data_1FIX # _entry.id 1FIX # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _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 1FIX pdb_00001fix 10.2210/pdb1fix/pdb RCSB UHJ055 ? ? WWPDB D_1000173305 ? ? # 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 1996-12-11 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-07 5 'Structure model' 1 4 2024-04-03 # _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' 'Data collection' 4 4 'Structure model' 'Database references' 5 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 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 5 'Structure model' pdbx_initial_refinement_model # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1FIX _pdbx_database_status.recvd_initial_deposition_date 1996-10-24 _pdbx_database_status.deposit_site NDB _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Horton, N.C.' 1 'Finzel, B.C.' 2 # _citation.id primary _citation.title 'The structure of an RNA/DNA hybrid: a substrate of the ribonuclease activity of HIV-1 reverse transcriptase.' _citation.journal_abbrev J.Mol.Biol. _citation.journal_volume 264 _citation.page_first 521 _citation.page_last 533 _citation.year 1996 _citation.journal_id_ASTM JMOBAK _citation.country UK _citation.journal_id_ISSN 0022-2836 _citation.journal_id_CSD 0070 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 8969302 _citation.pdbx_database_id_DOI 10.1006/jmbi.1996.0658 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Horton, N.C.' 1 ? primary 'Finzel, B.C.' 2 ? # 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 ;RNA (5'-R(*UP*UP*CP*GP*GP*GP*CP*GP*CP*C)-3') ; 3168.925 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*GP*GP*CP*GP*CP*CP*CP*GP*AP*A)-3') ; 3055.006 1 ? ? ? ? 3 water nat water 18.015 72 ? ? ? ? # 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 UUCGGGCGCC UUCGGGCGCC A ? 2 polydeoxyribonucleotide no no '(DG)(DG)(DC)(DG)(DC)(DC)(DC)(DG)(DA)(DA)' GGCGCCCGAA B ? # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # 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 U n 1 3 C n 1 4 G n 1 5 G n 1 6 G n 1 7 C n 1 8 G n 1 9 C n 1 10 C n 2 1 DG n 2 2 DG n 2 3 DC n 2 4 DG n 2 5 DC n 2 6 DC n 2 7 DC n 2 8 DG n 2 9 DA n 2 10 DA n # 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 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 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 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # 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 U 2 2 2 U U A . n A 1 3 C 3 3 3 C C A . n A 1 4 G 4 4 4 G G A . n A 1 5 G 5 5 5 G G A . n A 1 6 G 6 6 6 G G A . n A 1 7 C 7 7 7 C C A . n A 1 8 G 8 8 8 G G A . n A 1 9 C 9 9 9 C C A . n A 1 10 C 10 10 10 C C A . n B 2 1 DG 1 11 11 DG G B . n B 2 2 DG 2 12 12 DG G B . n B 2 3 DC 3 13 13 DC C B . n B 2 4 DG 4 14 14 DG G B . n B 2 5 DC 5 15 15 DC C B . n B 2 6 DC 6 16 16 DC C B . n B 2 7 DC 7 17 17 DC C B . n B 2 8 DG 8 18 18 DG G B . n B 2 9 DA 9 19 19 DA A B . n B 2 10 DA 10 20 20 DA A 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 HOH 1 21 21 HOH HOH A . C 3 HOH 2 22 22 HOH HOH A . C 3 HOH 3 23 23 HOH HOH A . C 3 HOH 4 24 24 HOH HOH A . C 3 HOH 5 25 25 HOH HOH A . C 3 HOH 6 26 26 HOH