data_3SSF # _entry.id 3SSF # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.379 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 3SSF pdb_00003ssf 10.2210/pdb3ssf/pdb NDB NA1220 ? ? RCSB RCSB066594 ? ? WWPDB D_1000066594 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1PJO 'Crystal Structure of an RNA/DNA hybrid of HIV-1 PPT' unspecified PDB 1PJG 'RNA/DNA Hybrid Decamer of CAAAGAAAAG/CTTTTCTTTG' unspecified PDB 1JB8 'The Crystal Structure of an RNA/DNA Hybrid Reveals Novel Intermolecular Intercalation' unspecified PDB 1G4Q 'RNA/DNA HYBRID DECAMER OF CAAAGAAAAG/CTTTTCTTTG' unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3SSF _pdbx_database_status.recvd_initial_deposition_date 2011-07-08 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Drozdzal, P.' 1 'Michalska, K.' 2 'Kierzek, R.' 3 'Lomozik, L.' 4 'Jaskolski, M.' 5 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary 'Structure of an RNA/DNA dodecamer corresponding to the HIV-1 polypurine tract at 1.6 Angstrom resolution' 'Acta Crystallogr.,Sect.D' 68 169 175 2012 ABCRE6 DK 0907-4449 0766 ? 22281746 10.1107/S0907444911053327 1 'An unusual sugar conformation in the structure of an RNA/DNA decamer of the polypurine tract may affect recognition by RNase H.' J.Mol.Biol. 334 653 665 2003 JMOBAK UK 0022-2836 0070 ? ? ? 2 'Crystal structure of an RNA.DNA hybrid reveals intermolecular intercalation: dimer formation by base-pair swapping.' Proc.Natl.Acad.Sci.USA 100 9214 9219 2003 PNASA6 US 0027-8424 0040 ? ? ? 3 'Crystal structure of HIV-1 reverse transcriptase in complex with a polypurine tract RNA:DNA' 'Embo J.' 20 1449 1461 2001 EMJODG UK 0261-4189 0897 ? ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Drozdzal, P.' 1 ? primary 'Michalska, K.' 2 ? primary 'Kierzek, R.' 3 ? primary 'Lomozik, L.' 4 ? primary 'Jaskolski, M.' 5 ? 1 'Kopka, M.L.' 6 ? 1 'Lavelle, L.' 7 ? 1 'Han, G.W.' 8 ? 1 'Ng, H.-L.' 9 ? 1 'Dickerson, R.E.' 10 ? 2 'Han, G.W.' 11 ? 2 'Kopka, M.L.' 12 ? 2 'Langs, D.' 13 ? 2 'Sawaya, M.R.' 14 ? 2 'Dickerson, R.E.' 15 ? 3 'G Sarafianos, S.' 16 ? 3 'Das, K.' 17 ? 3 'Tantillo, C.' 18 ? 3 'Clark Jr., A.D.' 19 ? 3 'Ding, J.' 20 ? 3 'Whitcomb, J.M.' 21 ? 3 'Boyer, P.L.' 22 ? 3 'Hughes, S.H.' 23 ? 3 'Arnold, E.' 24 ? # _cell.entry_id 3SSF _cell.length_a 41.904 _cell.length_b 41.904 _cell.length_c 57.240 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 6 _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 3SSF _symmetry.space_group_name_H-M 'P 32 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _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'-R(*UP*AP*AP*AP*AP*GP*AP*AP*AP*AP*GP*G)-3'" 3930.472 1 ? ? ? ? 2 polymer syn "5'-D(*CP*CP*TP*TP*TP*TP*CP*TP*TP*TP*TP*A)-3'" 3569.337 1 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 3 ? ? ? ? 4 water nat water 18.015 76 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no no UAAAAGAAAAGG UAAAAGAAAAGG A ? 2 polydeoxyribonucleotide no no '(DC)(DC)(DT)(DT)(DT)(DT)(DC)(DT)(DT)(DT)(DT)(DA)' CCTTTTCTTTTA B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 U n 1 2 A n 1 3 A n 1 4 A n 1 5 A n 1 6 G n 1 7 A n 1 8 A n 1 9 A n 1 10 A n 1 11 G n 1 12 G n 2 1 DC n 2 2 DC n 2 3 DT n 2 4 DT n 2 5 DT n 2 6 DT n 2 7 DC n 2 8 DT n 2 9 DT n 2 10 DT n 2 11 DT n 2 12 DA n # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 PDB 3SSF 3SSF 1 ? UAAAAGAAAAGG ? 2 PDB 3SSF 3SSF 2 ? CCTTTTCTTTTA ? # 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 3SSF A 1 ? 12 ? 3SSF 1 ? 12 ? 1 12 2 2 3SSF B 1 ? 12 ? 3SSF 13 ? 24 ? 13 24 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 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 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # _exptl.entry_id 3SSF _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.94 _exptl_crystal.density_percent_sol 36.70 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp 292 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 5.5 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details ;40% MPD, 0.04M hexamminecobalt(III) chloride, 0.02M magnesium chloride, 0.04M lithium chloride, 0.04M sodium cacodylate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K ; # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'MAR CCD 165 mm' _diffrn_detector.pdbx_collection_date 2009-12-04 _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 'SI 111 CHANNEL' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.8010 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'EMBL/DESY, HAMBURG BEAMLINE X13' _diffrn_source.pdbx_synchrotron_site 'EMBL/DESY, HAMBURG' _diffrn_source.pdbx_synchrotron_beamline X13 _diffrn_source.pdbx_wavelength 0.8010 _diffrn_source.pdbx_wavelength_list ? # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 3SSF _reflns.observed_criterion_sigma_I -3.