data_2FIH # _entry.id 2FIH # _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 2FIH pdb_00002fih 10.2210/pdb2fih/pdb NDB BD0091 ? ? RCSB RCSB035916 ? ? WWPDB D_1000035916 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 2FII . unspecified PDB 2FIJ . unspecified PDB 2FIL . unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2FIH _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 2FIH _cell.length_a 25.474 _cell.length_b 39.757 _cell.length_c 65.345 _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 2FIH _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*(UAR)P*TP*CP*GP*CP*G)-3'" 3665.365 2 ? 'Incorporated arabino-U at position 7' ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 3 water nat water 18.015 179 ? ? ? ? # _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)(UAR)(DT)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAAUTCGCG _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 UAR n 1 8 DT 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 2FIH _struct_ref.pdbx_db_accession 2FIH _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 2FIH A 1 ? 12 ? 2FIH 1 ? 12 ? 1 12 2 1 2FIH B 1 ? 12 ? 2FIH 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 2FIH _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.16 _exptl_crystal.density_percent_sol 43.12 _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: 0.6mM oligonucleotide, 20mM sodium cacodylate, 6.3mM Mg(OAc)2, and 3mM 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 2002-08-15 _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 0.82600 _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 0.82600 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 2FIH _reflns.observed_criterion_sigma_I 0.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50.000 _reflns.d_resolution_high 1.130 _reflns.number_obs 23845 _reflns.number_all ? _reflns.percent_possible_obs 96.3 _reflns.pdbx_Rmerge_I_obs 0.033 _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 1.13 _reflns_shell.d_res_low 1.17 _reflns_shell.percent_possible_all 59.5 _reflns_shell.Rmerge_I_obs 0.2 _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 2FIH _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all 23685 _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 50.00 _refine.ls_d_res_high 1.13 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.191 _refine.ls_R_factor_all 0.188 _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free 0.24 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.97 _refine.ls_number_reflns_R_free 1178 _refine.ls_number_parameters ? _refine.ls_number_restraints 15328 _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 ;The hkl data was processed from 50.0 A(low) to 1.09 A(high) according to the scalepack output. Authors performed the refinement from 50.0 A to 1.13 A, because the last shell (1.13-1.09A) has a low completeness and was exluded. The low resolution range 50.0A-23.7A might not contain any