HOH A . C 3 HOH 7 27 27 HOH HOH A . C 3 HOH 8 28 28 HOH HOH A . C 3 HOH 9 29 29 HOH HOH A . C 3 HOH 10 31 31 HOH HOH A . C 3 HOH 11 32 32 HOH HOH A . C 3 HOH 12 33 33 HOH HOH A . C 3 HOH 13 34 34 HOH HOH A . C 3 HOH 14 35 35 HOH HOH A . C 3 HOH 15 36 36 HOH HOH A . C 3 HOH 16 37 37 HOH HOH A . C 3 HOH 17 38 38 HOH HOH A . C 3 HOH 18 40 40 HOH HOH A . C 3 HOH 19 41 41 HOH HOH A . C 3 HOH 20 54 54 HOH HOH A . C 3 HOH 21 56 56 HOH HOH A . C 3 HOH 22 58 58 HOH HOH A . C 3 HOH 23 59 59 HOH HOH A . C 3 HOH 24 60 60 HOH HOH A . C 3 HOH 25 61 61 HOH HOH A . C 3 HOH 26 62 62 HOH HOH A . C 3 HOH 27 64 64 HOH HOH A . C 3 HOH 28 68 68 HOH HOH A . C 3 HOH 29 71 71 HOH HOH A . C 3 HOH 30 72 72 HOH HOH A . C 3 HOH 31 73 73 HOH HOH A . C 3 HOH 32 75 75 HOH HOH A . C 3 HOH 33 76 76 HOH HOH A . C 3 HOH 34 78 78 HOH HOH A . C 3 HOH 35 80 80 HOH HOH A . C 3 HOH 36 82 82 HOH HOH A . C 3 HOH 37 83 83 HOH HOH A . C 3 HOH 38 84 84 HOH HOH A . C 3 HOH 39 85 85 HOH HOH A . C 3 HOH 40 86 86 HOH HOH A . C 3 HOH 41 88 88 HOH HOH A . C 3 HOH 42 89 89 HOH HOH A . C 3 HOH 43 90 90 HOH HOH A . C 3 HOH 44 91 91 HOH HOH A . C 3 HOH 45 92 92 HOH HOH A . D 3 HOH 1 30 30 HOH HOH B . D 3 HOH 2 39 39 HOH HOH B . D 3 HOH 3 42 42 HOH HOH B . D 3 HOH 4 43 43 HOH HOH B . D 3 HOH 5 44 44 HOH HOH B . D 3 HOH 6 45 45 HOH HOH B . D 3 HOH 7 46 46 HOH HOH B . D 3 HOH 8 47 47 HOH HOH B . D 3 HOH 9 48 48 HOH HOH B . D 3 HOH 10 49 49 HOH HOH B . D 3 HOH 11 50 50 HOH HOH B . D 3 HOH 12 51 51 HOH HOH B . D 3 HOH 13 52 52 HOH HOH B . D 3 HOH 14 53 53 HOH HOH B . D 3 HOH 15 55 55 HOH HOH B . D 3 HOH 16 57 57 HOH HOH B . D 3 HOH 17 63 63 HOH HOH B . D 3 HOH 18 65 65 HOH HOH B . D 3 HOH 19 66 66 HOH HOH B . D 3 HOH 20 67 67 HOH HOH B . D 3 HOH 21 69 69 HOH HOH B . D 3 HOH 22 70 70 HOH HOH B . D 3 HOH 23 74 74 HOH HOH B . D 3 HOH 24 77 77 HOH HOH B . D 3 HOH 25 79 79 HOH HOH B . D 3 HOH 26 81 81 HOH HOH B . D 3 HOH 27 87 87 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal XTAL 'model building' . ? 1 X-PLOR refinement . ? 2 XENGEN 'data reduction' . ? 3 XENGEN 'data scaling' . ? 4 XTAL phasing . ? 5 # _cell.entry_id 1FIX _cell.length_a 31.300 _cell.length_b 31.300 _cell.length_c 137.700 _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 1FIX _symmetry.space_group_name_H-M 'P 43 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 95 _symmetry.space_group_name_Hall ? # _exptl.entry_id 1FIX _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.64 _exptl_crystal.density_percent_sol 46.5000 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details 'ROOM TEMPERATURE' _exptl_crystal_grow.pH 4.50 _exptl_crystal_grow.pdbx_details 'pH 4.50, VAPOR DIFFUSION, HANGING DROP' _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 WATER ? ? ? 1 2 1 MPD ? ? ? 1 3 1 CACL2 ? ? ? 1 4 1 'NA ACETATE' ? ? ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details 'ROOM TEMPERATURE' _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'AREA DETECTOR' _diffrn_detector.type SIEMENS _diffrn_detector.pdbx_collection_date 1994-10-01 _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 ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source ? _diffrn_source.type ? _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1FIX _reflns.observed_criterion_sigma_I 2.