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50.000 _reflns.d_resolution_high 1.600 _reflns.number_obs 8012 _reflns.number_all ? _reflns.percent_possible_obs 99.5 _reflns.pdbx_Rmerge_I_obs 0.04000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 41.7000 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 6.700 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 1.60 _reflns_shell.d_res_low 1.66 _reflns_shell.percent_possible_all 99.6 _reflns_shell.Rmerge_I_obs 0.55000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.851 _reflns_shell.pdbx_redundancy 5.50 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 3SSF _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 7204 _refine.ls_number_reflns_all 7994 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 15.32 _refine.ls_d_res_high 1.60 _refine.ls_percent_reflns_obs 99.5 _refine.ls_R_factor_obs 0.186 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.181 _refine.ls_R_factor_R_free 0.229 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 9.900 _refine.ls_number_reflns_R_free 790 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.972 _refine.correlation_coeff_Fo_to_Fc_free 0.958 _refine.B_iso_mean 23.02 _refine.aniso_B[1][1] 0.25000 _refine.aniso_B[2][2] 0.25000 _refine.aniso_B[3][3] -0.38000 _refine.aniso_B[1][2] 0.13000 _refine.aniso_B[1][3] 0.00000 _refine.aniso_B[2][3] 0.00000 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGEN ATOMS WERE ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model 1PJO _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.108 _refine.pdbx_overall_ESU_R_Free 0.111 _refine.overall_SU_ML 0.075 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 4.319 _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 497 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.number_atoms_solvent 76 _refine_hist.number_atoms_total 576 _refine_hist.d_res_high 1.60 _refine_hist.d_res_low 15.32 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.020 0.021 ? 600 'X-RAY DIFFRACTION' ? r_bond_other_d 0.011 0.020 ? 222 'X-RAY DIFFRACTION' ? r_angle_refined_deg 2.258 3.000 ? 935 'X-RAY DIFFRACTION' ? r_angle_other_deg 1.758 3.000 ? 577 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_chiral_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.033 0.020 ? 262 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.009 0.020 ? 51 'X-RAY DIFFRACTION' ? r_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.60 _refine_ls_shell.d_res_low 1.64 _refine_ls_shell.number_reflns_R_work 494 _refine_ls_shell.R_factor_R_work 0.2340 _refine_ls_shell.percent_reflns_obs 94.80 _refine_ls_shell.R_factor_R_free 0.3200 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 53 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_obs ? # _struct.entry_id 3SSF _struct.title 'Crystal structure of RNA:DNA dodecamer corresponding to HIV-1 polypurine tract, at 1.6 A resolution.' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3SSF _struct_keywords.pdbx_keywords RNA/DNA _struct_keywords.text 'Polypurine tract (PPT) of HIV-1; RNA-DNA hybrid; reverse transcription, RNA-DNA complex' # 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 2 ? C N N 3 ? D N N 3 ? E N N 3 ? F N N 4 ? G N N 4 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 13 A HOH 63 1_555 ? ? ? ? ? ? ? 1.980 ? ? metalc2 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 13 A HOH 64 1_555 ? ? ? ? ? ? ? 1.937 ? ? metalc3 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 14 A HOH 44 1_555 ? ? ? ? ? ? ? 1.857 ? ? metalc4 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 14 A HOH 45 1_555 ? ? ? ? ? ? ? 2.034 ? ? metalc5 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 14 A HOH 46 1_555 ? ? ? ? ? ? ? 