data_2FII # _entry.id 2FII # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.377 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 2FII pdb_00002fii 10.2210/pdb2fii/pdb NDB BD0092 ? ? RCSB RCSB035917 ? ? WWPDB D_1000035917 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 2FIH . unspecified PDB 2FIJ . unspecified PDB 2FIL . unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2FII _pdbx_database_status.recvd_initial_deposition_date 2005-12-29 _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.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Egli, M.' 1 'Li, F.' 2 # _citation.id primary _citation.title ;2'-Fluoroarabino- and arabinonucleic acid show different conformations, resulting in deviating RNA affinities and processing of their heteroduplexes with RNA by RNase H. ; _citation.journal_abbrev Biochemistry _citation.journal_volume 45 _citation.page_first 4141 _citation.page_last 4152 _citation.year 2006 _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 16566588 _citation.pdbx_database_id_DOI 10.1021/bi052322r # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Li, F.' 1 ? primary 'Sarkhel, S.' 2 ? primary 'Wilds, C.J.' 3 ? primary 'Wawrzak, Z.' 4 ? primary 'Prakash, T.P.' 5 ? primary 'Manoharan, M.' 6 ? primary 'Egli, M.' 7 ? # _cell.entry_id 2FII _cell.length_a 25.699 _cell.length_b 39.915 _cell.length_c 65.564 _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 2FII _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 "5'-D(*CP*GP*CP*GP*AP*AP*TP*(UAR)P*CP*GP*CP*G)-3'" 3665.365 2 ? 'Incorperated arabino-U at position 8' ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 3 water nat water 18.015 131 ? ? ? ? # _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)(UAR)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAATUCGCG _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 UAR n 1 9 DC n 1 10 DG n 1 11 DC n 1 12 DG n # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 2FII _struct_ref.pdbx_db_accession 2FII _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 2FII A 1 ? 12 ? 2FII 1 ? 12 ? 1 12 2 1 2FII B 1 ? 12 ? 2FII 113 ? 124 ? 113 124 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 UAR 'RNA linking' n ;URACIL ARABINOSE-5'-PHOSPHATE ; ? 'C9 H13 N2 O9 P' 324.181 # _exptl.entry_id 2FII _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.20 _exptl_crystal.density_percent_sol 44.03 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.00 _exptl_crystal_grow.pdbx_details ;Final droplet composition: 0.6 mM oligonucleotide, 20mM sodium cacodylate, 6.3 mM Mg(OAc)2, and 3 mM spermine tetrahydrochloride., pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K, pH 7.00 ; _exptl_crystal_grow.pdbx_pH_range . # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 'sodium cacodylate' ? ? ? 1 2 1 'Mg(OAc)2' ? ? ? 1 3 1 spermine ? ? ? 1 4 1 tetrahydrochloride ? ? ? 1 5 1 H2O ? ? ? 1 6 2 'sodium cacodylate' ? ? ? 1 7 2 'Mg(OAc)2' ? ? ? 1 8 2 H2O ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 103.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 2002-07-06 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.0 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 5ID-B' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 5ID-B _diffrn_source.pdbx_wavelength 1.0 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 2FII _reflns.observed_criterion_sigma_I 0.