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 5.000 _reflns.d_resolution_high 2.300 _reflns.number_obs 3315 _reflns.number_all 20393 _reflns.percent_possible_obs 94.400 _reflns.pdbx_Rmerge_I_obs 0.0810000 _reflns.pdbx_Rsym_value 0.0810000 _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_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 1FIX _refine.ls_number_reflns_obs 2457 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 5.000 _refine.ls_d_res_high 2.300 _refine.ls_percent_reflns_obs 80.000 _refine.ls_R_factor_obs 0.1450000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.1450000 _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _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_ls_cross_valid_method ? _refine.details 'NUCLEIC ACID RNA-DNA PARAMETER FILE: G. PARKINSON,ET AL. (1996) ACTA CRYST. D52, 57-64' _refine.pdbx_starting_model 'A-FORM DUPLEX' _refine.pdbx_method_to_determine_struct MIR _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_redundancy_reflns_obs ? _refine.pdbx_overall_phase_error ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _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_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 412 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 72 _refine_hist.number_atoms_total 484 _refine_hist.d_res_high 2.300 _refine_hist.d_res_low 5.000 # 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 x_bond_d 0.019 ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg 2.20 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? x_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 8 _refine_ls_shell.d_res_high 2.30 _refine_ls_shell.d_res_low 2.39 _refine_ls_shell.number_reflns_R_work 117 _refine_ls_shell.R_factor_R_work 0.2720000 _refine_ls_shell.percent_reflns_obs 30.00 _refine_ls_shell.R_factor_R_free ? _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.R_factor_all ? # _database_PDB_matrix.entry_id 1FIX _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 # _struct.entry_id 1FIX _struct.title 'THE STRUCTURE OF AN RNA/DNA HYBRID: A SUBSTRATE OF THE RIBONUCLEASE ACTIVITY OF HIV-1 REVERSE TRANSCRIPTASE' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1FIX _struct_keywords.pdbx_keywords 'DNA-RNA HYBRID' _struct_keywords.text 'RIGHT HANDED DNA/RNA HYBRID, DOUBLE HELIX, HIV-1 PRIMER BINDING SITE, DNA-RNA HYBRID' # 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 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 1 PDB 1FIX 1FIX ? ? ? 2 2 PDB 1FIX 1FIX ? ? ? # 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 1FIX A 1 ? 10 ? 1FIX 1 ? 10 ? 1 10 2 2 1FIX B 1 ? 10 ? 1FIX 11 ? 20 ? 11 20 # _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 # _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 # _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 hydrog1 hydrog ? ? A U 1 N3 ? ? ? 1_555 B DA 10 N1 ? ? A U 1 B DA 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A U 1 O4 ? ? ? 1_555 B DA 10 N6 ? ? A U 1 B DA 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A U 2 N3 ? ? ? 1_555 B DA 9 N1 ? ? A U 2 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A U 2 O4 ? ? ? 