data. ; _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 179 _refine_hist.number_atoms_total 666 _refine_hist.d_res_high 1.13 _refine_hist.d_res_low 50.00 # _pdbx_refine.entry_id 2FIH _pdbx_refine.R_factor_all_no_cutoff 0.188 _pdbx_refine.R_factor_obs_no_cutoff 0.191 _pdbx_refine.free_R_factor_no_cutoff 0.24 _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 4.97 _pdbx_refine.free_R_val_test_set_ct_no_cutoff 1178 _pdbx_refine.R_factor_all_4sig_cutoff 0.177 _pdbx_refine.R_factor_obs_4sig_cutoff 0.174 _pdbx_refine.free_R_factor_4sig_cutoff 0.22 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 4.97 _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 991 _pdbx_refine.number_reflns_obs_4sig_cutoff 19923 _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.free_R_error_no_cutoff ? # _struct.entry_id 2FIH _struct.title 'Crystal Structure Analysis of the B-DNA Dodecamer CGCGAA-aU-TCGCG, with Incorporated Arabino-Uridine (aU)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2FIH _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 _struct_biol.details 'The biological assembly is a duplex and corresponds to the crystallographic asymmetric unit, hence no symmetry operators are needed' _struct_biol.pdbx_parent_biol_id ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A DA 6 "O3'" ? ? ? 1_555 A UAR 7 P ? ? A DA 6 A UAR 7 1_555 ? ? ? ? ? ? ? 1.567 ? ? covale2 covale both ? A UAR 7 "O3'" ? ? ? 1_555 A DT 8 P ? ? A UAR 7 A DT 8 1_555 ? ? ? ? ? ? ? 1.564 ? ? covale3 covale both ? B DA 6 "O3'" ? ? ? 1_555 B UAR 7 P ? ? B DA 118 B UAR 119 1_555 ? ? ? ? ? ? ? 1.566 ? ? covale4 covale both ? B UAR 7 "O3'" ? ? ? 1_555 B DT 8 P ? ? B UAR 119 B DT 120 1_555 ? ? ? ? ? ? ? 1.569 ? ? metalc1 metalc ? ? D HOH . O ? ? ? 3_446 C MG . MG ? ? A HOH 305 A MG 493 1_555 ? ? ? ? ? ? ? 2.067 ? ? metalc2 metalc ? ? D HOH . O ? ? ? 3_446 C MG . MG ? ? A HOH 308 A MG 493 1_555 ? ? ? ? ? ? ? 2.052 ? ? metalc3 metalc ? ? D HOH . O ? ? ? 3_446 C MG . MG ? ? A HOH 309 A MG 493 1_555 ? ? ? ? ? ? ? 2.066 ? ? metalc4 metalc ? ? D HOH . O ? ? ? 1_555 C MG . MG ? ? A HOH 340 A MG 493 1_555 ? ? ? ? ? ? ? 2.043 ? ? metalc5 metalc ? ? D HOH . O ? ? ? 3_446 C MG . MG ? ? A HOH 372 A MG 493 1_555 ? ? ? ? ? ? ? 2.105 ? ? metalc6 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 493 B HOH 341 1_555 ? ? ? ? ? ? ? 2.039 ? ? 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 DT 8 N3 ? ? A DA 5 B DT 120 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 120 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B UAR 7 N3 ? ? A DA 6 B UAR 119 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B UAR 7 O4 ? ? A DA 6 B UAR 119 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A UAR 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? A UAR 7 B DA 118 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A UAR 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? A UAR 7 B DA 118 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 117 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 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 493 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 6 _struct_site.details 'BINDING SITE FOR RESIDUE MG A 493' # 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 305 . ? 