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 30.000 _reflns.d_resolution_high 1.240 _reflns.number_obs 19780 _reflns.number_all ? _reflns.percent_possible_obs 99.8 _reflns.pdbx_Rmerge_I_obs 0.077 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.24 _reflns_shell.d_res_low 1.34 _reflns_shell.percent_possible_all 99.5 _reflns_shell.Rmerge_I_obs 0.168 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _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 ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 2FII _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all 19728 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 30.00 _refine.ls_d_res_high 1.24 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.155 _refine.ls_R_factor_all 0.158 _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free 0.212 _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 985 _refine.ls_number_parameters ? _refine.ls_number_restraints 15316 _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model 'NDB entry BDL084/PDB entry 355D' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_phase_error ? _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 486 _refine_hist.pdbx_number_atoms_ligand 1 _refine_hist.number_atoms_solvent 131 _refine_hist.number_atoms_total 618 _refine_hist.d_res_high 1.24 _refine_hist.d_res_low 30.00 # _pdbx_refine.entry_id 2FII _pdbx_refine.R_factor_all_no_cutoff 0.158 _pdbx_refine.R_factor_obs_no_cutoff 0.155 _pdbx_refine.free_R_factor_no_cutoff 0.212 _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 5.0 _pdbx_refine.free_R_val_test_set_ct_no_cutoff 985 _pdbx_refine.R_factor_all_4sig_cutoff 0.156 _pdbx_refine.R_factor_obs_4sig_cutoff 0.208 _pdbx_refine.free_R_factor_4sig_cutoff 0.153 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 5.0 _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 934 _pdbx_refine.number_reflns_obs_4sig_cutoff 18604 _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.free_R_error_no_cutoff ? # _struct.entry_id 2FII _struct.title 'Crystal Structure Analysis of the B-DNA Dodecamer CGCGAAT-aU-CGCG, with Incorporated Arabino-Uridin (aU)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2FII _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Arabinonucleic Acid, Sugar Modifications, B-form 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 ? # _struct_biol.id 1 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A DT 7 "O3'" ? ? ? 1_555 A UAR 8 P ? ? A DT 7 A UAR 8 1_555 ? ? ? ? ? ? ? 1.578 ? ? covale2 covale both ? A UAR 8 "O3'" ? ? ? 1_555 A DC 9 P ? ? A UAR 8 A DC 9 1_555 ? ? ? ? ? ? ? 1.613 ? ? covale3 covale both ? B DT 7 "O3'" ? ? ? 1_555 B UAR 8 P ? ? B DT 119 B UAR 120 1_555 ? ? ? ? ? ? ? 1.585 ? ? covale4 covale both ? B UAR 8 "O3'" ? ? ? 1_555 B DC 9 P ? ? B UAR 120 B DC 121 1_555 ? ? ? ? ? ? ? 1.578 ? ? metalc1 metalc ? ? D HOH . O ? ? ? 1_555 C MG . MG ? ? A HOH 204 A MG 310 1_555 ? ? ? ? ? ? ? 2.085 ? ? metalc2 metalc ? ? D HOH . O ? ? ? 1_555 C MG . MG ? ? A HOH 205 A MG 310 1_555 ? ? ? ? ? ? ? 2.056 ? ? metalc3 metalc ? ? D HOH . O ? ? ? 3_546 C MG . MG ? ? A HOH 220 A MG 310 1_555 ? ? ? ? ? ? ? 2.061 ? ? metalc4 metalc ? ? D HOH . O ? ? ? 3_546 C MG . MG ? ? A HOH 229 A MG 310 1_555 ? ? ? ? ? ? ? 2.084 ? ? metalc5 metalc ? ? D HOH . O ? ? ? 3_546 C MG . MG ? ? A HOH 230 A MG 310 1_555 ? ? ? ? ? ? ? 2.069 ? ? metalc6 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 310 B HOH 206 1_555 ? ? ? ? ? ? ? 2.066 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 1 B DG 124 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 1 B DG 124 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 1 B DG 124 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 123 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 123 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 123 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 122 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 122 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 122 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 9 N3 ? ? A DG 4 B DC 121 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 9 O2 ? ? A DG 4 B DC 121 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 9 N4 ? ? A DG 4 B DC 