1_555 B DA 9 N6 ? ? A U 2 B DA 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 3 N3 ? ? ? 1_555 B DG 8 N1 ? ? A C 3 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 3 N4 ? ? ? 1_555 B DG 8 O6 ? ? A C 3 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 3 O2 ? ? ? 1_555 B DG 8 N2 ? ? A C 3 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 4 N1 ? ? ? 1_555 B DC 7 N3 ? ? A G 4 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N2 ? ? ? 1_555 B DC 7 O2 ? ? A G 4 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 O6 ? ? ? 1_555 B DC 7 N4 ? ? A G 4 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 5 N1 ? ? ? 1_555 B DC 6 N3 ? ? A G 5 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 5 N2 ? ? ? 1_555 B DC 6 O2 ? ? A G 5 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A G 5 O6 ? ? ? 1_555 B DC 6 N4 ? ? A G 5 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 6 N1 ? ? ? 1_555 B DC 5 N3 ? ? A G 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 6 N2 ? ? ? 1_555 B DC 5 O2 ? ? A G 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 6 O6 ? ? ? 1_555 B DC 5 N4 ? ? A G 6 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 7 N3 ? ? ? 1_555 B DG 4 N1 ? ? A C 7 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 7 N4 ? ? ? 1_555 B DG 4 O6 ? ? A C 7 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 7 O2 ? ? ? 1_555 B DG 4 N2 ? ? A C 7 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A G 8 N1 ? ? ? 1_555 B DC 3 N3 ? ? A G 8 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 8 N2 ? ? ? 1_555 B DC 3 O2 ? ? A G 8 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A G 8 O6 ? ? ? 1_555 B DC 3 N4 ? ? A G 8 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 9 N3 ? ? ? 1_555 B DG 2 N1 ? ? A C 9 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 9 N4 ? ? ? 1_555 B DG 2 O6 ? ? A C 9 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A C 9 O2 ? ? ? 1_555 B DG 2 N2 ? ? A C 9 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 10 N3 ? ? ? 1_555 B DG 1 N1 ? ? A C 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 10 N4 ? ? ? 1_555 B DG 1 O6 ? ? A C 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 10 O2 ? ? ? 1_555 B DG 1 N2 ? ? A C 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 "O4'" _pdbx_validate_rmsd_angle.auth_asym_id_1 B _pdbx_validate_rmsd_angle.auth_comp_id_1 DC _pdbx_validate_rmsd_angle.auth_seq_id_1 15 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 "C4'" _pdbx_validate_rmsd_angle.auth_asym_id_2 B _pdbx_validate_rmsd_angle.auth_comp_id_2 DC _pdbx_validate_rmsd_angle.auth_seq_id_2 15 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 "C3'" _pdbx_validate_rmsd_angle.auth_asym_id_3 B _pdbx_validate_rmsd_angle.auth_comp_id_3 DC _pdbx_validate_rmsd_angle.auth_seq_id_3 15 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 101.92 _pdbx_validate_rmsd_angle.angle_target_value 104.50 _pdbx_validate_rmsd_angle.angle_deviation -2.58 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.40 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 U A 2 ? ? 0.084 'SIDE CHAIN' 2 1 G A 5 ? ? 