3_446 ? 2 AC1 6 HOH D . ? HOH A 308 . ? 3_446 ? 3 AC1 6 HOH D . ? HOH A 309 . ? 3_446 ? 4 AC1 6 HOH D . ? HOH A 340 . ? 1_555 ? 5 AC1 6 HOH D . ? HOH A 372 . ? 3_446 ? 6 AC1 6 HOH E . ? HOH B 341 . ? 1_555 ? # _database_PDB_matrix.entry_id 2FIH _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 2FIH _atom_sites.fract_transf_matrix[1][1] 0.039256 _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] 0.025153 _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] 0.015303 _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 UAR 7 7 7 UAR X A . n A 1 8 DT 8 8 8 DT THY 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 UAR 7 119 119 UAR X B . n B 1 8 DT 8 120 120 DT THY 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 1 493 493 MG MG A . D 3 HOH 1 301 301 HOH HOH A . D 3 HOH 2 302 302 HOH HOH A . D 3 HOH 3 303 303 HOH HOH A . D 3 HOH 4 304 304 HOH HOH A . D 3 HOH 5 305 305 HOH HOH A . D 3 HOH 6 306 306 HOH HOH A . D 3 HOH 7 307 307 HOH HOH A . D 3 HOH 8 308 308 HOH HOH A . D 3 HOH 9 309 309 HOH HOH A . D 3 HOH 10 312 312 HOH HOH A . D 3 HOH 11 315 315 HOH HOH A . D 3 HOH 12 316 316 HOH HOH A . D 3 HOH 13 317 317 HOH HOH A . D 3 HOH 14 318 318 HOH HOH A . D 3 HOH 15 319 319 HOH HOH A . D 3 HOH 16 320 320 HOH HOH A . D 3 HOH 17 321 321 HOH HOH A . D 3 HOH 18 323 323 HOH HOH A . D 3 HOH 19 324 324 HOH HOH A . D 3 HOH 20 325 325 HOH HOH A . D 3 HOH 21 326 326 HOH HOH A . D 3 HOH 22 327 327 HOH HOH A . D 3 HOH 23 328 328 HOH HOH A . D 3 HOH 24 329 329 HOH HOH A . D 3 HOH 25 330 330 HOH HOH A . D 3 HOH 26 340 340 HOH HOH A . D 3 HOH 27 342 342 HOH HOH A . D 3 HOH 28 343 343 HOH HOH A . D 3 HOH 29 346 346 HOH HOH A . D 3 HOH 30 347 347 HOH HOH A . D 3 HOH 31 348 348 HOH HOH A . D 3 HOH 32 351 351 HOH HOH A . D 3 HOH 33 352 352 HOH HOH A . D 3 HOH 34 353 353 HOH HOH A . D 3 HOH 35 355 355 HOH HOH A . D 3 HOH 36 356 356 HOH HOH A . D 3 HOH 37 361 361 HOH HOH A . D 3 HOH 38 362 362 HOH HOH A . D 3 HOH 39 363 363 HOH HOH A . D 3 HOH 40 364 364 HOH HOH A . D 3 HOH 41 366 366 HOH HOH A . D 3 HOH 42 367 367 HOH HOH A . D 3 HOH 43 368 368 HOH HOH A . D 3 HOH 44 370 370 HOH HOH A . D 3 HOH 45 371 371 HOH HOH A . D 3 HOH 46 372 372 HOH HOH A . D 3 HOH 47 374 374 HOH HOH A . D 3 HOH 48 376 376 HOH HOH A . D 3 HOH 49 377 377 HOH HOH A . D 3 HOH 50 379 379 HOH HOH A . D 3 HOH 51 380 380 HOH HOH A . D 3 HOH 52 381 381 HOH HOH A . D 3 HOH 53 382 382 HOH HOH A . D 3 HOH 54 383 383 HOH HOH A . D 3 HOH 55 384 384 HOH HOH A . D 3 HOH 56 385 385 HOH HOH A . D 3 HOH 57 395 395 HOH HOH A . D 3 HOH 58 399 399 HOH HOH A . D 3 HOH 59 401 401 HOH HOH A . D 3 HOH 60 404 404 HOH HOH A . D 3 HOH 61 405 405 HOH HOH A . D 3 HOH 62 408 408 HOH HOH A . D 3 HOH 63 409 409 HOH HOH A . D 3 HOH 64 414 414 HOH HOH A . D 3 HOH 