121 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B UAR 8 N3 ? ? A DA 5 B UAR 120 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B UAR 8 O4 ? ? A DA 5 B UAR 120 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 6 B DT 119 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 6 B DT 119 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 7 B DA 118 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 7 B DA 118 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A UAR 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A UAR 8 B DA 117 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A UAR 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A UAR 8 B DA 117 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 9 B DG 116 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 9 B DG 116 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 9 B DG 116 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 115 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 115 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 115 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 114 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 114 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 114 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 113 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 113 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 113 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id MG _struct_site.pdbx_auth_seq_id 310 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 6 _struct_site.details 'BINDING SITE FOR RESIDUE MG A 310' # 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 D . ? HOH A 204 . ? 1_555 ? 2 AC1 6 HOH D . ? HOH A 205 . ? 1_555 ? 3 AC1 6 HOH D . ? HOH A 220 . ? 3_546 ? 4 AC1 6 HOH D . ? HOH A 229 . ? 3_546 ? 5 AC1 6 HOH D . ? HOH A 230 . ? 3_546 ? 6 AC1 6 HOH E . ? HOH B 206 . ? 1_555 ? # _database_PDB_matrix.entry_id 2FII _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 2FII _atom_sites.fract_transf_matrix[1][1] 0.038912 _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] 0.025053 _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] 0.015252 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C MG N O P # loop_ _database_PDB_caveat.text ;chirality error at C2' center of UAR ; # 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 CYT A . n A 1 2 DG 2 2 2 DG GUA A . n A 1 3 DC 3 3 3 DC CYT A . n A 1 4 DG 4 4 4 DG GUA A . n A 1 5 DA 5 5 5 DA ADE A . n A 1 6 DA 6 6 6 DA ADE A . n A 1 7 DT 7 7 7 DT THY A . n A 1 8 UAR 8 8 8 UAR X A . n A 1 9 DC 9 9 9 DC CYT A . n A 1 10 DG 10 10 10 DG GUA A . n A 1 11 DC 11 11 11 DC CYT A . n A 1 12 DG 12 12 12 DG GUA A . n B 1 1 DC 1 113 113 DC CYT B . n B 1 2 DG 2 114 114 DG GUA B . n B 1 3 DC 3 115 115 DC CYT B . n B 1 4 DG 4 116 116 DG GUA B . n B 1 5 DA 5 117 117 DA ADE B . n B 1 6 DA 6 118 118 DA ADE B . n B 1 7 DT 7 119 119 DT THY B . n B 1 8 UAR 8 120 120 UAR X B . n B 1 9 DC 9 121 121 DC CYT B . n B 1 10 DG 10 122 122 DG GUA B . n B 1 11 DC 11 123 123 DC CYT B . n B 1 12 DG 12 124 124 DG GUA 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 1 310 310 MG MG A . D 3 HOH 1 201 201 HOH HOH A . D 3 HOH 2 202 202 HOH HOH A . D 3 HOH 3 203 203 HOH HOH A . D 3 HOH 4 204 204 HOH HOH A . D 3 HOH 5 205 205 HOH HOH A . D 3 HOH 6 207 207 HOH HOH A . D 3 HOH 7 209 209 HOH HOH A . D 3 HOH 8 212 212 HOH HOH A . D 3 HOH 9 213 213 HOH HOH A . D 3 HOH 10 214 214 HOH HOH A . D 3 HOH 11 215 215 HOH HOH A . D 3 HOH 12 217 217 HOH HOH A . D 3 HOH 13 218 218 HOH HOH A . D 3 HOH 14 219 219 HOH HOH A . D 3 HOH 15 220 220 HOH HOH A . D 3 HOH 16 221 221 HOH HOH A . D 3 HOH 17 222 222 HOH HOH A . D 3 HOH 18 223 223 HOH HOH A . D 3 HOH 19 224 224 HOH HOH A . D 3 HOH 20 225 225 HOH HOH A . D 3 HOH 21 229 229 HOH HOH A . D 3 HOH 