1.731 ? ? metalc6 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 14 A HOH 57 1_555 ? ? ? ? ? ? ? 1.850 ? ? metalc7 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 1 B HOH 42 1_555 ? ? ? ? ? ? ? 2.003 ? ? metalc8 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 1 B HOH 43 1_555 ? ? ? ? ? ? ? 2.046 ? ? metalc9 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 1 B HOH 56 1_555 ? ? ? ? ? ? ? 1.833 ? ? metalc10 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 1 B HOH 59 1_555 ? ? ? ? ? ? ? 1.989 ? ? metalc11 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 1 B HOH 69 1_555 ? ? ? ? ? ? ? 1.987 ? ? hydrog1 hydrog ? ? A U 1 O4 ? ? ? 1_555 B DA 12 N6 ? ? A U 1 B DA 24 1_555 ? ? ? ? ? ? 'U-DA PAIR' ? ? ? hydrog2 hydrog ? ? A A 2 N1 ? ? ? 1_555 B DT 11 N3 ? ? A A 2 B DT 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A A 2 N6 ? ? ? 1_555 B DT 11 O4 ? ? A A 2 B DT 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A A 3 N1 ? ? ? 1_555 B DT 10 N3 ? ? A A 3 B DT 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A A 3 N6 ? ? ? 1_555 B DT 10 O4 ? ? A A 3 B DT 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A A 4 N1 ? ? ? 1_555 B DT 9 N3 ? ? A A 4 B DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 4 N6 ? ? ? 1_555 B DT 9 O4 ? ? A A 4 B DT 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A A 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A A 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A A 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 6 N1 ? ? ? 1_555 B DC 7 N3 ? ? A G 6 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 6 N2 ? ? ? 1_555 B DC 7 O2 ? ? A G 6 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 6 O6 ? ? ? 1_555 B DC 7 N4 ? ? A G 6 B DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 7 N1 A ? ? 1_555 B DT 6 N3 ? ? A A 7 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A 7 N6 A ? ? 1_555 B DT 6 O4 ? ? A A 7 B DT 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A A 8 N1 ? ? ? 1_555 B DT 5 N3 ? ? A A 8 B DT 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A A 8 N6 ? ? ? 1_555 B DT 5 O4 ? ? A A 8 B DT 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A A 9 N1 ? ? ? 1_555 B DT 4 N3 ? ? A A 9 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A A 9 N6 ? ? ? 1_555 B DT 4 O4 ? ? A A 9 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A A 10 N1 ? ? ? 1_555 B DT 3 N3 ? ? A A 10 B DT 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 10 N6 ? ? ? 1_555 B DT 3 O4 ? ? A A 10 B DT 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 11 N1 ? ? ? 1_555 B DC 2 N3 ? ? A G 11 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A G 11 N2 ? ? ? 1_555 B DC 2 O2 ? ? A G 11 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 11 O6 ? ? ? 1_555 B DC 2 N4 ? ? A G 11 B DC 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A G 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A G 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A G 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A MG 13 ? 2 'BINDING SITE FOR RESIDUE MG A 13' AC2 Software B MG 1 ? 5 'BINDING SITE FOR RESIDUE MG B 1' AC3 Software A MG 14 ? 4 'BINDING SITE FOR RESIDUE MG A 14' # 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 2 HOH F . ? HOH A 63 . ? 1_555 ? 2 AC1 2 HOH F . ? HOH A 64 . ? 1_555 ? 3 AC2 5 HOH G . ? HOH B 42 . ? 1_555 ? 4 AC2 5 HOH G . ? HOH B 43 . ? 1_555 ? 5 AC2 5 HOH G . ? HOH B 56 . ? 1_555 ? 6 AC2 5 HOH G . ? HOH B 59 . ? 1_555 ? 7 AC2 5 HOH G . ? HOH B 69 . ? 1_555 ? 8 AC3 4 HOH F . ? HOH A 44 . ? 1_555 ? 9 AC3 4 HOH F . ? HOH A 45 . ? 1_555 ? 10 AC3 4 HOH F . ? HOH A 46 . ? 1_555 ? 11 AC3 4 HOH F . ? HOH A 57 . ? 