0.057 'SIDE CHAIN' # loop_ _refine_B_iso.class _refine_B_iso.details _refine_B_iso.treatment _refine_B_iso.pdbx_refine_id 'ALL ATOMS' TR isotropic 'X-RAY DIFFRACTION' 'ALL WATERS' TR isotropic 'X-RAY DIFFRACTION' # loop_ _refine_occupancy.class _refine_occupancy.treatment _refine_occupancy.pdbx_refine_id 'ALL ATOMS' fix 'X-RAY DIFFRACTION' 'ALL WATERS' fix 'X-RAY DIFFRACTION' # 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 C OP3 O N N 1 C P P N N 2 C OP1 O N N 3 C OP2 O N N 4 C "O5'" O N N 5 C "C5'" C N N 6 C "C4'" C N R 7 C "O4'" O N N 8 C "C3'" C N S 9 C "O3'" O N N 10 C "C2'" C N R 11 C "O2'" O N N 12 C "C1'" C N R 13 C N1 N N N 14 C C2 C N N 15 C O2 O N N 16 C N3 N N N 17 C C4 C N N 18 C N4 N N N 19 C C5 C N N 20 C C6 C N N 21 C HOP3 H N N 22 C HOP2 H N N 23 C "H5'" H N N 24 C "H5''" H N N 25 C "H4'" H N N 26 C "H3'" H N N 27 C "HO3'" H N N 28 C "H2'" H N N 29 C "HO2'" H N N 30 C "H1'" H N N 31 C H41 H N N 32 C H42 H N N 33 C H5 H N N 34 C H6 H N N 35 DA OP3 O N N 36 DA P P N N 37 DA OP1 O N N 38 DA OP2 O N N 39 DA "O5'" O N N 40 DA "C5'" C N N 41 DA "C4'" C N R 42 DA "O4'" O N N 43 DA "C3'" C N S 44 DA "O3'" O N N 45 DA "C2'" C N N 46 DA "C1'" C N R 47 DA N9 N Y N 48 DA C8 C Y N 49 DA N7 N Y N 50 DA C5 C Y N 51 DA C6 C Y N 52 DA N6 N N N 53 DA N1 N Y N 54 DA C2 C Y N 55 DA N3 N Y N 56 DA C4 C Y N 57 DA HOP3 H N N 58 DA HOP2 H N N 59 DA "H5'" H N N 60 DA "H5''" H N N 61 DA "H4'" H N N 62 DA "H3'" H N N 63 DA "HO3'" H N N 64 DA "H2'" H N N 65 DA "H2''" H N N 66 DA "H1'" H N N 67 DA H8 H N N 68 DA H61 H N N 69 DA H62 H N N 70 DA H2 H N N 71 DC OP3 O N N 72 DC P P N N 73 DC OP1 O N N 74 DC OP2 O N N 75 DC "O5'" O N N 76 DC "C5'" C N N 77 DC "C4'" C N R 78 DC "O4'" O N N 79 DC "C3'" C N S 80 DC "O3'" O N N 81 DC "C2'" C N N 82 DC "C1'" C N R 83 DC N1 N N N 84 DC C2 C N N 85 DC O2 O N N 86 DC N3 N N N 87 DC C4 C N N 88 DC N4 N N N 89 DC C5 C N N 90 DC C6 C N N 91 DC HOP3 H N N 92 DC HOP2 H N N 93 DC "H5'" H N N 94 DC "H5''" H N N 95 DC "H4'" H N N 96 DC "H3'" H N N 97 DC "HO3'" H N N 98 DC "H2'" H N N 99 DC "H2''" H N N 100 DC "H1'" H N N 101 DC H41 H N N 102 DC H42 H N N 103 DC H5 H N N 104 DC H6 H N N 105 DG OP3 O N N 106 DG P P N N 107 DG OP1 O N N 108 DG OP2 O N N 109 DG "O5'" O N N 110 DG "C5'" C N N 111 DG "C4'" C N R 112 DG "O4'" O N N 113 DG "C3'" C N S 114 DG "O3'" O N N 115 DG "C2'" C N N 116 DG "C1'" C N R 117 DG N9 N Y N 118 DG C8 C Y N 119 DG N7 N Y N 120 DG C5 C Y N 121 DG C6 C N N 122 DG O6 O N N 123 DG N1 N N N 124 DG C2 C N N 125 DG N2 N N N 126 DG N3 N N N 127 DG C4 C Y N 128 DG HOP3 H N N 129 DG HOP2 H N N 130 DG "H5'" H N N 131 DG "H5''" H N N 132 DG "H4'" H N N 133 DG "H3'" H N N 134 DG "HO3'" H N N 135 DG "H2'" H N N 136 DG "H2''" H N N 137 DG "H1'" H N N 138 DG H8 H N N 139 DG H1 H N N 140 DG H21 H N N 141 DG H22 H N N 142 G OP3 O N N 143 G P P N N 144 G OP1 O N N 145 G OP2 O N N 146 G "O5'" O N N 147 G "C5'" C N N 148 G "C4'" C N R 149 G "O4'" O N N 150 G "C3'" C N S 151 G "O3'" O N N 152 G "C2'" C N R 153 G "O2'" O N N 154 G "C1'" C N R 155 G N9 N Y N 156 G C8 C Y N 157 G N7 N Y N 158 G C5 C Y N 159 G C6 C N N 160 G O6 O N N 161 G N1 N N N 162 G C2 C N N 163 G N2 N N N 164 G N3 N N N 165 G C4 C Y N 166 G HOP3 H N N 167 G HOP2 H N N 168 G "H5'" H N N 169 G "H5''" H N N 170 G "H4'" H N N 171 G "H3'" H N N 172 G "HO3'" H N N 173 G "H2'" H N N 174 G "HO2'" H N N 175 G "H1'" H N N 176 G H8 H N N 177 G H1 H N N 178 G H21 H N N 179 G H22 H N N 180 HOH O O N N 181 HOH H1 H N N 182 HOH H2 H N N 183 U OP3 O N N 184 U P P N N 185 U OP1 O N N 186 U OP2 O N N 187 U "O5'" O N N 188 U "C5'" C N N 189 U "C4'" C N R 190 U "O4'" O N N 191 U "C3'" C N S 192 U "O3'" O N N 193 U "C2'" C N R 194 U "O2'" O N N 195 U "C1'" C N R 196 U N1 N N N 197 U C2 C N N 198 U O2 O N N 199 U N3 N N N 200 U C4 C N N 201 U O4 O N N 202 U C5 C N N 203 U C6 C N N 204 U HOP3 H N N 205 U HOP2 H N N 206 U "H5'" H N N 207 U "H5''" H N N 208 U "H4'" H N N 209 U "H3'" H N N 210 U "HO3'" H N N 211 U "H2'" H N N 212 U "HO2'" H N N 213 U "H1'" H N N 214 U H3 H N N 215 U H5 H N N 216 U H6 H N N 217 # 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 C OP3 P sing N N 1 C OP3 HOP3 sing N N 2 C P OP1 doub N N 3 C P OP2 sing N N 4 C P "O5'" sing N N 5 C OP2 HOP2 sing N N 6 C "O5'" "C5'" sing N N 7 C "C5'" "C4'" sing N N 8 C "C5'" "H5'" sing N N 9 C "C5'" "H5''" sing N N 10 C "C4'" "O4'" sing N N 11 C "C4'" "C3'" sing N N 12 C "C4'" "H4'" sing N N 13 C "O4'" "C1'" sing N N 14 C "C3'" "O3'" sing N N 15 C "C3'" "C2'" sing N N 16 C "C3'" "H3'" sing N N 17 C "O3'" "HO3'" sing N N 18 C "C2'" "O2'" sing N N 19 C "C2'" "C1'" sing N N 20 C "C2'" "H2'" sing N N 21 C "O2'" "HO2'" sing N N 22 C "C1'" N1 sing N N 23 C "C1'" "H1'" sing N N 24 C N1 C2 sing N N 25 C N1 C6 sing N N 26 C C2 O2 doub N N 27 C C2 N3 sing N N 28 C N3 C4 doub N N 29 C C4 N4 sing N N 30 C C4 C5 sing N N 31 C N4 H41 sing N N 32 C N4 H42 sing N N 33 C C5 C6 doub N N 34 C C5 H5 sing N N 35 C C6 H6 sing N N 36 DA OP3 P sing N N 37 DA OP3 HOP3 sing N N 38 DA P OP1 doub N N 39 DA P OP2 sing N N 40 DA P "O5'" sing N N 41 DA OP2 HOP2 sing N N 42 DA "O5'" "C5'" sing N N 43 DA "C5'" "C4'" sing N N 44 DA "C5'" "H5'" sing N N 45 DA "C5'" "H5''" sing N N 46 DA "C4'" "O4'" sing N N 47 DA "C4'" "C3'" sing N N 48 DA "C4'" "H4'" sing N N 49 DA "O4'" "C1'" sing N N 50 DA "C3'" "O3'" sing N N 51 DA "C3'" "C2'" sing N N 52 DA "C3'" "H3'" sing N N 53 DA "O3'" "HO3'" sing N N 54 DA "C2'" "C1'" sing N N 55 DA "C2'" "H2'" sing N N 56 DA "C2'" "H2''" sing N N 57 DA "C1'" N9 sing N N 58 DA "C1'" "H1'" sing N N 59 DA N9 C8 sing Y N 60 DA N9 C4 sing Y N 61 DA C8 N7 doub Y N 62 DA C8 H8 sing N N 63 DA N7 C5 sing Y N 64 DA C5 C6 sing Y N 65 DA C5 C4 doub Y N 66 DA C6 N6 sing N N 67 DA C6 N1 doub Y N 68 DA N6 H61 sing N N 69 DA N6 H62 sing N N 70 DA N1 C2 sing Y N 71 DA C2 N3 doub Y N 72 DA C2 H2 sing N N 73 DA N3 C4 sing Y N 74 DC OP3 P sing N N 75 DC OP3 HOP3 sing N N 76 DC P OP1 doub N N 77 DC P OP2 sing N N 78 DC P "O5'" sing N N 79 DC OP2 HOP2 sing N N 80 DC "O5'" "C5'" sing N N 81 DC "C5'" "C4'" sing N N 82 DC "C5'" "H5'" sing N N 83 DC "C5'" "H5''" sing N N 84 DC "C4'" "O4'" sing N N 85 DC "C4'" "C3'" sing N N 86 DC "C4'" "H4'" sing N N 87 DC "O4'" "C1'" sing N N 88 DC "C3'" "O3'" sing N N 89 DC "C3'" "C2'" sing N N 90 DC "C3'" "H3'" sing N N 91 DC "O3'" "HO3'" sing N N 92 DC "C2'" "C1'" sing N N 93 DC "C2'" "H2'" sing N N 94 DC "C2'" "H2''" sing N N 95 DC "C1'" N1 sing N N 96 DC "C1'" "H1'" sing N N 97 DC N1 C2 sing N N 