22 230 230 HOH HOH A . D 3 HOH 23 231 231 HOH HOH A . D 3 HOH 24 232 232 HOH HOH A . D 3 HOH 25 233 233 HOH HOH A . D 3 HOH 26 234 234 HOH HOH A . D 3 HOH 27 235 235 HOH HOH A . D 3 HOH 28 236 236 HOH HOH A . D 3 HOH 29 238 238 HOH HOH A . D 3 HOH 30 239 239 HOH HOH A . D 3 HOH 31 240 240 HOH HOH A . D 3 HOH 32 241 241 HOH HOH A . D 3 HOH 33 242 242 HOH HOH A . D 3 HOH 34 243 243 HOH HOH A . D 3 HOH 35 244 244 HOH HOH A . D 3 HOH 36 245 245 HOH HOH A . D 3 HOH 37 246 246 HOH HOH A . D 3 HOH 38 247 247 HOH HOH A . D 3 HOH 39 248 248 HOH HOH A . D 3 HOH 40 249 249 HOH HOH A . D 3 HOH 41 251 251 HOH HOH A . D 3 HOH 42 252 252 HOH HOH A . D 3 HOH 43 255 255 HOH HOH A . D 3 HOH 44 271 271 HOH HOH A . D 3 HOH 45 273 273 HOH HOH A . D 3 HOH 46 274 274 HOH HOH A . D 3 HOH 47 276 276 HOH HOH A . D 3 HOH 48 280 280 HOH HOH A . D 3 HOH 49 287 287 HOH HOH A . D 3 HOH 50 294 294 HOH HOH A . D 3 HOH 51 295 295 HOH HOH A . D 3 HOH 52 297 297 HOH HOH A . D 3 HOH 53 313 313 HOH HOH A . D 3 HOH 54 314 314 HOH HOH A . D 3 HOH 55 315 315 HOH HOH A . D 3 HOH 56 316 316 HOH HOH A . D 3 HOH 57 317 317 HOH HOH A . D 3 HOH 58 318 318 HOH HOH A . D 3 HOH 59 319 319 HOH HOH A . D 3 HOH 60 321 321 HOH HOH A . D 3 HOH 61 323 323 HOH HOH A . D 3 HOH 62 324 324 HOH HOH A . D 3 HOH 63 325 325 HOH HOH A . D 3 HOH 64 332 332 HOH HOH A . D 3 HOH 65 335 335 HOH HOH A . D 3 HOH 66 336 336 HOH HOH A . D 3 HOH 67 337 337 HOH HOH A . D 3 HOH 68 338 338 HOH HOH A . D 3 HOH 69 340 340 HOH HOH A . D 3 HOH 70 352 352 HOH HOH A . D 3 HOH 71 353 353 HOH HOH A . D 3 HOH 72 356 356 HOH HOH A . D 3 HOH 73 362 362 HOH HOH A . D 3 HOH 74 366 366 HOH HOH A . D 3 HOH 75 368 368 HOH HOH A . D 3 HOH 76 370 370 HOH HOH A . D 3 HOH 77 374 374 HOH HOH A . D 3 HOH 78 400 400 HOH HOH A . E 3 HOH 1 206 206 HOH HOH B . E 3 HOH 2 208 208 HOH HOH B . E 3 HOH 3 216 216 HOH HOH B . E 3 HOH 4 226 226 HOH HOH B . E 3 HOH 5 227 227 HOH HOH B . E 3 HOH 6 228 228 HOH HOH B . E 3 HOH 7 237 237 HOH HOH B . E 3 HOH 8 253 253 HOH HOH B . E 3 HOH 9 254 254 HOH HOH B . E 3 HOH 10 256 256 HOH HOH B . E 3 HOH 11 257 257 HOH HOH B . E 3 HOH 12 258 258 HOH HOH B . E 3 HOH 13 259 259 HOH HOH B . E 3 HOH 14 260 260 HOH HOH B . E 3 HOH 15 261 261 HOH HOH B . E 3 HOH 16 262 262 HOH HOH B . E 3 HOH 17 264 264 HOH HOH B . E 3 HOH 18 265 265 HOH HOH B . E 3 HOH 19 266 266 HOH HOH B . E 3 HOH 20 267 267 HOH HOH B . E 3 HOH 21 270 270 HOH HOH B . E 3 HOH 22 277 277 HOH HOH B . E 3 HOH 23 278 278 HOH HOH B . E 3 HOH 24 279 279 HOH HOH B . E 3 HOH 25 281 281 HOH HOH B . E 3 HOH 26 282 282 HOH HOH B . E 3 HOH 27 283 283 HOH HOH B . E 3 HOH 28 285 285 HOH HOH B . E 3 HOH 29 286 286 HOH HOH B . E 3 HOH 30 288 288 HOH HOH B . E 3 HOH 31 289 289 HOH HOH B . E 3 HOH 32 290 290 HOH HOH B . E 3 HOH 33 298 298 HOH HOH B . E 3 HOH 34 301 301 HOH HOH B . E 3 HOH 35 302 302 HOH HOH B . E 3 HOH 36 303 303 HOH HOH B . E 3 HOH 37 304 304 HOH HOH B . E 3 HOH 38 311 311 HOH HOH B . E 3 HOH 39 327 327 HOH HOH B . E 3 HOH 40 328 328 HOH HOH B . E 3 HOH 41 329 329 HOH HOH B . E 3 HOH 42 330 330 HOH HOH B . E 3 HOH 43 331 331 HOH HOH B . E 3 HOH 44 333 333 HOH HOH B . E 3 HOH 45 341 341 HOH HOH B . E 3 HOH 46 349 349 HOH HOH B . E 3 HOH 47 354 354 HOH HOH B . E 3 HOH 48 369 369 HOH HOH B . E 3 HOH 49 375 375 HOH HOH B . E 3 HOH 50 377 377 HOH HOH B . E 3 HOH 51 379 379 HOH HOH B . E 3 HOH 52 387 387 HOH HOH B . E 3 HOH 53 393 393 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 UAR 8 A UAR 8 ? U ;URACIL ARABINOSE-5'-PHOSPHATE ; 2 B UAR 8 B UAR 120 ? U ;URACIL ARABINOSE-5'-PHOSPHATE ; # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # _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 ? D HOH . ? A HOH 204 ? 1_555 MG ? C MG . ? A MG 310 ? 1_555 O ? D HOH . ? A HOH 205 ? 1_555 93.7 ? 2 O ? D HOH . ? A HOH 204 ? 1_555 MG ? C MG . ? A MG 310 ? 