data_398D # _entry.id 398D # _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 398D pdb_0000398d 10.2210/pdb398d/pdb RCSB AHH0114 ? ? WWPDB D_1000178862 ? ? # 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 1998-10-06 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-21 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 4 'Structure model' diffrn_source 5 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' 3 4 'Structure model' '_diffrn_source.pdbx_synchrotron_site' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 398D _pdbx_database_status.recvd_initial_deposition_date 1998-05-04 _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 'Mueller, U.' 1 'Meier, G.' 2 'Mochi-Onori, A.' 3 'Cellai, L.' 4 'Heumann, H.' 5 # _citation.id primary _citation.title ;Crystal structure of an eight-base pair duplex containing the 3'-DNA-RNA-5' junction formed during initiation of minus-strand synthesis of HIV replication. ; _citation.journal_abbrev Biochemistry _citation.journal_volume 37 _citation.page_first 12005 _citation.page_last 12011 _citation.year 1998 _citation.journal_id_ASTM BICHAW _citation.country US _citation.journal_id_ISSN 0006-2960 _citation.journal_id_CSD 0033 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 9724510 _citation.pdbx_database_id_DOI 10.1021/bi981152y # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Mueller, U.' 1 ? primary 'Maier, G.' 2 ? primary 'Mochi Onori, A.' 3 ? primary 'Cellai, L.' 4 ? primary 'Heumann, H.' 5 ? primary 'Heinemann, U.' 6 ? # 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(*GP*CP*AP*GP*UP*GP*GP*C)-3') ; 2581.601 2 ? ? ? ? 2 polymer syn ;DNA/RNA (5'-R(*GP*CP*CP*AP)-D(*CP*TP*GP*C)-3') ; 2451.580 2 ? ? ? ? 3 water nat water 18.015 84 ? ? ? ? # 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 GCAGUGGC GCAGUGGC A,C ? 2 'polydeoxyribonucleotide/polyribonucleotide hybrid' no no 'GCCA(DC)(DT)(DG)(DC)' GCCACTGC B,D ? # _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 G n 1 2 C n 1 3 A n 1 4 G n 1 5 U n 1 6 G n 1 7 G n 1 8 C n 2 1 G n 2 2 C n 2 3 C n 2 4 A n 2 5 DC n 2 6 DT n 2 7 DG n 2 8 DC 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 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 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 G 1 1 1 G G A . n A 1 2 C 2 2 2 C C A . n A 1 3 A 3 3 3 A A A . n A 1 4 G 4 4 4 G G A . n A 1 5 U 5 5 5 U U A . n A 1 6 G 6 6 6 G G A . n A 1 7 G 7 7 7 G G A . n A 1 8 C 8 8 8 C C A . n B 2 1 G 1 9 9 G G B . n B 2 2 C 2 10 10 C C B . n B 2 3 C 3 11 11 C C B . n B 2 4 A 4 12 12 A A B . n B 2 5 DC 5 13 13 DC C B . n B 2 6 DT 6 14 14 DT T B . n B 2 7 DG 7 15 15 DG G B . n B 2 8 DC 8 16 16 DC C B . n C 1 1 G 1 17 17 G G C . n C 1 2 C 2 18 18 C C C . n C 1 3 A 3 19 19 A A C . n C 1 4 G 4 20 20 G G C . n C 1 5 U 5 21 21 U U C . n C 1 6 G 6 22 22 G G C . n C 1 7 G 7 23 23 G G C . n C 1 8 C 8 24 24 C C C . n D 2 1 G 1 25 25 G G D . n D 2 2 C 2 26 26 C C D . n D 2 3 C 3 27 27 C C D . n D 2 4 A 4 28 28 A A D . n D 2 5 DC 5 29 29 DC C D . n D 2 6 DT 6 30 30 DT T D . n D 2 7 DG 7 31 31 DG G D . n D 2 8 DC 8 32 32 DC C D . 