1_555 ? # _database_PDB_matrix.entry_id 3SSF _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 3SSF _atom_sites.fract_transf_matrix[1][1] 0.023864 _atom_sites.fract_transf_matrix[1][2] 0.013778 _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] 0.027556 _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] 0.017470 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C MG N O P # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 U 1 1 1 U U A . n A 1 2 A 2 2 2 A A A . n A 1 3 A 3 3 3 A A A . n A 1 4 A 4 4 4 A A A . n A 1 5 A 5 5 5 A A A . n A 1 6 G 6 6 6 G G A . n A 1 7 A 7 7 7 A A A . n A 1 8 A 8 8 8 A A A . n A 1 9 A 9 9 9 A A A . n A 1 10 A 10 10 10 A A A . n A 1 11 G 11 11 11 G G A . n A 1 12 G 12 12 12 G G A . n B 2 1 DC 1 13 13 DC DC B . n B 2 2 DC 2 14 14 DC DC B . n B 2 3 DT 3 15 15 DT DT B . n B 2 4 DT 4 16 16 DT DT B . n B 2 5 DT 5 17 17 DT DT B . n B 2 6 DT 6 18 18 DT DT B . n B 2 7 DC 7 19 19 DC DC B . n B 2 8 DT 8 20 20 DT DT B . n B 2 9 DT 9 21 21 DT DT B . n B 2 10 DT 10 22 22 DT DT B . n B 2 11 DT 11 23 23 DT DT B . n B 2 12 DA 12 24 24 DA DA 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 3 MG 1 13 1 MG MG A . D 3 MG 1 14 1 MG MG A . E 3 MG 1 1 1 MG MG B . F 4 HOH 1 15 15 HOH HOH A . F 4 HOH 2 16 16 HOH HOH A . F 4 HOH 3 17 17 HOH HOH A . F 4 HOH 4 18 1 HOH HOH A . F 4 HOH 5 19 19 HOH HOH A . F 4 HOH 6 20 20 HOH HOH A . F 4 HOH 7 21 3 HOH HOH A . F 4 HOH 8 22 6 HOH HOH A . F 4 HOH 9 23 7 HOH HOH A . F 4 HOH 10 24 8 HOH HOH A . F 4 HOH 11 25 9 HOH HOH A . F 4 HOH 12 26 12 HOH HOH A . F 4 HOH 13 27 27 HOH HOH A . F 4 HOH 14 28 28 HOH HOH A . F 4 HOH 15 29 29 HOH HOH A . F 4 HOH 16 30 30 HOH HOH A . F 4 HOH 17 31 31 HOH HOH A . F 4 HOH 18 32 13 HOH HOH A . F 4 HOH 19 33 14 HOH HOH A . F 4 HOH 20 36 36 HOH HOH A . F 4 HOH 21 37 37 HOH HOH A . F 4 HOH 22 44 44 HOH HOH A . F 4 HOH 23 45 45 HOH HOH A . F 4 HOH 24 46 46 HOH HOH A . F 4 HOH 25 48 48 HOH HOH A . F 4 HOH 26 50 50 HOH HOH A . F 4 HOH 27 55 55 HOH HOH A . F 4 HOH 28 57 57 HOH HOH A . F 4 HOH 29 60 60 HOH HOH A . F 4 HOH 30 61 61 HOH HOH A . F 4 HOH 31 63 63 HOH HOH A . F 4 HOH 32 64 64 HOH HOH A . F 4 HOH 33 65 65 HOH HOH A . F 4 HOH 34 66 66 HOH HOH A . F 4 HOH 35 68 68 HOH HOH A . F 4 HOH 36 70 70 HOH HOH A . F 4 HOH 37 71 71 HOH HOH A . F 4 HOH 38 75 75 HOH HOH A . F 4 HOH 39 76 76 HOH HOH A . G 4 HOH 1 2 2 HOH HOH B . G 4 HOH 2 4 4 HOH HOH B . G 4 HOH 3 5 5 HOH HOH B . G 4 HOH 4 10 10 HOH HOH B . G 4 HOH 5 11 11 HOH HOH B . G 4 HOH 6 25 25 HOH HOH B . G 4 HOH 7 26 26 HOH HOH B . G 4 HOH 8 27 18 HOH HOH B . G 4 HOH 9 28 21 HOH HOH B . G 4 HOH 10 29 22 HOH HOH B . G 4 HOH 11 30 23 HOH HOH B . G 4 HOH 12 31 24 HOH HOH B . G 4 HOH 13 32 32 HOH HOH B . G 4 HOH 14 33 33 HOH HOH B . G 4 HOH 15 34 34 HOH HOH B . G 4 HOH 16 35 35 HOH HOH B . G 4 HOH 17 38 38 HOH HOH B . G 4 HOH 18 39 39 HOH HOH B . G 4 HOH 19 40 40 HOH HOH B . G 4 HOH 20 41 41 HOH HOH B . G 4 HOH 21 42 42 HOH HOH B . G 4 HOH 22 43 43 HOH HOH B . G 4 HOH 23 47 47 HOH HOH B . G 4 HOH 24 49 49 HOH HOH B . G 4 HOH 25 51 51 HOH HOH B . G 4 HOH 26 52 52 HOH HOH B . G 4 HOH 27 53 53 HOH HOH B . G 4 HOH 28 54 54 HOH HOH B . G 4 HOH 29 56 56 HOH HOH B . G 4 HOH 30 58 58 HOH HOH B . G 4 HOH 31 59 59 HOH HOH B . G 4 HOH 32 62 62 HOH HOH B . G 4 HOH 33 67 67 HOH HOH B . G 4 HOH 34 69 69 HOH HOH B . G 4 HOH 35 72 72 HOH HOH B . G 4 HOH 36 73 73 HOH HOH B . G 4 HOH 37 74 74 HOH HOH B . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 1200 ? 1 MORE -16 ? 1 'SSA (A^2)' 4570 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id B _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 73 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id G _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? F HOH . ? A HOH 63 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? A HOH 64 ? 1_555 91.0 ? 2 O ? F HOH . ? A HOH 44 ? 1_555 MG ? D MG . ? A MG 14 ? 1_555 O ? F HOH . ? A HOH 45 ? 1_555 89.9 ? 3 O ? F HOH . ? A HOH 44 ? 1_555 MG ? D MG . ? A MG 14 ? 1_555 O ? F HOH . ? A HOH 46 ? 1_555 87.6 ? 4 O ? F HOH . ? A HOH 45 ? 1_555 MG ? D MG . ? A MG 14 ? 1_555 O ? F HOH . ? A HOH 46 ? 1_555 96.6 ? 5 O ? F HOH . ? A HOH 44 ? 1_555 MG ? D MG . ? A MG 14 ? 1_555 O ? F HOH . ? A HOH 57 ? 1_555 103.5 ? 6 O ? F HOH . ? A HOH 45 ? 1_555 MG ? D MG . ? A MG 14 ? 1_555 O ? F HOH . ? A HOH 57 ? 1_555 88.4 ? 7 O ? F HOH . ? A HOH 46 ? 1_555 MG ? D MG . ? A MG 14 ? 1_555 O ? F HOH . ? A HOH 57 ? 1_555 167.8 ? 8 O ? G HOH . ? B HOH 42 ? 1_555 MG ? E MG . ? B MG 1 ? 1_555 O ? G HOH . ? B HOH 43 ? 1_555 174.3 ? 9 O ? G HOH . ? B HOH 42 ? 1_555 MG ? E MG . ? B MG 1 ? 1_555 O ? G HOH . ? B HOH 56 ? 1_555 89.6 ? 10 O ? G HOH . ? B HOH 43 ? 1_555 MG ? E MG . ? B MG 1 ? 1_555 O ? G HOH . ? B HOH 56 ? 1_555 86.9 ? 11 O ? G HOH . ? B HOH 42 ? 