1_555 O ? D HOH . ? A HOH 220 ? 3_546 174.1 ? 3 O ? D HOH . ? A HOH 205 ? 1_555 MG ? C MG . ? A MG 310 ? 1_555 O ? D HOH . ? A HOH 220 ? 3_546 84.7 ? 4 O ? D HOH . ? A HOH 204 ? 1_555 MG ? C MG . ? A MG 310 ? 1_555 O ? D HOH . ? A HOH 229 ? 3_546 89.0 ? 5 O ? D HOH . ? A HOH 205 ? 1_555 MG ? C MG . ? A MG 310 ? 1_555 O ? D HOH . ? A HOH 229 ? 3_546 92.8 ? 6 O ? D HOH . ? A HOH 220 ? 3_546 MG ? C MG . ? A MG 310 ? 1_555 O ? D HOH . ? A HOH 229 ? 3_546 85.4 ? 7 O ? D HOH . ? A HOH 204 ? 1_555 MG ? C MG . ? A MG 310 ? 1_555 O ? D HOH . ? A HOH 230 ? 3_546 89.0 ? 8 O ? D HOH . ? A HOH 205 ? 1_555 MG ? C MG . ? A MG 310 ? 1_555 O ? D HOH . ? A HOH 230 ? 3_546 174.1 ? 9 O ? D HOH . ? A HOH 220 ? 3_546 MG ? C MG . ? A MG 310 ? 1_555 O ? D HOH . ? A HOH 230 ? 3_546 93.0 ? 10 O ? D HOH . ? A HOH 229 ? 3_546 MG ? C MG . ? A MG 310 ? 1_555 O ? D HOH . ? A HOH 230 ? 3_546 92.6 ? 11 O ? D HOH . ? A HOH 204 ? 1_555 MG ? C MG . ? A MG 310 ? 1_555 O ? E HOH . ? B HOH 206 ? 1_555 93.4 ? 12 O ? D HOH . ? A HOH 205 ? 1_555 MG ? C MG . ? A MG 310 ? 1_555 O ? E HOH . ? B HOH 206 ? 1_555 87.3 ? 13 O ? D HOH . ? A HOH 220 ? 3_546 MG ? C MG . ? A MG 310 ? 1_555 O ? E HOH . ? B HOH 206 ? 1_555 92.3 ? 14 O ? D HOH . ? A HOH 229 ? 3_546 MG ? C MG . ? A MG 310 ? 1_555 O ? E HOH . ? B HOH 206 ? 1_555 177.6 ? 15 O ? D HOH . ? A HOH 230 ? 3_546 MG ? C MG . ? A MG 310 ? 1_555 O ? E HOH . ? B HOH 206 ? 1_555 87.3 ? # 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 2006-05-23 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2011-12-28 5 'Structure model' 1 4 2023-08-30 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' Advisory 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 5 'Structure model' chem_comp_atom 2 5 'Structure model' chem_comp_bond 3 5 'Structure model' database_2 4 5 'Structure model' pdbx_initial_refinement_model 5 5 'Structure model' pdbx_struct_conn_angle 6 5 'Structure model' struct_conn 7 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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' 3 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 4 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 5 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 11 5 'Structure model' '_pdbx_struct_conn_angle.value' 12 5 'Structure model' '_struct_conn.conn_type_id' 13 5 'Structure model' '_struct_conn.id' 14 5 'Structure model' '_struct_conn.pdbx_dist_value' 15 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 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.ptnr1_label_seq_id' 23 5 'Structure model' '_struct_conn.ptnr1_symmetry' 24 5 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 25 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 26 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 27 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 28 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 29 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 30 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 31 5 'Structure model' '_struct_conn.ptnr2_symmetry' 32 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 33 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 34 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal DENZO 'data reduction' . ? 1 SCALEPACK 'data scaling' . ? 2 CNS refinement . ? 3 SHELXL-97 refinement . ? 4 CNS phasing . ? 5 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? 1.467 1.516 -0.049 0.008 N 2 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? 1.506 1.420 0.086 0.011 N 3 1 "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 1.453 1.516 -0.063 0.008 N 4 1 "C2'" A DG 2 ? ? "C1'" A DG 2 ? ? 1.439 1.518 -0.079 0.010 N 5 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? 1.522 1.420 0.102 0.011 N 6 1 "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? 