65 421 421 HOH HOH A . D 3 HOH 66 422 422 HOH HOH A . D 3 HOH 67 423 423 HOH HOH A . D 3 HOH 68 424 424 HOH HOH A . D 3 HOH 69 425 425 HOH HOH A . D 3 HOH 70 427 427 HOH HOH A . D 3 HOH 71 430 430 HOH HOH A . D 3 HOH 72 446 446 HOH HOH A . D 3 HOH 73 447 447 HOH HOH A . D 3 HOH 74 449 449 HOH HOH A . D 3 HOH 75 450 450 HOH HOH A . D 3 HOH 76 451 451 HOH HOH A . D 3 HOH 77 453 453 HOH HOH A . D 3 HOH 78 456 456 HOH HOH A . D 3 HOH 79 458 458 HOH HOH A . D 3 HOH 80 466 466 HOH HOH A . D 3 HOH 81 467 467 HOH HOH A . D 3 HOH 82 468 468 HOH HOH A . D 3 HOH 83 469 469 HOH HOH A . D 3 HOH 84 474 474 HOH HOH A . D 3 HOH 85 477 477 HOH HOH A . D 3 HOH 86 478 478 HOH HOH A . D 3 HOH 87 482 482 HOH HOH A . D 3 HOH 88 483 483 HOH HOH A . D 3 HOH 89 487 487 HOH HOH A . D 3 HOH 90 490 490 HOH HOH A . D 3 HOH 91 494 494 HOH HOH A . D 3 HOH 92 496 496 HOH HOH A . D 3 HOH 93 499 499 HOH HOH A . D 3 HOH 94 500 500 HOH HOH A . D 3 HOH 95 502 502 HOH HOH A . E 3 HOH 1 310 310 HOH HOH B . E 3 HOH 2 311 311 HOH HOH B . E 3 HOH 3 313 313 HOH HOH B . E 3 HOH 4 314 314 HOH HOH B . E 3 HOH 5 322 322 HOH HOH B . E 3 HOH 6 331 331 HOH HOH B . E 3 HOH 7 332 332 HOH HOH B . E 3 HOH 8 333 333 HOH HOH B . E 3 HOH 9 334 334 HOH HOH B . E 3 HOH 10 335 335 HOH HOH B . E 3 HOH 11 336 336 HOH HOH B . E 3 HOH 12 337 337 HOH HOH B . E 3 HOH 13 338 338 HOH HOH B . E 3 HOH 14 339 339 HOH HOH B . E 3 HOH 15 341 341 HOH HOH B . E 3 HOH 16 344 344 HOH HOH B . E 3 HOH 17 345 345 HOH HOH B . E 3 HOH 18 349 349 HOH HOH B . E 3 HOH 19 350 350 HOH HOH B . E 3 HOH 20 354 354 HOH HOH B . E 3 HOH 21 357 357 HOH HOH B . E 3 HOH 22 358 358 HOH HOH B . E 3 HOH 23 359 359 HOH HOH B . E 3 HOH 24 360 360 HOH HOH B . E 3 HOH 25 365 365 HOH HOH B . E 3 HOH 26 369 369 HOH HOH B . E 3 HOH 27 373 373 HOH HOH B . E 3 HOH 28 378 378 HOH HOH B . E 3 HOH 29 387 387 HOH HOH B . E 3 HOH 30 388 388 HOH HOH B . E 3 HOH 31 389 389 HOH HOH B . E 3 HOH 32 390 390 HOH HOH B . E 3 HOH 33 391 391 HOH HOH B . E 3 HOH 34 392 392 HOH HOH B . E 3 HOH 35 393 393 HOH HOH B . E 3 HOH 36 394 394 HOH HOH B . E 3 HOH 37 396 396 HOH HOH B . E 3 HOH 38 397 397 HOH HOH B . E 3 HOH 39 398 398 HOH HOH B . E 3 HOH 40 400 400 HOH HOH B . E 3 HOH 41 402 402 HOH HOH B . E 3 HOH 42 403 403 HOH HOH B . E 3 HOH 43 406 406 HOH HOH B . E 3 HOH 44 407 407 HOH HOH B . E 3 HOH 45 410 410 HOH HOH B . E 3 HOH 46 412 412 HOH HOH B . E 3 HOH 47 415 415 HOH HOH B . E 3 HOH 48 416 416 HOH HOH B . E 3 HOH 49 417 417 HOH HOH B . E 3 HOH 50 418 418 HOH HOH B . E 3 HOH 51 420 420 HOH HOH B . E 3 HOH 52 428 428 HOH HOH B . E 3 HOH 53 429 429 HOH HOH B . E 3 HOH 54 434 434 HOH HOH B . E 3 HOH 55 436 436 HOH HOH B . E 3 HOH 56 438 438 HOH HOH B . E 3 HOH 57 439 439 HOH HOH B . E 3 HOH 58 440 440 HOH HOH B . E 3 HOH 59 442 442 HOH HOH B . E 3 HOH 60 443 443 HOH HOH B . E 3 HOH 61 444 444 HOH HOH B . E 3 HOH 62 445 445 HOH HOH B . E 3 HOH 63 448 448 HOH HOH B . E 3 HOH 64 452 452 HOH HOH B . E 3 HOH 65 454 454 HOH HOH B . E 3 HOH 66 455 455 HOH HOH B . E 3 HOH 67 457 457 HOH HOH B . E 3 HOH 68 459 459 HOH HOH B . E 3 HOH 69 460 460 HOH HOH B . E 3 HOH 70 461 461 HOH HOH B . E 3 HOH 71 462 462 HOH HOH B . E 3 HOH 72 463 463 HOH HOH B . E 3 HOH 73 465 465 HOH HOH B . E 3 HOH 74 473 473 HOH HOH B . E 3 HOH 75 476 476 HOH HOH B . E 3 HOH 76 479 479 HOH HOH B . E 3 HOH 77 480 480 HOH HOH B . E 3 HOH 78 485 485 HOH HOH B . E 3 HOH 79 488 488 HOH HOH B . E 3 HOH 80 492 492 HOH HOH B . E 3 HOH 81 495 495 HOH HOH B . E 3 HOH 82 497 497 HOH HOH B . E 3 HOH 83 498 498 HOH HOH B . E 3 HOH 84 501 501 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 7 A UAR 7 ? U ;URACIL ARABINOSE-5'-PHOSPHATE ; 2 B UAR 7 B UAR 119 ? 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 305 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? D HOH . ? A HOH 308 ? 3_446 87.5 ? 2 O ? D HOH . ? A HOH 305 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? D HOH . ? A HOH 309 ? 3_446 92.0 ? 3 O ? D HOH . ? A HOH 308 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? D HOH . ? A HOH 309 ? 3_446 91.3 ? 4 O ? D HOH . ? A HOH 305 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? D HOH . ? A HOH 340 ? 1_555 92.3 ? 5 O ? D HOH . ? A HOH 308 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? D HOH . ? A HOH 340 ? 1_555 87.1 ? 6 O ? D HOH . ? A HOH 309 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? D HOH . ? A HOH 340 ? 1_555 175.3 ? 7 O ? D HOH . ? A HOH 305 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? D HOH . ? A HOH 372 ? 3_446 87.9 ? 8 O ? D HOH . ? A HOH 308 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? D HOH . ? A HOH 372 ? 3_446 175.3 ? 9 O ? D HOH . ? A HOH 309 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? D HOH . ? A HOH 372 ? 3_446 89.6 ? 10 O ? D HOH . ? A HOH 340 ? 1_555 MG ? C MG . ? A MG 493 ? 1_555 O ? D HOH . ? A HOH 372 ? 3_446 92.4 ? 11 O ? D HOH . ? A HOH 305 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? E HOH . ? B HOH 341 ? 1_555 176.8 ? 12 O ? D HOH . ? A HOH 308 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? E HOH . ? B HOH 341 ? 1_555 90.1 ? 13 O ? D HOH . ? A HOH 309 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? E HOH . ? B HOH 341 ? 1_555 90.0 ? 14 O ? D HOH . ? A HOH 340 ? 1_555 MG ? C MG . ? A MG 493 ? 1_555 O ? E HOH . ? B HOH 341 ? 1_555 85.6 ? 15 O ? D HOH . ? A HOH 372 ? 3_446 MG ? C MG . ? A MG 493 ? 1_555 O ? E HOH . ? B HOH 341 ? 1_555 94.5 ? # 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 EPMR phasing . ? 3 SHELXL-97 refinement . ? 4 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "C2'" A DC 1 ? ? "C1'" A DC 1 ? ? 1.457 1.518 -0.061 0.010 N 2 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? 1.505 1.420 0.085 0.011 N 3 1 "C2'" A DG 2 ? ? "C1'" A DG 2 ? ? 1.456 1.518 -0.062 0.010 N 4 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? 1.488 1.420 0.068 0.011 N 5 1 "O3'" A DG 2 ? ? P A DC 3 ? ? 1.529 1.607 -0.078 0.012 Y 6 1 "C2'" A DC 3 ? ? "C1'" A DC 3 ? ? 