1_555 MG ? E MG . ? B MG 1 ? 1_555 O ? G HOH . ? B HOH 59 ? 1_555 85.0 ? 12 O ? G HOH . ? B HOH 43 ? 1_555 MG ? E MG . ? B MG 1 ? 1_555 O ? G HOH . ? B HOH 59 ? 1_555 90.6 ? 13 O ? G HOH . ? B HOH 56 ? 1_555 MG ? E MG . ? B MG 1 ? 1_555 O ? G HOH . ? B HOH 59 ? 1_555 91.2 ? 14 O ? G HOH . ? B HOH 42 ? 1_555 MG ? E MG . ? B MG 1 ? 1_555 O ? G HOH . ? B HOH 69 ? 1_555 87.2 ? 15 O ? G HOH . ? B HOH 43 ? 1_555 MG ? E MG . ? B MG 1 ? 1_555 O ? G HOH . ? B HOH 69 ? 1_555 96.2 ? 16 O ? G HOH . ? B HOH 56 ? 1_555 MG ? E MG . ? B MG 1 ? 1_555 O ? G HOH . ? B HOH 69 ? 1_555 176.4 ? 17 O ? G HOH . ? B HOH 59 ? 1_555 MG ? E MG . ? B MG 1 ? 1_555 O ? G HOH . ? B HOH 69 ? 1_555 87.0 ? # 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 2012-02-08 2 'Structure model' 1 1 2012-03-28 3 'Structure model' 1 2 2023-09-13 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' 5 3 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 3 'Structure model' diffrn_source 5 3 'Structure model' pdbx_initial_refinement_model 6 3 'Structure model' pdbx_struct_conn_angle 7 3 'Structure model' struct_conn 8 3 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_diffrn_source.pdbx_synchrotron_site' 4 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 5 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 6 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 7 3 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_asym_id' 8 3 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 9 3 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 10 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 11 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 12 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 13 3 'Structure model' '_pdbx_struct_conn_angle.value' 14 3 'Structure model' '_struct_conn.pdbx_dist_value' 15 3 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 16 3 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 17 3 'Structure model' '_struct_conn.ptnr1_label_asym_id' 18 3 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 19 3 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 20 3 'Structure model' '_struct_conn.ptnr2_label_asym_id' 21 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 22 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 23 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][3] 'X-RAY DIFFRACTION' 1 ? refined -0.7081 13.6139 12.0936 0.0458 0.0215 0.1022 -0.0035 -0.0325 -0.0086 4.0121 -0.1358 4.7394 0.2340 1.3187 2.0399 0.0280 -0.2811 0.2197 -0.0433 0.0556 0.3215 0.1066 -0.1312 -0.0836 'X-RAY DIFFRACTION' 2 ? refined -7.6111 13.1846 -0.1169 0.1382 0.0490 0.0262 0.0242 -0.0532 0.0026 6.4446 -0.5402 -0.4629 2.2701 0.4938 0.1638 -0.0506 0.4410 -0.2029 0.0665 -0.0382 -0.1387 -0.3612 0.0641 0.0888 'X-RAY DIFFRACTION' 3 ? refined -15.4098 25.9671 -0.9276 0.0506 0.0436 0.0468 0.0272 -0.0117 0.0164 -0.3137 1.6817 1.1623 0.7032 0.0757 -0.9843 0.1290 0.1562 0.1391 -0.0440 0.0034 0.2027 0.1525 0.1452 -0.1324 'X-RAY DIFFRACTION' 4 ? refined -6.3763 25.3310 1.5435 0.0331 0.0665 0.0134 0.0447 -0.0092 -0.0112 1.5853 2.6379 3.7920 1.2601 -2.6557 -1.0849 0.1100 -0.0491 -0.0959 0.0231 -0.0876 -0.1814 0.0696 0.0606 -0.0224 'X-RAY DIFFRACTION' 5 ? refined -12.5179 13.0635 8.3245 0.0862 0.0418 0.0029 0.0183 -0.0240 0.0122 0.1213 4.7512 -0.8892 0.2906 -0.0637 -0.0916 0.1171 -0.0688 -0.0516 0.1499 -0.0524 -0.0211 -0.0087 -0.0016 -0.0647 'X-RAY DIFFRACTION' 6 ? refined 2.2069 5.5244 9.1375 0.0635 0.0389 0.0469 0.0136 -0.0538 -0.0299 3.8040 -0.2947 0.9694 0.9477 1.3796 -0.4548 -0.0221 0.0664 -0.2537 0.0465 0.1232 0.0877 -0.0193 0.1382 -0.1010 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 'X-RAY DIFFRACTION' 1 1 A 1 ? ? A 4 ? ? ? ? 'X-RAY DIFFRACTION' 2 2 A 5 ? ? A 8 ? ? ? ? 'X-RAY DIFFRACTION' 3 3 A 9 ? ? A 12 ? ? ? ? 'X-RAY DIFFRACTION' 4 4 B 13 ? ? B 16 ? ? ? ? 'X-RAY DIFFRACTION' 5 5 B 17 ? ? B 20 ? ? ? ? 'X-RAY DIFFRACTION' 6 6 B 21 ? ? B 24 ? ? ? ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal MAR345dtb 'data collection' . ? 1 PHASER phasing . ? 2 REFMAC refinement 5.5.0109 ? 3 DENZO 'data reduction' . ? 4 SCALEPACK 'data scaling' . ? 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 N1 A U 1 ? ? C6 A U 1 ? ? 