1.465 1.516 -0.051 0.008 N 7 1 "C2'" A DC 3 ? ? "C1'" A DC 3 ? ? 1.439 1.518 -0.079 0.010 N 8 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? 1.543 1.420 0.123 0.011 N 9 1 "C3'" A DA 5 ? ? "C2'" A DA 5 ? ? 1.468 1.516 -0.048 0.008 N 10 1 "C2'" A DA 5 ? ? "C1'" A DA 5 ? ? 1.448 1.518 -0.070 0.010 N 11 1 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? 1.525 1.420 0.105 0.011 N 12 1 "C2'" A DA 6 ? ? "C1'" A DA 6 ? ? 1.442 1.518 -0.076 0.010 N 13 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? 1.501 1.420 0.081 0.011 N 14 1 "C2'" A DT 7 ? ? "C1'" A DT 7 ? ? 1.428 1.518 -0.090 0.010 N 15 1 "O4'" A DT 7 ? ? "C1'" A DT 7 ? ? 1.533 1.420 0.113 0.011 N 16 1 "C2'" A DC 9 ? ? "C1'" A DC 9 ? ? 1.419 1.518 -0.099 0.010 N 17 1 "O4'" A DC 9 ? ? "C1'" A DC 9 ? ? 1.584 1.420 0.164 0.011 N 18 1 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? 1.493 1.420 0.073 0.011 N 19 1 "C2'" A DC 11 ? ? "C1'" A DC 11 ? ? 1.412 1.518 -0.106 0.010 N 20 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? 1.551 1.420 0.131 0.011 N 21 1 "C2'" A DG 12 ? ? "C1'" A DG 12 ? ? 1.442 1.518 -0.076 0.010 N 22 1 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? 1.525 1.420 0.105 0.011 N 23 1 "C3'" B DC 113 ? ? "C2'" B DC 113 ? ? 1.457 1.516 -0.059 0.008 N 24 1 "C2'" B DC 113 ? ? "C1'" B DC 113 ? ? 1.454 1.518 -0.064 0.010 N 25 1 "O4'" B DC 113 ? ? "C1'" B DC 113 ? ? 1.518 1.420 0.098 0.011 N 26 1 "C3'" B DG 114 ? ? "C2'" B DG 114 ? ? 1.467 1.516 -0.049 0.008 N 27 1 "C2'" B DG 114 ? ? "C1'" B DG 114 ? ? 1.438 1.518 -0.080 0.010 N 28 1 "O4'" B DG 114 ? ? "C1'" B DG 114 ? ? 1.514 1.420 0.094 0.011 N 29 1 "C2'" B DC 115 ? ? "C1'" B DC 115 ? ? 1.431 1.518 -0.087 0.010 N 30 1 "O4'" B DC 115 ? ? "C1'" B DC 115 ? ? 1.549 1.420 0.129 0.011 N 31 1 "C3'" B DA 117 ? ? "C2'" B DA 117 ? ? 1.466 1.516 -0.050 0.008 N 32 1 "C2'" B DA 117 ? ? "C1'" B DA 117 ? ? 1.447 1.518 -0.071 0.010 N 33 1 "O4'" B DA 117 ? ? "C1'" B DA 117 ? ? 1.535 1.420 0.115 0.011 N 34 1 "C2'" B DA 118 ? ? "C1'" B DA 118 ? ? 1.431 1.518 -0.087 0.010 N 35 1 "O4'" B DA 118 ? ? "C1'" B DA 118 ? ? 1.515 1.420 0.095 0.011 N 36 1 "C2'" B DT 119 ? ? "C1'" B DT 119 ? ? 1.433 1.518 -0.085 0.010 N 37 1 "O4'" B DT 119 ? ? "C1'" B DT 119 ? ? 1.531 1.420 0.111 0.011 N 38 1 "C2'" B DC 121 ? ? "C1'" B DC 121 ? ? 1.428 1.518 -0.090 0.010 N 39 1 "O4'" B DC 121 ? ? "C1'" B DC 121 ? ? 1.561 1.420 0.141 0.011 N 40 1 "C3'" B DC 123 ? ? "C2'" B DC 123 ? ? 1.449 1.516 -0.067 0.008 N 41 1 "C2'" B DC 123 ? ? "C1'" B DC 123 ? ? 1.387 1.518 -0.131 0.010 N 42 1 "O4'" B DC 123 ? ? "C1'" B DC 123 ? ? 1.587 1.420 0.167 0.011 N 43 1 "C2'" B DG 124 ? ? "C1'" B DG 124 ? ? 1.440 1.518 -0.078 0.010 N 44 1 "O4'" B DG 124 ? ? "C1'" B DG 124 ? ? 1.546 1.420 0.126 0.011 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 102.64 108.00 -5.36 0.70 N 2 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 100.69 108.00 -7.31 0.70 N 3 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 100.54 108.00 -7.46 0.70 N 4 1 "O5'" A DG 4 ? ? "C5'" A DG 4 ? ? "C4'" A DG 4 ? ? 104.28 109.40 -5.12 0.80 N 5 1 "C3'" A DG 4 ? ? "O3'" A DG 4 ? ? P A DA 5 ? ? 127.51 119.70 7.81 1.20 Y 6 1 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 103.71 108.00 -4.29 0.70 N 7 1 N1 A DA 5 ? ? C6 A DA 5 ? ? N6 A DA 5 ? ? 114.40 118.60 -4.20 0.60 N 8 1 "C3'" A DA 5 ? ? "O3'" A DA 5 ? ? P A DA 6 ? ? 130.52 119.70 10.82 1.20 Y 9 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? N9 A DA 6 ? ? 102.61 108.00 -5.39 0.70 N 10 1 "O4'" A DT 7 ? ? "C1'" A DT 7 ? ? N1 A DT 7 ? ? 102.13 108.00 -5.87 0.70 N 11 1 N1 A DC 9 ? ? "C1'" A DC 9 ? ? "C2'" A DC 9 ? ? 127.74 114.30 13.44 1.40 N 12 1 "O4'" A DC 9 ? ? "C1'" A DC 9 ? ? N1 A DC 9 ? ? 96.81 108.00 -11.19 0.70 N 13 1 "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? "C1'" A DG 10 ? ? 