98 DC N1 C6 sing N N 99 DC C2 O2 doub N N 100 DC C2 N3 sing N N 101 DC N3 C4 doub N N 102 DC C4 N4 sing N N 103 DC C4 C5 sing N N 104 DC N4 H41 sing N N 105 DC N4 H42 sing N N 106 DC C5 C6 doub N N 107 DC C5 H5 sing N N 108 DC C6 H6 sing N N 109 DG OP3 P sing N N 110 DG OP3 HOP3 sing N N 111 DG P OP1 doub N N 112 DG P OP2 sing N N 113 DG P "O5'" sing N N 114 DG OP2 HOP2 sing N N 115 DG "O5'" "C5'" sing N N 116 DG "C5'" "C4'" sing N N 117 DG "C5'" "H5'" sing N N 118 DG "C5'" "H5''" sing N N 119 DG "C4'" "O4'" sing N N 120 DG "C4'" "C3'" sing N N 121 DG "C4'" "H4'" sing N N 122 DG "O4'" "C1'" sing N N 123 DG "C3'" "O3'" sing N N 124 DG "C3'" "C2'" sing N N 125 DG "C3'" "H3'" sing N N 126 DG "O3'" "HO3'" sing N N 127 DG "C2'" "C1'" sing N N 128 DG "C2'" "H2'" sing N N 129 DG "C2'" "H2''" sing N N 130 DG "C1'" N9 sing N N 131 DG "C1'" "H1'" sing N N 132 DG N9 C8 sing Y N 133 DG N9 C4 sing Y N 134 DG C8 N7 doub Y N 135 DG C8 H8 sing N N 136 DG N7 C5 sing Y N 137 DG C5 C6 sing N N 138 DG C5 C4 doub Y N 139 DG C6 O6 doub N N 140 DG C6 N1 sing N N 141 DG N1 C2 sing N N 142 DG N1 H1 sing N N 143 DG C2 N2 sing N N 144 DG C2 N3 doub N N 145 DG N2 H21 sing N N 146 DG N2 H22 sing N N 147 DG N3 C4 sing N N 148 G OP3 P sing N N 149 G OP3 HOP3 sing N N 150 G P OP1 doub N N 151 G P OP2 sing N N 152 G P "O5'" sing N N 153 G OP2 HOP2 sing N N 154 G "O5'" "C5'" sing N N 155 G "C5'" "C4'" sing N N 156 G "C5'" "H5'" sing N N 157 G "C5'" "H5''" sing N N 158 G "C4'" "O4'" sing N N 159 G "C4'" "C3'" sing N N 160 G "C4'" "H4'" sing N N 161 G "O4'" "C1'" sing N N 162 G "C3'" "O3'" sing N N 163 G "C3'" "C2'" sing N N 164 G "C3'" "H3'" sing N N 165 G "O3'" "HO3'" sing N N 166 G "C2'" "O2'" sing N N 167 G "C2'" "C1'" sing N N 168 G "C2'" "H2'" sing N N 169 G "O2'" "HO2'" sing N N 170 G "C1'" N9 sing N N 171 G "C1'" "H1'" sing N N 172 G N9 C8 sing Y N 173 G N9 C4 sing Y N 174 G C8 N7 doub Y N 175 G C8 H8 sing N N 176 G N7 C5 sing Y N 177 G C5 C6 sing N N 178 G C5 C4 doub Y N 179 G C6 O6 doub N N 180 G C6 N1 sing N N 181 G N1 C2 sing N N 182 G N1 H1 sing N N 183 G C2 N2 sing N N 184 G C2 N3 doub N N 185 G N2 H21 sing N N 186 G N2 H22 sing N N 187 G N3 C4 sing N N 188 HOH O H1 sing N N 189 HOH O H2 sing N N 190 U OP3 P sing N N 191 U OP3 HOP3 sing N N 192 U P OP1 doub N N 193 U P OP2 sing N N 194 U P "O5'" sing N N 195 U OP2 HOP2 sing N N 196 U "O5'" "C5'" sing N N 197 U "C5'" "C4'" sing N N 198 U "C5'" "H5'" sing N N 199 U "C5'" "H5''" sing N N 200 U "C4'" "O4'" sing N N 201 U "C4'" "C3'" sing N N 202 U "C4'" "H4'" sing N N 203 U "O4'" "C1'" sing N N 204 U "C3'" "O3'" sing N N 205 U "C3'" "C2'" sing N N 206 U "C3'" "H3'" sing N N 207 U "O3'" "HO3'" sing N N 208 U "C2'" "O2'" sing N N 209 U "C2'" "C1'" sing N N 210 U "C2'" "H2'" sing N N 211 U "O2'" "HO2'" sing N N 212 U "C1'" N1 sing N N 213 U "C1'" "H1'" sing N N 214 U N1 C2 sing N N 215 U N1 C6 sing N N 216 U C2 O2 doub N N 217 U C2 N3 sing N N 218 U N3 C4 sing N N 219 U N3 H3 sing N N 220 U C4 O4 doub N N 221 U C4 C5 sing N N 222 U C5 C6 doub N N 223 U C5 H5 sing N N 224 U C6 H6 sing N N 225 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1FIX 'double helix' 1FIX '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 10 1_555 0.212 -0.284 -0.128 -0.816 -18.085 -1.761 1 A_U1:DA20_B A 1 ? B 20 ? 