1.434 1.375 0.059 0.009 N 2 1 "O5'" A A 2 ? B "C5'" A A 2 ? B 1.357 1.420 -0.063 0.009 N 3 1 C6 A A 3 ? ? N1 A A 3 ? ? 1.399 1.351 0.048 0.007 N 4 1 "C2'" A G 6 ? A "C1'" A G 6 ? ? 1.472 1.526 -0.054 0.008 N 5 1 "O5'" A A 9 ? ? "C5'" A A 9 ? ? 1.364 1.420 -0.056 0.009 N 6 1 C5 A G 11 ? ? N7 A G 11 ? ? 1.349 1.388 -0.039 0.006 N 7 1 N1 B DC 14 ? ? C6 B DC 14 ? ? 1.411 1.367 0.044 0.006 N 8 1 "O3'" B DT 18 ? ? "C3'" B DT 18 ? ? 1.380 1.419 -0.039 0.006 N 9 1 C2 B DT 18 ? ? N3 B DT 18 ? ? 1.315 1.373 -0.058 0.008 N 10 1 C5 B DT 18 ? ? C6 B DT 18 ? ? 1.297 1.339 -0.042 0.007 N 11 1 C6 B DT 21 ? ? N1 B DT 21 ? ? 1.428 1.378 0.050 0.007 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 "C3'" A U 1 ? ? "O3'" A U 1 ? B P A A 2 ? B 128.28 119.70 8.58 1.20 Y 2 1 C8 A A 2 ? ? N9 A A 2 ? ? C4 A A 2 ? ? 103.12 105.80 -2.68 0.40 N 3 1 "C3'" A G 6 ? A "C2'" A G 6 ? A "C1'" A G 6 ? ? 96.67 101.30 -4.63 0.70 N 4 1 "C3'" A G 6 ? B "O3'" A G 6 ? B P A A 7 ? B 127.97 119.70 8.27 1.20 Y 5 1 N7 A A 7 ? A C8 A A 7 ? A N9 A A 7 ? A 117.31 113.80 3.51 0.50 N 6 1 C8 A A 7 ? A N9 A A 7 ? A C4 A A 7 ? A 103.31 105.80 -2.49 0.40 N 7 1 C8 A A 10 ? ? N9 A A 10 ? ? C4 A A 10 ? ? 103.16 105.80 -2.64 0.40 N 8 1 "O4'" B DC 13 ? ? "C1'" B DC 13 ? ? N1 B DC 13 ? ? 111.09 108.30 2.79 0.30 N 9 1 C6 B DC 13 ? ? N1 B DC 13 ? ? C2 B DC 13 ? ? 117.74 120.30 -2.56 0.40 N 10 1 C4 B DT 16 ? ? C5 B DT 16 ? ? C7 B DT 16 ? ? 122.63 119.00 3.63 0.60 N 11 1 "O4'" B DT 17 ? ? "C1'" B DT 17 ? ? "C2'" B DT 17 ? ? 110.10 106.80 3.30 0.50 N 12 1 "O4'" B DT 18 ? ? "C1'" B DT 18 ? ? "C2'" B DT 18 ? ? 111.96 106.80 5.16 0.50 N 13 1 N3 B DT 18 ? ? C4 B DT 18 ? ? O4 B DT 18 ? ? 124.90 119.90 5.00 0.60 N 14 1 C5 B DT 18 ? ? C4 B DT 18 ? ? O4 B DT 18 ? ? 118.51 124.90 -6.39 0.70 N 15 1 C4 B DT 18 ? ? C5 B DT 18 ? ? C7 B DT 18 ? ? 124.26 119.00 5.26 0.60 N 16 1 "O4'" B DC 19 ? ? "C1'" B DC 19 ? ? N1 B DC 19 ? ? 115.30 108.30 7.00 0.30 N 17 1 N3 B DC 19 ? ? C4 B DC 19 ? ? C5 B DC 19 ? ? 118.96 121.90 -2.94 0.40 N 18 1 C4 B DC 19 ? ? C5 B DC 19 ? ? C6 B DC 19 ? ? 120.51 117.40 3.11 0.50 N 19 1 "O4'" B DT 20 ? ? "C1'" B DT 20 ? ? N1 B DT 20 ? ? 110.60 108.30 2.30 0.30 N 20 1 "O5'" B DA 24 ? ? P B DA 24 ? ? OP2 B DA 24 ? ? 100.27 105.70 -5.43 0.90 N 21 1 "C1'" B DA 24 ? ? "O4'" B DA 24 ? ? "C4'" B DA 24 ? ? 103.13 110.10 -6.97 1.00 N 22 1 "O4'" B DA 24 ? ? "C1'" B DA 24 ? ? N9 B DA 24 ? ? 114.63 108.30 6.33 0.30 N 23 1 N1 B DA 24 ? ? C2 B DA 24 ? ? N3 B DA 24 ? ? 125.77 129.30 -3.53 0.50 N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id A _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 2 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id A _pdbx_validate_planes.rmsd 0.053 _pdbx_validate_planes.type 'SIDE CHAIN' # 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 A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 DA OP3 O N N 38 DA P P N N 39 DA OP1 O N N 40 DA OP2 O N N 41 DA "O5'" O N N 42 DA "C5'" C N N 43 DA "C4'" C N R 44 DA "O4'" O N N 45 DA "C3'" C N S 46 DA "O3'" O N N 47 DA "C2'" C N N 48 DA "C1'" C N R 49 DA N9 N Y N 50 DA C8 C Y N 51 DA N7 N Y N 52 DA C5 C Y N 53 DA C6 C Y N 54 DA N6 N N N 55 DA N1 N Y N 56 DA C2 C Y N 57 DA N3 N Y N 58 DA C4 C Y N 59 DA HOP3 H N N 60 DA HOP2 H N N 61 DA "H5'" H N N 62 DA "H5''" H N N 63 DA "H4'" H N N 64 DA "H3'" H N N 65 DA "HO3'" H N N 66 DA "H2'" H N N 67 DA "H2''" H N N 68 DA "H1'" H N N 69 DA H8 H N N 70 DA H61 H N N 71 DA H62 H N N 72 DA H2 H N N 73 DC OP3 O N N 74 DC P P N N 75 DC OP1 O N N 76 DC OP2 O N N 77 DC "O5'" O N N 78 DC "C5'" C N N 79 DC "C4'" C N R 80 DC "O4'" O N N 81 DC "C3'" C N S 82 DC "O3'" O N N 83 DC "C2'" C N N 84 DC "C1'" C N R 85 DC N1 N N N 86 DC C2 C N N 87 DC O2 O N N 88 DC N3 N N N 89 DC C4 C N N 90 DC N4 N N N 91 DC C5 C N N 92 DC C6 C N N 93 DC HOP3 H N N 94 DC HOP2 H N N 95 DC "H5'" H N N 96 DC "H5''" H N N 97 DC "H4'" H N N 98 DC "H3'" H N N 99 DC "HO3'" H N N 100 DC "H2'" H N N 101 DC "H2''" H N N 102 DC "H1'" H N N 103 DC H41 H N N 104 DC H42 H N N 105 DC H5 H N N 106 DC H6 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 G OP3 O N N 144 G P P N N 145 G OP1 O N N 146 G OP2 O N N 147 G "O5'" O N N 148 G "C5'" C N N 149 G "C4'" C N R 150 G "O4'" O N N 151 G "C3'" C N S 152 G "O3'" O N N 153 G "C2'" C N