1.446 1.518 -0.072 0.010 N 7 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? 1.538 1.420 0.118 0.011 N 8 1 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? 1.506 1.420 0.086 0.011 N 9 1 "C2'" A DA 6 ? ? "C1'" A DA 6 ? ? 1.455 1.518 -0.063 0.010 N 10 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? 1.503 1.420 0.083 0.011 N 11 1 "C2'" A DT 8 ? ? "C1'" A DT 8 ? ? 1.454 1.518 -0.064 0.010 N 12 1 "O4'" A DT 8 ? ? "C1'" A DT 8 ? ? 1.540 1.420 0.120 0.011 N 13 1 "C2'" A DC 9 ? ? "C1'" A DC 9 ? ? 1.412 1.518 -0.106 0.010 N 14 1 "O4'" A DC 9 ? ? "C1'" A DC 9 ? ? 1.569 1.420 0.149 0.011 N 15 1 "C2'" A DC 11 ? ? "C1'" A DC 11 ? ? 1.437 1.518 -0.081 0.010 N 16 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? 1.564 1.420 0.144 0.011 N 17 1 "C2'" A DG 12 ? ? "C1'" A DG 12 ? ? 1.437 1.518 -0.081 0.010 N 18 1 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? 1.526 1.420 0.106 0.011 N 19 1 "O4'" B DC 113 ? ? "C1'" B DC 113 ? ? 1.519 1.420 0.099 0.011 N 20 1 "C2'" B DG 114 ? ? "C1'" B DG 114 ? ? 1.449 1.518 -0.069 0.010 N 21 1 "O4'" B DG 114 ? ? "C1'" B DG 114 ? ? 1.493 1.420 0.073 0.011 N 22 1 "C2'" B DC 115 ? ? "C1'" B DC 115 ? ? 1.417 1.518 -0.101 0.010 N 23 1 "O4'" B DC 115 ? ? "C1'" B DC 115 ? ? 1.547 1.420 0.127 0.011 N 24 1 "C2'" B DA 117 ? ? "C1'" B DA 117 ? ? 1.457 1.518 -0.061 0.010 N 25 1 "O4'" B DA 117 ? ? "C1'" B DA 117 ? ? 1.539 1.420 0.119 0.011 N 26 1 "C2'" B DA 118 ? ? "C1'" B DA 118 ? ? 1.429 1.518 -0.089 0.010 N 27 1 "O4'" B DA 118 ? ? "C1'" B DA 118 ? ? 1.554 1.420 0.134 0.011 N 28 1 "C2'" B DT 120 ? ? "C1'" B DT 120 ? ? 1.428 1.518 -0.090 0.010 N 29 1 "O4'" B DT 120 ? ? "C1'" B DT 120 ? ? 1.537 1.420 0.117 0.011 N 30 1 "C2'" B DC 121 ? ? "C1'" B DC 121 ? ? 1.449 1.518 -0.069 0.010 N 31 1 "O4'" B DC 121 ? ? "C1'" B DC 121 ? ? 1.543 1.420 0.123 0.011 N 32 1 "O4'" B DG 122 ? ? "C1'" B DG 122 ? ? 1.518 1.420 0.098 0.011 N 33 1 "C2'" B DC 123 ? ? "C1'" B DC 123 ? ? 1.412 1.518 -0.106 0.010 N 34 1 "O4'" B DC 123 ? ? "C1'" B DC 123 ? ? 1.570 1.420 0.150 0.011 N 35 1 "C2'" B DG 124 ? ? "C1'" B DG 124 ? ? 1.415 1.518 -0.103 0.010 N 36 1 "O4'" B DG 124 ? ? "C1'" B DG 124 ? ? 1.559 1.420 0.139 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 ? ? 102.11 108.00 -5.89 0.70 N 2 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 103.36 108.00 -4.64 0.70 N 3 1 "C3'" A DG 2 ? ? "O3'" A DG 2 ? ? P A DC 3 ? ? 127.22 119.70 7.52 1.20 Y 4 1 "C1'" A DC 3 ? ? "O4'" A DC 3 ? ? "C4'" A DC 3 ? ? 103.71 110.10 -6.39 1.00 N 5 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 100.01 108.00 -7.99 0.70 N 6 1 "C3'" A DG 4 ? ? "O3'" A DG 4 ? ? P A DA 5 ? ? 128.48 119.70 8.78 1.20 Y 7 1 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 102.68 108.00 -5.32 0.70 N 8 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? N9 A DA 6 ? ? 103.77 108.00 -4.23 0.70 N 9 1 "C1'" A DT 8 ? ? "O4'" A DT 8 ? ? "C4'" A DT 8 ? ? 103.60 110.10 -6.50 1.00 N 10 1 N1 A DT 8 ? ? "C1'" A DT 8 ? ? "C2'" A DT 8 ? ? 122.88 114.30 8.58 1.40 N 11 1 "O4'" A DT 8 ? ? "C1'" A DT 8 ? ? N1 A DT 8 ? ? 