97.24 102.40 -5.16 0.80 N 14 1 N1 A DC 11 ? ? "C1'" A DC 11 ? ? "C2'" A DC 11 ? ? 125.70 114.30 11.40 1.40 N 15 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 95.59 108.00 -12.41 0.70 N 16 1 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 99.69 108.00 -8.31 0.70 N 17 1 "O5'" B DC 113 ? ? "C5'" B DC 113 ? ? "C4'" B DC 113 ? ? 103.30 109.40 -6.10 0.80 N 18 1 "O4'" B DC 113 ? ? "C1'" B DC 113 ? ? N1 B DC 113 ? ? 103.21 108.00 -4.79 0.70 N 19 1 "O4'" B DG 114 ? ? "C1'" B DG 114 ? ? N9 B DG 114 ? ? 103.25 108.00 -4.75 0.70 N 20 1 N7 B DG 114 ? ? C8 B DG 114 ? ? N9 B DG 114 ? ? 109.34 113.10 -3.76 0.50 N 21 1 "O4'" B DC 115 ? ? "C1'" B DC 115 ? ? N1 B DC 115 ? ? 100.57 108.00 -7.43 0.70 N 22 1 C2 B DC 115 ? ? N3 B DC 115 ? ? C4 B DC 115 ? ? 124.18 119.90 4.28 0.50 N 23 1 N3 B DC 115 ? ? C4 B DC 115 ? ? C5 B DC 115 ? ? 119.48 121.90 -2.42 0.40 N 24 1 "O4'" B DG 116 ? ? "C1'" B DG 116 ? ? N9 B DG 116 ? ? 112.70 108.30 4.40 0.30 N 25 1 "C3'" B DG 116 ? ? "O3'" B DG 116 ? ? P B DA 117 ? ? 128.56 119.70 8.86 1.20 Y 26 1 "O4'" B DA 117 ? ? "C1'" B DA 117 ? ? N9 B DA 117 ? ? 100.62 108.00 -7.38 0.70 N 27 1 "O4'" B DA 118 ? ? "C1'" B DA 118 ? ? N9 B DA 118 ? ? 100.75 108.00 -7.25 0.70 N 28 1 "O4'" B DT 119 ? ? "C1'" B DT 119 ? ? N1 B DT 119 ? ? 101.70 108.00 -6.30 0.70 N 29 1 "C1'" B DC 121 ? ? "O4'" B DC 121 ? ? "C4'" B DC 121 ? ? 102.45 110.10 -7.65 1.00 N 30 1 N1 B DC 121 ? ? "C1'" B DC 121 ? ? "C2'" B DC 121 ? ? 124.22 114.30 9.92 1.40 N 31 1 "O4'" B DC 121 ? ? "C1'" B DC 121 ? ? N1 B DC 121 ? ? 99.95 108.00 -8.05 0.70 N 32 1 C6 B DC 121 ? ? N1 B DC 121 ? ? C2 B DC 121 ? ? 117.70 120.30 -2.60 0.40 N 33 1 C5 B DC 121 ? ? C6 B DC 121 ? ? N1 B DC 121 ? ? 124.06 121.00 3.06 0.50 N 34 1 "O4'" B DC 123 ? ? "C4'" B DC 123 ? ? "C3'" B DC 123 ? ? 101.12 104.50 -3.38 0.40 N 35 1 N1 B DC 123 ? ? "C1'" B DC 123 ? ? "C2'" B DC 123 ? ? 126.05 114.30 11.75 1.40 N 36 1 "O4'" B DC 123 ? ? "C1'" B DC 123 ? ? N1 B DC 123 ? ? 97.13 108.00 -10.87 0.70 N 37 1 C2 B DC 123 ? ? N1 B DC 123 ? ? "C1'" B DC 123 ? ? 111.65 118.80 -7.15 1.10 N 38 1 "O4'" B DG 124 ? ? "C1'" B DG 124 ? ? N9 B DG 124 ? ? 101.18 108.00 -6.82 0.70 N # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 HOH O O N N 144 HOH H1 H N N 145 HOH H2 H N N 146 MG MG MG N N 147 UAR OP3 O N N 148 UAR P P N N 149 UAR OP1 O N N 150 UAR OP2 O N N 151 UAR "O5'" O N N 152 UAR "C5'" C N N 153 UAR "C4'" C N R 154 UAR "O4'" O N N 155 UAR "C3'" C N S 156 UAR "O3'" O N N 157 UAR "C2'" C N S 158 UAR "O2'" O N N 159 UAR "C1'" C N R 160 UAR N1 N N N 161 UAR C2 C N N 162 UAR O2 O N N 163 UAR N3 N N N 164 UAR C4 C N N 165 UAR O4 O N N 166 UAR C5 C N N 167 UAR C6 C N N 168 UAR HOP3 H N N 169 UAR HOP2 H N N 170 UAR "H5'" H N N 171 UAR "H5''" H N N 172 UAR "H4'" H N N 173 UAR "H3'" H N N 174 UAR "HO3'" H N N 175 UAR "H2'" H N N 176 UAR "HO2'" H N N 177 UAR "H1'" H N N 178 UAR H3 H N N 179 UAR H5 H N N 180 UAR H6 H N N 181 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal 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 UAR OP3 P sing N N 152 UAR OP3 HOP3 sing N N 153 UAR P OP1 doub N N 154 UAR P OP2 sing N N 155 UAR P "O5'" sing N N 156 UAR OP2 HOP2 sing N N 157 UAR "O5'" "C5'" sing N N 158 UAR "C5'" "C4'" sing N N 159 UAR "C5'" "H5'" sing N N 160 UAR "C5'" "H5''" sing N N 161 UAR "C4'" "O4'" sing N N 162 UAR "C4'" "C3'" sing N N 163 UAR "C4'" "H4'" sing N N 164 UAR "O4'" "C1'" sing N N 165 UAR "C3'" "O3'" sing N N 166 UAR "C3'" "C2'" sing N N 167 UAR "C3'" "H3'" sing N N 168 UAR "O3'" "HO3'" sing N N 169 UAR "C2'" "O2'" sing N N 170 UAR "C2'" "C1'" sing N N 171 UAR "C2'" "H2'" sing N N 172 UAR "O2'" "HO2'" sing N N 173 UAR "C1'" N1 sing N N 174 UAR "C1'" "H1'" sing N N 175 UAR N1 C2 sing N N 176 UAR N1 C6 sing N N 177 UAR C2 O2 doub N N 178 UAR C2 N3 sing N N 179 UAR N3 C4 sing N N 180 UAR N3 H3 sing N N 181 UAR C4 O4 doub N N 182 UAR C4 C5 sing N N 183 UAR C5 C6 doub N N 184 UAR C5 H5 sing N N 185 UAR C6 H6 sing N N 186 # _ndb_struct_conf_na.entry_id 2FII _ndb_struct_conf_na.feature 'b-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DC 1 1_555 B DG 12 1_555 0.261 -0.149 0.105 5.894 -16.951 0.100 1 A_DC1:DG124_B A 1 ? B 124 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.213 -0.186 0.456 7.948 -11.085 -2.077 2 A_DG2:DC123_B A 2 ? B 123 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.142 -0.144 0.141 -3.181 -5.060 -1.403 3 A_DC3:DG122_B A 3 ? B 122 ? 