R 154 G "O2'" O N N 155 G "C1'" C N R 156 G N9 N Y N 157 G C8 C Y N 158 G N7 N Y N 159 G C5 C Y N 160 G C6 C N N 161 G O6 O N N 162 G N1 N N N 163 G C2 C N N 164 G N2 N N N 165 G N3 N N N 166 G C4 C Y N 167 G HOP3 H N N 168 G HOP2 H N N 169 G "H5'" H N N 170 G "H5''" H N N 171 G "H4'" H N N 172 G "H3'" H N N 173 G "HO3'" H N N 174 G "H2'" H N N 175 G "HO2'" H N N 176 G "H1'" H N N 177 G H8 H N N 178 G H1 H N N 179 G H21 H N N 180 G H22 H N N 181 HOH O O N N 182 HOH H1 H N N 183 HOH H2 H N N 184 MG MG MG N N 185 U OP3 O N N 186 U P P N N 187 U OP1 O N N 188 U OP2 O N N 189 U "O5'" O N N 190 U "C5'" C N N 191 U "C4'" C N R 192 U "O4'" O N N 193 U "C3'" C N S 194 U "O3'" O N N 195 U "C2'" C N R 196 U "O2'" O N N 197 U "C1'" C N R 198 U N1 N N N 199 U C2 C N N 200 U O2 O N N 201 U N3 N N N 202 U C4 C N N 203 U O4 O N N 204 U C5 C N N 205 U C6 C N N 206 U HOP3 H N N 207 U HOP2 H N N 208 U "H5'" H N N 209 U "H5''" H N N 210 U "H4'" H N N 211 U "H3'" H N N 212 U "HO3'" H N N 213 U "H2'" H N N 214 U "HO2'" H N N 215 U "H1'" H N N 216 U H3 H N N 217 U H5 H N N 218 U H6 H N N 219 # 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 A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 DA OP3 P sing N N 40 DA OP3 HOP3 sing N N 41 DA P OP1 doub N N 42 DA P OP2 sing N N 43 DA P "O5'" sing N N 44 DA OP2 HOP2 sing N N 45 DA "O5'" "C5'" sing N N 46 DA "C5'" "C4'" sing N N 47 DA "C5'" "H5'" sing N N 48 DA "C5'" "H5''" sing N N 49 DA "C4'" "O4'" sing N N 50 DA "C4'" "C3'" sing N N 51 DA "C4'" "H4'" sing N N 52 DA "O4'" "C1'" sing N N 53 DA "C3'" "O3'" sing N N 54 DA "C3'" "C2'" sing N N 55 DA "C3'" "H3'" sing N N 56 DA "O3'" "HO3'" sing N N 57 DA "C2'" "C1'" sing N N 58 DA "C2'" "H2'" sing N N 59 DA "C2'" "H2''" sing N N 60 DA "C1'" N9 sing N N 61 DA "C1'" "H1'" sing N N 62 DA N9 C8 sing Y N 63 DA N9 C4 sing Y N 64 DA C8 N7 doub Y N 65 DA C8 H8 sing N N 66 DA N7 C5 sing Y N 67 DA C5 C6 sing Y N 68 DA C5 C4 doub Y N 69 DA C6 N6 sing N N 70 DA C6 N1 doub Y N 71 DA N6 H61 sing N N 72 DA N6 H62 sing N N 73 DA N1 C2 sing Y N 74 DA C2 N3 doub Y N 75 DA C2 H2 sing N N 76 DA N3 C4 sing Y N 77 DC OP3 P sing N N 78 DC OP3 HOP3 sing N N 79 DC P OP1 doub N N 80 DC P OP2 sing N N 81 DC P "O5'" sing N N 82 DC OP2 HOP2 sing N N 83 DC "O5'" "C5'" sing N N 84 DC "C5'" "C4'" sing N N 85 DC "C5'" "H5'" sing N N 86 DC "C5'" "H5''" sing N N 87 DC "C4'" "O4'" sing N N 88 DC "C4'" "C3'" sing N N 89 DC "C4'" "H4'" sing N N 90 DC "O4'" "C1'" sing N N 91 DC "C3'" "O3'" sing N N 92 DC "C3'" "C2'" sing N N 93 DC "C3'" "H3'" sing N N 94 DC "O3'" "HO3'" sing N N 95 DC "C2'" "C1'" sing N N 96 DC "C2'" "H2'" sing N N 97 DC "C2'" "H2''" sing N N 98 DC "C1'" N1 sing N N 99 DC "C1'" "H1'" sing N N 100 DC N1 C2 sing N N 101 DC N1 C6 sing N N 102 DC C2 O2 doub N N 103 DC C2 N3 sing N N 104 DC N3 C4 doub N N 105 DC C4 N4 sing N N 106 DC C4 C5 sing N N 107 DC N4 H41 sing N N 108 DC N4 H42 sing N N 109 DC C5 C6 doub N N 110 DC C5 H5 sing N N 111 DC C6 H6 sing N N 112 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 G OP3 P sing N N 150 G OP3 HOP3 sing N N 151 G P OP1 doub N N 152 G P OP2 sing N N 153 G P "O5'" sing N N 154 G OP2 HOP2 sing N N 155 G "O5'" "C5'" sing N N 156 G "C5'" "C4'" sing N N 157 G "C5'" "H5'" sing N N 158 G "C5'" "H5''" sing N N 159 G "C4'" "O4'" sing N N 160 G "C4'" "C3'" sing N N 161 G "C4'" "H4'" sing N N 162 G "O4'" "C1'" sing N N 163 G "C3'" "O3'" sing N N 164 G "C3'" "C2'" sing N N 165 G "C3'" "H3'" sing N N 166 G "O3'" "HO3'" sing N N 167 G "C2'" "O2'" sing N N 168 G "C2'" "C1'" sing N N 169 G "C2'" "H2'" sing N N 170 G "O2'" "HO2'" sing N N 171 G "C1'" N9 sing N N 172 G "C1'" "H1'" sing N N 173 G N9 C8 sing Y N 174 G N9 C4 sing Y N 175 G C8 N7 doub Y N 176 G C8 H8 sing N N 177 G N7 C5 sing Y N 178 G C5 C6 sing N N 179 G C5 C4 doub Y N 180 G C6 O6 doub N N 181 G C6 N1 sing N N 182 G N1 C2 sing N N 183 G N1 H1 sing N N 184 G C2 N2 sing N N 185 G C2 N3 doub N N 186 G N2 H21 sing N N 187 G N2 H22 sing N N 188 G N3 C4 sing N N 189 HOH O H1 sing N N 190 HOH O H2 sing N N 191 U OP3 P sing N N 192 U OP3 HOP3 sing N N 193 U P OP1 doub N N 194 U P OP2 sing N N 195 U P "O5'" sing N N 196 U OP2 HOP2 sing N N 197 U "O5'" "C5'" sing N N 198 U "C5'" "C4'" sing N N 199 U "C5'" "H5'" sing