102.17 108.00 -5.83 0.70 N 12 1 "C3'" A DT 8 ? ? "O3'" A DT 8 ? ? P A DC 9 ? ? 128.25 119.70 8.55 1.20 Y 13 1 N1 A DC 9 ? ? "C1'" A DC 9 ? ? "C2'" A DC 9 ? ? 125.61 114.30 11.31 1.40 N 14 1 "O4'" A DC 9 ? ? "C1'" A DC 9 ? ? N1 A DC 9 ? ? 96.26 108.00 -11.74 0.70 N 15 1 "C1'" A DG 10 ? ? "O4'" A DG 10 ? ? "C4'" A DG 10 ? ? 103.76 110.10 -6.34 1.00 N 16 1 "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? "C1'" A DG 10 ? ? 97.25 102.40 -5.15 0.80 N 17 1 "C3'" A DG 10 ? ? "O3'" A DG 10 ? ? P A DC 11 ? ? 127.80 119.70 8.10 1.20 Y 18 1 N1 A DC 11 ? ? "C1'" A DC 11 ? ? "C2'" A DC 11 ? ? 126.45 114.30 12.15 1.40 N 19 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 96.53 108.00 -11.47 0.70 N 20 1 C6 A DC 11 ? ? N1 A DC 11 ? ? C2 A DC 11 ? ? 117.84 120.30 -2.46 0.40 N 21 1 C5 A DC 11 ? ? C6 A DC 11 ? ? N1 A DC 11 ? ? 124.42 121.00 3.42 0.50 N 22 1 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 100.55 108.00 -7.45 0.70 N 23 1 N1 B DC 113 ? ? "C1'" B DC 113 ? ? "C2'" B DC 113 ? ? 122.78 114.30 8.48 1.40 N 24 1 "O4'" B DC 113 ? ? "C1'" B DC 113 ? ? N1 B DC 113 ? ? 98.68 108.00 -9.32 0.70 N 25 1 N3 B DC 113 ? ? C4 B DC 113 ? ? C5 B DC 113 ? ? 125.26 121.90 3.36 0.40 N 26 1 C4 B DC 113 ? ? C5 B DC 113 ? ? C6 B DC 113 ? ? 113.92 117.40 -3.48 0.50 N 27 1 "C1'" B DC 115 ? ? "O4'" B DC 115 ? ? "C4'" B DC 115 ? ? 103.83 110.10 -6.27 1.00 N 28 1 "O4'" B DC 115 ? ? "C1'" B DC 115 ? ? N1 B DC 115 ? ? 98.43 108.00 -9.57 0.70 N 29 1 "O4'" B DG 116 ? ? "C1'" B DG 116 ? ? N9 B DG 116 ? ? 112.75 108.30 4.45 0.30 N 30 1 "C3'" B DG 116 ? ? "O3'" B DG 116 ? ? P B DA 117 ? ? 130.79 119.70 11.09 1.20 Y 31 1 "O4'" B DA 117 ? ? "C1'" B DA 117 ? ? N9 B DA 117 ? ? 101.51 108.00 -6.49 0.70 N 32 1 "C3'" B DA 117 ? ? "O3'" B DA 117 ? ? P B DA 118 ? ? 127.81 119.70 8.11 1.20 Y 33 1 "O4'" B DA 118 ? ? "C1'" B DA 118 ? ? N9 B DA 118 ? ? 100.34 108.00 -7.66 0.70 N 34 1 "O4'" B DT 120 ? ? "C1'" B DT 120 ? ? N1 B DT 120 ? ? 102.23 108.00 -5.77 0.70 N 35 1 "O5'" B DC 121 ? ? "C5'" B DC 121 ? ? "C4'" B DC 121 ? ? 103.56 109.40 -5.84 0.80 N 36 1 N1 B DC 121 ? ? "C1'" B DC 121 ? ? "C2'" B DC 121 ? ? 124.00 114.30 9.70 1.40 N 37 1 "O4'" B DC 121 ? ? "C1'" B DC 121 ? ? N1 B DC 121 ? ? 99.31 108.00 -8.69 0.70 N 38 1 C2 B DC 121 ? ? N3 B DC 121 ? ? C4 B DC 121 ? ? 123.17 119.90 3.27 0.50 N 39 1 N3 B DC 121 ? ? C4 B DC 121 ? ? C5 B DC 121 ? ? 118.87 121.90 -3.03 0.40 N 40 1 "C3'" B DG 122 ? ? "O3'" B DG 122 ? ? P B DC 123 ? ? 129.05 119.70 9.35 1.20 Y 41 1 N1 B DC 123 ? ? "C1'" B DC 123 ? ? "C2'" B DC 123 ? ? 123.66 114.30 9.36 1.40 N 42 1 "O4'" B DC 123 ? ? "C1'" B DC 123 ? ? N1 B DC 123 ? ? 98.75 108.00 -9.25 0.70 N 43 1 "O4'" B DG 124 ? ? "C1'" B DG 124 ? ? N9 B DG 124 ? ? 100.02 108.00 -7.98 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 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2FIH 'double helix' 2FIH '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 0.268 -0.151 0.073 6.754 -13.980 -1.147 1 A_DC1:DG124_B A 1 ? B 124 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.223 -0.199 0.561 11.078 -11.508 -3.168 2 A_DG2:DC123_B A 2 ? B 123 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.153 -0.157 0.137 -1.291 -5.542 -0.435 3 A_DC3:DG122_B A 3 ? B 122 ? 