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 E 3 HOH 1 16 16 HOH HOH A . E 3 HOH 2 18 18 HOH HOH A . E 3 HOH 3 19 19 HOH HOH A . E 3 HOH 4 27 27 HOH HOH A . E 3 HOH 5 35 35 HOH HOH A . E 3 HOH 6 37 37 HOH HOH A . E 3 HOH 7 39 39 HOH HOH A . E 3 HOH 8 40 40 HOH HOH A . E 3 HOH 9 42 42 HOH HOH A . E 3 HOH 10 55 55 HOH HOH A . E 3 HOH 11 56 56 HOH HOH A . E 3 HOH 12 59 59 HOH HOH A . E 3 HOH 13 64 64 HOH HOH A . E 3 HOH 14 69 69 HOH HOH A . E 3 HOH 15 72 72 HOH HOH A . E 3 HOH 16 75 75 HOH HOH A . E 3 HOH 17 76 76 HOH HOH A . E 3 HOH 18 77 77 HOH HOH A . E 3 HOH 19 79 79 HOH HOH A . F 3 HOH 1 17 6 HOH HOH B . F 3 HOH 2 18 10 HOH HOH B . F 3 HOH 3 19 15 HOH HOH B . F 3 HOH 4 20 20 HOH HOH B . F 3 HOH 5 21 31 HOH HOH B . F 3 HOH 6 22 36 HOH HOH B . F 3 HOH 7 23 38 HOH HOH B . F 3 HOH 8 24 45 HOH HOH B . F 3 HOH 9 25 48 HOH HOH B . F 3 HOH 10 26 49 HOH HOH B . F 3 HOH 11 27 57 HOH HOH B . F 3 HOH 12 28 58 HOH HOH B . F 3 HOH 13 29 60 HOH HOH B . F 3 HOH 14 30 61 HOH HOH B . F 3 HOH 15 31 63 HOH HOH B . F 3 HOH 16 32 71 HOH HOH B . F 3 HOH 17 33 73 HOH HOH B . F 3 HOH 18 34 78 HOH HOH B . F 3 HOH 19 35 80 HOH HOH B . F 3 HOH 20 36 82 HOH HOH B . F 3 HOH 21 37 84 HOH HOH B . G 3 HOH 1 25 5 HOH HOH C . G 3 HOH 2 26 9 HOH HOH C . G 3 HOH 3 27 11 HOH HOH C . G 3 HOH 4 28 22 HOH HOH C . G 3 HOH 5 29 23 HOH HOH C . G 3 HOH 6 30 25 HOH HOH C . G 3 HOH 7 31 26 HOH HOH C . G 3 HOH 8 32 28 HOH HOH C . G 3 HOH 9 33 41 HOH HOH C . G 3 HOH 10 34 43 HOH HOH C . G 3 HOH 11 35 46 HOH HOH C . G 3 HOH 12 36 50 HOH HOH C . G 3 HOH 13 37 51 HOH HOH C . G 3 HOH 14 38 52 HOH HOH C . G 3 HOH 15 39 54 HOH HOH C . G 3 HOH 16 40 67 HOH HOH C . G 3 HOH 17 41 68 HOH HOH C . G 3 HOH 18 42 70 HOH HOH C . G 3 HOH 19 43 83 HOH HOH C . H 3 HOH 1 33 1 HOH HOH D . H 3 HOH 2 34 2 HOH HOH D . H 3 HOH 3 35 3 HOH HOH D . H 3 HOH 4 36 4 HOH HOH D . H 3 HOH 5 37 7 HOH HOH D . H 3 HOH 6 38 8 HOH HOH D . H 3 HOH 7 39 12 HOH HOH D . H 3 HOH 8 40 13 HOH HOH D . H 3 HOH 9 41 14 HOH HOH D . H 3 HOH 10 42 17 HOH HOH D . H 3 HOH 11 43 21 HOH HOH D . H 3 HOH 12 44 24 HOH HOH D . H 3 HOH 13 45 29 HOH HOH D . H 3 HOH 14 46 30 HOH HOH D . H 3 HOH 15 47 32 HOH HOH D . H 3 HOH 16 48 33 HOH HOH D . H 3 HOH 17 49 34 HOH HOH D . H 3 HOH 18 50 44 HOH HOH D . H 3 HOH 19 51 47 HOH HOH D . H 3 HOH 20 52 53 HOH HOH D . H 3 HOH 21 53 62 HOH HOH D . H 3 HOH 22 54 65 HOH HOH D . H 3 HOH 23 55 66 HOH HOH D . H 3 HOH 24 56 74 HOH HOH D . H 3 HOH 25 57 81 HOH HOH D . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal AMoRE phasing . ? 1 X-PLOR refinement . ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 # _cell.entry_id 398D _cell.length_a 42.740 _cell.length_b 44.150 _cell.length_c 51.930 _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 398D _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? # _exptl.entry_id 398D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 2 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 49.46 _exptl_crystal.density_Matthews 2.43 _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 ? _exptl_crystal_grow.pH 7.00 _exptl_crystal_grow.pdbx_details 'pH 7.00, 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 KCL ? ? ? 1 3 1 SPERMINE ? ? ? 1 4 1 'SODIUM CACODYLATE' ? ? ? 1 5 1 MPD ? ? ? 1 6 2 WATER ? ? ? 