N N 200 U "C5'" "H5''" sing N N 201 U "C4'" "O4'" sing N N 202 U "C4'" "C3'" sing N N 203 U "C4'" "H4'" sing N N 204 U "O4'" "C1'" sing N N 205 U "C3'" "O3'" sing N N 206 U "C3'" "C2'" sing N N 207 U "C3'" "H3'" sing N N 208 U "O3'" "HO3'" sing N N 209 U "C2'" "O2'" sing N N 210 U "C2'" "C1'" sing N N 211 U "C2'" "H2'" sing N N 212 U "O2'" "HO2'" sing N N 213 U "C1'" N1 sing N N 214 U "C1'" "H1'" sing N N 215 U N1 C2 sing N N 216 U N1 C6 sing N N 217 U C2 O2 doub N N 218 U C2 N3 sing N N 219 U N3 C4 sing N N 220 U N3 H3 sing N N 221 U C4 O4 doub N N 222 U C4 C5 sing N N 223 U C5 C6 doub N N 224 U C5 H5 sing N N 225 U C6 H6 sing N N 226 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3SSF 'double helix' 3SSF 'a-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 U 1 1_555 B DA 12 1_555 -1.147 4.831 -1.696 -7.319 -43.131 -139.768 1 A_U1:DA24_B A 1 ? B 24 ? ? ? 1 A A 2 1_555 B DT 11 1_555 -0.090 -0.247 -0.103 -0.413 -18.896 -3.819 2 A_A2:DT23_B A 2 ? B 23 ? 20 1 1 A A 3 1_555 B DT 10 1_555 0.116 -0.148 0.041 -2.637 -12.054 0.191 3 A_A3:DT22_B A 3 ? B 22 ? 20 1 1 A A 4 1_555 B DT 9 1_555 -0.089 -0.209 0.036 0.912 -23.527 4.178 4 A_A4:DT21_B A 4 ? B 21 ? 20 1 1 A A 5 1_555 B DT 8 1_555 0.090 -0.219 -0.035 -6.305 -18.624 -2.290 5 A_A5:DT20_B A 5 ? B 20 ? 20 1 1 A G 6 1_555 B DC 7 1_555 -0.280 -0.167 0.118 -5.105 -11.426 1.222 6 A_G6:DC19_B A 6 ? B 19 ? 19 1 1 A A 7 1_555 B DT 6 1_555 -0.035 -0.221 -0.559 -9.112 -19.833 -3.199 7 A_A7:DT18_B A 7 ? B 18 ? 20 1 1 A A 8 1_555 B DT 5 1_555 -0.169 -0.189 -0.222 -11.219 -15.218 3.348 8 A_A8:DT17_B A 8 ? B 17 ? 20 1 1 A A 9 1_555 B DT 4 1_555 0.047 -0.168 -0.134 -6.030 -16.428 1.090 9 A_A9:DT16_B A 9 ? B 16 ? 20 1 1 A A 10 1_555 B DT 3 1_555 0.000 -0.196 0.045 -3.884 -15.213 3.707 10 A_A10:DT15_B A 10 ? B 15 ? 20 1 1 A G 11 1_555 B DC 2 1_555 -0.225 -0.250 0.100 -2.543 -8.860 -1.059 11 A_G11:DC14_B A 11 ? B 14 ? 19 1 1 A G 12 1_555 B DC 1 1_555 -0.006 -0.221 -0.045 0.188 -6.051 -1.067 12 A_G12:DC13_B A 12 ? B 13 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A U 1 1_555 B DA 12 1_555 A A 2 1_555 B DT 11 1_555 -0.018 0.135 4.164 -4.434 23.995 -5.017 -9.364 -1.715 0.712 -77.248 -14.274 -24.904 1 AA_U1A2:DT23DA24_BB A 1 ? B 24 ? A 2 ? B 23 ? 1 A A 2 1_555 B DT 11 1_555 A A 3 1_555 B DT 10 1_555 0.097 -0.562 3.200 -0.758 1.865 36.483 -1.146 -0.256 3.166 2.977 1.209 36.536 2 AA_A2A3:DT22DT23_BB A 2 ? B 23 ? A 3 ? B 22 ? 1 A A 3 1_555 B DT 10 1_555 A A 4 1_555 B DT 9 1_555 0.222 -0.372 3.165 -1.036 11.918 33.487 -2.268 -0.507 2.863 19.911 1.730 35.502 3 AA_A3A4:DT21DT22_BB A 3 ? B 22 ? A 4 ? B 21 ? 1 A A 4 1_555 B DT 9 1_555 A A 5 1_555 B DT 8 1_555 -0.111 -1.012 3.408 -1.881 8.855 34.361 -2.963 -0.095 3.063 14.675 3.118 35.499 4 AA_A4A5:DT20DT21_BB A 4 ? B 21 ? A 5 ? B 20 ? 1 A A 5 1_555 B DT 8 1_555 A G 6 1_555 B DC 7 1_555 0.071 -1.699 3.227 -1.918 8.142 29.288 -4.732 -0.488 2.659 15.702 3.698 30.434 5 AA_A5G6:DC19DT20_BB A 5 ? B 20 ? A 6 ? B 19 ? 1 A G 6 1_555 B DC 7 1_555 A A 7 1_555 B DT 6 1_555 -1.053 -1.223 3.461 1.947 9.288 32.943 -3.539 2.095 2.952 15.970 -3.348 34.246 6 AA_G6A7:DT18DC19_BB A 6 ? B 19 ? A 7 ? B 18 ? 1 A A 7 1_555 B DT 6 1_555 A A 8 1_555 B DT 5 1_555 1.309 -1.669 3.517 1.652 18.007 28.166 -5.736 -2.021 2.161 33.044 -3.031 33.372 7 AA_A7A8:DT17DT18_BB A 7 ? B 18 ? A 8 ? B 17 ? 1 A A 8 1_555 B DT 5 1_555 A A 9 1_555 B DT 4 1_555 -0.116 -0.859 3.176 -0.105 9.352 32.440 -2.903 0.184 2.827 16.321 0.183 33.726 8 AA_A8A9:DT16DT17_BB A 8 ? B 17 ? A 9 ? B 16 ? 1 A A 9 1_555 B DT 4 1_555 A A 10 1_555 B DT 3 1_555 0.333 -0.966 3.193 0.375 6.780 32.303 -2.792 -0.527 2.939 12.021 -0.665 32.990 9 AA_A9A10:DT15DT16_BB A 9 ? B 16 ? A 10 ? B 15 ? 1 A A 10 1_555 B DT 3 1_555 A G 11 1_555 B DC 2 1_555 0.119 -1.187 3.232 0.625 8.279 30.676 -3.602 -0.110 2.825 15.300 -1.156 31.754 10 AA_A10G11:DC14DT15_BB A 10 ? B 15 ? A 11 ? B 14 ? 1 A G 11 1_555 B DC 2 1_555 A G 12 1_555 B DC 1 1_555 0.331 -1.869 3.170 2.993 5.932 31.572 -4.338 -0.105 2.800 10.754 -5.426 32.247 11 AA_G11G12:DC13DC14_BB A 11 ? B 14 ? A 12 ? B 13 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'MAGNESIUM ION' MG 4 water HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 1PJO _pdbx_initial_refinement_model.details ? #