19 1 1 A DG 4 1_555 B DC 9 1_555 -0.223 -0.112 -0.011 11.090 -10.398 0.579 4 A_DG4:DC121_B A 4 ? B 121 ? 19 1 1 A DA 5 1_555 B DT 8 1_555 0.073 -0.064 -0.062 3.512 -15.607 2.997 5 A_DA5:DT120_B A 5 ? B 120 ? 20 1 1 A DA 6 1_555 B UAR 7 1_555 0.031 -0.093 0.201 5.761 -16.742 3.781 6 A_DA6:UAR119_B A 6 ? B 119 ? 20 1 1 A UAR 7 1_555 B DA 6 1_555 -0.019 -0.111 0.214 -4.526 -17.033 4.082 7 A_UAR7:DA118_B A 7 ? B 118 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 -0.067 -0.171 -0.111 -1.215 -15.052 3.542 8 A_DT8:DA117_B A 8 ? B 117 ? 20 1 1 A DC 9 1_555 B DG 4 1_555 0.218 -0.122 0.085 -14.351 -6.566 -1.461 9 A_DC9:DG116_B A 9 ? B 116 ? 19 1 1 A DG 10 1_555 B DC 3 1_555 -0.130 -0.095 0.285 4.726 -6.892 2.236 10 A_DG10:DC115_B A 10 ? B 115 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.120 -0.190 0.245 0.347 -17.278 -1.980 11 A_DC11:DG114_B A 11 ? B 114 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.227 -0.102 0.232 2.654 -6.037 -2.145 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 0.038 -0.074 3.162 -3.322 6.011 34.217 -1.003 -0.550 3.088 10.090 5.576 34.879 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 0.527 0.499 3.626 4.149 -7.345 42.329 1.477 -0.266 3.529 -10.053 -5.679 43.124 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 -0.260 0.641 3.083 1.893 10.081 26.035 -1.014 0.979 3.085 21.352 -4.008 27.950 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 DT 8 1_555 0.048 -0.163 3.381 0.102 2.879 39.379 -0.591 -0.059 3.362 4.265 -0.151 39.480 4 AA_DG4DA5:DT120DC121_BB A 4 ? B 121 ? A 5 ? B 120 ? 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B UAR 7 1_555 0.089 -0.486 3.136 -2.415 -0.550 34.876 -0.729 -0.497 3.130 -0.916 4.023 34.961 5 AA_DA5DA6:UAR119DT120_BB A 5 ? B 120 ? A 6 ? B 119 ? 1 A DA 6 1_555 B UAR 7 1_555 A UAR 7 1_555 B DA 6 1_555 -0.048 -0.793 3.384 -0.128 0.213 30.175 -1.567 0.065 3.379 0.409 0.247 30.176 6 AA_DA6UAR7:DA118UAR119_BB A 6 ? B 119 ? A 7 ? B 118 ? 1 A UAR 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 -0.035 -0.383 3.089 3.752 -1.946 34.679 -0.359 0.596 3.085 -3.250 -6.265 34.928 7 AA_UAR7DT8:DA117DA118_BB A 7 ? B 118 ? A 8 ? B 117 ? 1 A DT 8 1_555 B DA 5 1_555 A DC 9 1_555 B DG 4 1_555 -0.190 -0.246 3.504 -0.823 -0.905 43.250 -0.240 0.171 3.511 -1.227 1.116 43.267 8 AA_DT8DC9: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 0.559 0.728 2.958 -3.289 4.097 25.620 0.594 -2.050 2.943 9.117 7.320 26.144 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 -1.255 0.563 3.425 -2.865 -10.901 42.913 1.803 1.387 3.268 -14.600 3.837 44.301 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 -0.187 0.290 3.199 -0.205 6.020 32.765 -0.484 0.293 3.201 10.561 0.360 33.299 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' #