 B DC 3 1_555 -0.125 0.390 6.400 -3.750 1.493 66.493 0.240 -0.177 6.405 1.360 3.417 66.601 7 AA_DT8DG10:DC15DA17_BB A 8 ? B 17 ? A 10 ? B 15 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -1.323 0.547 3.405 -3.438 -9.339 42.756 1.656 1.431 3.312 -12.606 4.640 43.846 8 AA_DG10DC11:DG14DC15_BB A 10 ? B 15 ? A 11 ? B 14 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 -0.232 0.176 3.176 -1.430 6.196 32.505 -0.713 0.171 3.162 10.939 2.525 33.104 9 AA_DC11DG12:DC13DG14_BB A 11 ? B 14 ? A 12 ? B 13 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MAGNESIUM ION' MG 3 'SPERMINE (FULLY PROTONATED FORM)' SPK 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 436D _pdbx_initial_refinement_model.details 'PDB ENTRY 436D' #