20 1 1 A U 2 1_555 B DA 9 1_555 -0.163 -0.188 -0.379 5.424 -19.443 3.450 2 A_U2:DA19_B A 2 ? B 19 ? 20 1 1 A C 3 1_555 B DG 8 1_555 0.132 -0.257 0.319 -6.727 -16.172 -3.063 3 A_C3:DG18_B A 3 ? B 18 ? 19 1 1 A G 4 1_555 B DC 7 1_555 -0.539 -0.153 -0.005 -8.560 -17.579 3.867 4 A_G4:DC17_B A 4 ? B 17 ? 19 1 1 A G 5 1_555 B DC 6 1_555 -0.573 -0.349 -0.335 -17.608 -11.474 -3.315 5 A_G5:DC16_B A 5 ? B 16 ? 19 1 1 A G 6 1_555 B DC 5 1_555 -0.511 -0.325 -0.249 -9.687 -14.621 -2.135 6 A_G6:DC15_B A 6 ? B 15 ? 19 1 1 A C 7 1_555 B DG 4 1_555 0.168 -0.172 0.136 -3.795 -8.436 2.779 7 A_C7:DG14_B A 7 ? B 14 ? 19 1 1 A G 8 1_555 B DC 3 1_555 -0.396 -0.137 -0.156 -9.449 -11.290 2.093 8 A_G8:DC13_B A 8 ? B 13 ? 19 1 1 A C 9 1_555 B DG 2 1_555 0.144 -0.289 -0.134 0.781 -10.375 2.972 9 A_C9:DG12_B A 9 ? B 12 ? 19 1 1 A C 10 1_555 B DG 1 1_555 0.078 -0.318 0.025 2.086 7.245 -0.960 10 A_C10:DG11_B A 10 ? B 11 ? 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 10 1_555 A U 2 1_555 B DA 9 1_555 0.308 -0.472 2.994 3.842 9.291 33.521 -2.054 0.012 2.786 15.675 -6.483 34.955 1 AA_U1U2:DA19DA20_BB A 1 ? B 20 ? A 2 ? B 19 ? 1 A U 2 1_555 B DA 9 1_555 A C 3 1_555 B DG 8 1_555 0.413 -0.770 3.737 -6.209 7.182 36.041 -2.267 -1.564 3.411 11.366 9.827 37.230 2 AA_U2C3:DG18DA19_BB A 2 ? B 19 ? A 3 ? B 18 ? 1 A C 3 1_555 B DG 8 1_555 A G 4 1_555 B DC 7 1_555 0.472 -1.853 3.149 1.751 9.702 27.244 -5.583 -0.606 2.386 19.793 -3.572 28.942 3 AA_C3G4:DC17DG18_BB A 3 ? B 18 ? A 4 ? B 17 ? 1 A G 4 1_555 B DC 7 1_555 A G 5 1_555 B DC 6 1_555 -1.187 -1.541 3.450 -0.851 11.580 33.619 -4.195 1.823 2.811 19.319 1.419 35.513 4 AA_G4G5:DC16DC17_BB A 4 ? B 17 ? A 5 ? B 16 ? 1 A G 5 1_555 B DC 6 1_555 A G 6 1_555 B DC 5 1_555 1.034 -1.824 3.255 2.672 12.445 26.336 -6.028 -1.534 2.271 25.506 -5.477 29.202 5 AA_G5G6:DC15DC16_BB A 5 ? B 16 ? A 6 ? B 15 ? 1 A G 6 1_555 B DC 5 1_555 A C 7 1_555 B DG 4 1_555 0.407 -1.221 3.144 -1.844 5.997 35.049 -2.808 -0.915 2.878 9.859 3.032 35.588 6 AA_G6C7:DG14DC15_BB A 6 ? B 15 ? A 7 ? B 14 ? 1 A C 7 1_555 B DG 4 1_555 A G 8 1_555 B DC 3 1_555 0.403 -1.691 3.392 4.154 7.888 27.966 -5.003 0.080 2.848 15.820 -8.331 29.325 7 AA_C7G8:DC13DG14_BB A 7 ? B 14 ? A 8 ? B 13 ? 1 A G 8 1_555 B DC 3 1_555 A C 9 1_555 B DG 2 1_555 0.123 -1.066 3.113 1.113 2.741 34.294 -2.203 -0.045 3.024 4.638 -1.883 34.417 8 AA_G8C9:DG12DC13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A C 9 1_555 B DG 2 1_555 A C 10 1_555 B DG 1 1_555 -0.108 -1.679 3.476 0.603 4.837 31.931 -3.898 0.305 3.192 8.729 -1.089 32.291 9 AA_C9C10:DG11DG12_BB A 9 ? B 12 ? A 10 ? B 11 ? # _pdbx_initial_refinement_model.accession_code ? _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'in silico model' _pdbx_initial_refinement_model.source_name Other _pdbx_initial_refinement_model.details 'A-form RNA/DNA duplex' # _atom_sites.entry_id 1FIX _atom_sites.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 0.031949 _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] 0.031949 _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] 0.007262 _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 N O P # loop_