19 1 1 A DG 4 1_555 B DC 9 1_555 -0.204 -0.113 0.073 14.016 -7.266 0.153 4 A_DG4:DC121_B A 4 ? B 121 ? 19 1 1 A DA 5 1_555 B UAR 8 1_555 0.071 -0.093 0.092 9.824 -14.676 3.831 5 A_DA5:UAR120_B A 5 ? B 120 ? 20 1 1 A DA 6 1_555 B DT 7 1_555 0.048 -0.060 -0.009 -0.436 -16.611 6.246 6 A_DA6:DT119_B A 6 ? B 119 ? 20 1 1 A DT 7 1_555 B DA 6 1_555 -0.020 -0.087 0.017 -0.760 -16.282 4.977 7 A_DT7:DA118_B A 7 ? B 118 ? 20 1 1 A UAR 8 1_555 B DA 5 1_555 -0.018 -0.104 0.012 -5.279 -11.808 3.274 8 A_UAR8:DA117_B A 8 ? B 117 ? 20 1 1 A DC 9 1_555 B DG 4 1_555 0.166 -0.080 0.089 -12.912 -7.331 -1.866 9 A_DC9:DG116_B A 9 ? B 116 ? 19 1 1 A DG 10 1_555 B DC 3 1_555 -0.132 -0.078 0.340 8.251 -5.879 2.651 10 A_DG10:DC115_B A 10 ? B 115 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.112 -0.189 0.209 3.318 -19.138 -2.177 11 A_DC11:DG114_B A 11 ? B 114 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.208 -0.171 0.301 3.803 -6.008 -1.852 12 A_DG12:DC113_B A 12 ? B 113 ? 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 -0.106 0.071 3.220 -2.683 7.173 35.070 -0.901 -0.207 3.172 11.731 4.388 35.870 1 AA_DC1DG2:DC123DG124_BB A 1 ? B 124 ? A 2 ? B 123 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.565 0.432 3.596 2.769 -6.277 41.927 1.294 -0.471 3.527 -8.702 -3.839 42.459 2 AA_DG2DC3:DG122DC123_BB A 2 ? B 123 ? A 3 ? B 122 ? 1 A DC 3 1_555 B DG 10 1_555 A DG 4 1_555 B DC 9 1_555 -0.289 0.629 3.008 1.341 9.339 26.569 -0.786 0.892 3.032 19.554 -2.807 28.166 3 AA_DC3DG4:DC121DG122_BB A 3 ? B 122 ? A 4 ? B 121 ? 1 A DG 4 1_555 B DC 9 1_555 A DA 5 1_555 B UAR 8 1_555 0.127 -0.394 3.305 -0.299 2.847 37.152 -0.997 -0.239 3.266 4.460 0.469 37.259 4 AA_DG4DA5:UAR120DC121_BB A 4 ? B 121 ? A 5 ? B 120 ? 1 A DA 5 1_555 B UAR 8 1_555 A DA 6 1_555 B DT 7 1_555 0.052 -0.423 3.408 1.346 1.942 35.533 -0.985 0.119 3.380 3.177 -2.202 35.609 5 AA_DA5DA6:DT119UAR120_BB A 5 ? B 120 ? A 6 ? B 119 ? 1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 -0.036 -0.563 3.191 -0.239 -0.975 31.685 -0.855 0.023 3.206 -1.785 0.437 31.701 6 AA_DA6DT7:DA118DT119_BB A 6 ? B 119 ? A 7 ? B 118 ? 1 A DT 7 1_555 B DA 6 1_555 A UAR 8 1_555 B DA 5 1_555 -0.037 -0.403 3.278 0.264 -0.529 34.917 -0.591 0.102 3.283 -0.882 -0.439 34.921 7 AA_DT7UAR8:DA117DA118_BB A 7 ? B 118 ? A 8 ? B 117 ? 1 A UAR 8 1_555 B DA 5 1_555 A DC 9 1_555 B DG 4 1_555 -0.275 -0.384 3.422 0.493 -2.851 41.335 -0.224 0.444 3.437 -4.032 -0.698 41.432 8 AA_UAR8DC9:DG116DA117_BB A 8 ? B 117 ? A 9 ? B 116 ? 1 A DC 9 1_555 B DG 4 1_555 A DG 10 1_555 B DC 3 1_555 0.572 0.725 2.898 -3.547 3.624 26.203 0.730 -2.062 2.869 7.899 7.732 26.681 9 AA_DC9DG10:DC115DG116_BB A 9 ? B 116 ? A 10 ? B 115 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -1.230 0.619 3.456 -0.829 -11.175 43.330 1.876 1.539 3.231 -14.841 1.101 44.688 10 AA_DG10DC11:DG114DC115_BB A 10 ? B 115 ? A 11 ? B 114 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 0.265 0.430 3.254 -0.585 5.220 33.376 -0.109 -0.550 3.276 9.019 1.011 33.775 11 AA_DC11DG12:DC113DG114_BB A 11 ? B 114 ? A 12 ? B 113 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MAGNESIUM ION' MG 3 water HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 355D _pdbx_initial_refinement_model.details 'NDB entry BDL084/PDB entry 355D' #