1 7 2 MPD ? ? ? # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 100.00 ? 1 2 100.00 ? 1 # loop_ _diffrn_detector.diffrn_id _diffrn_detector.detector _diffrn_detector.type _diffrn_detector.pdbx_collection_date _diffrn_detector.details 1 'IMAGE PLATE' MARRESEARCH 1997-11-28 ? 2 'IMAGE PLATE' MARRESEARCH 1997-11-28 ? # loop_ _diffrn_radiation.diffrn_id _diffrn_radiation.wavelength_id _diffrn_radiation.pdbx_monochromatic_or_laue_m_l _diffrn_radiation.monochromator _diffrn_radiation.pdbx_diffrn_protocol _diffrn_radiation.pdbx_scattering_type 1 1 ? ? ? x-ray 2 2 ? ? ? x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 . 1.0 2 . 1.0 # loop_ _diffrn_source.diffrn_id _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 1 SYNCHROTRON 'EMBL/DESY, HAMBURG BEAMLINE BW7A' 'EMBL/DESY, HAMBURG' BW7A ? ? 2 SYNCHROTRON 'EMBL/DESY, HAMBURG BEAMLINE X31' 'EMBL/DESY, HAMBURG' X31 ? ? # _reflns.entry_id 398D _reflns.observed_criterion_sigma_I 0.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 15.000 _reflns.d_resolution_high 1.940 _reflns.number_obs 7612 _reflns.number_all ? _reflns.percent_possible_obs 99.200 _reflns.pdbx_Rmerge_I_obs 0.0750000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 7.4 _reflns.B_iso_Wilson_estimate 24.44 _reflns.pdbx_redundancy 3.700 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1,2 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.94 _reflns_shell.d_res_low 2.04 _reflns_shell.percent_possible_all 93.1 _reflns_shell.Rmerge_I_obs 0.4160000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.2 _reflns_shell.pdbx_redundancy 3.0 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 398D _refine.ls_number_reflns_obs 7566 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 15.000 _refine.ls_d_res_high 1.940 _refine.ls_percent_reflns_obs 99.200 _refine.ls_R_factor_obs 0.2200000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2200000 _refine.ls_R_factor_R_free 0.2910000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.000 _refine.ls_number_reflns_R_free 405 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean 24.01 _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 'RANDOM IN THIN SHELLS' _refine.details ? _refine.pdbx_starting_model 'CANONICAL A-RNA MODEL OF IDENTICAL SIZE AND SEQUENCE' _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details 'RANDOM IN THIN SHELLS' _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 666 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 84 _refine_hist.number_atoms_total 750 _refine_hist.d_res_high 1.940 _refine_hist.d_res_low 15.000 # 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 0.012 ? ? ? '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 1.701 ? ? ? '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 1.94 _refine_ls_shell.d_res_low 2.03 _refine_ls_shell.number_reflns_R_work 823 _refine_ls_shell.R_factor_R_work 0.3030000 _refine_ls_shell.percent_reflns_obs ? _refine_ls_shell.R_factor_R_free 0.3980000 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free 5.0 _refine_ls_shell.number_reflns_R_free 54 _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 ? # _pdbx_xplor_file.serial_no 1 _pdbx_xplor_file.param_file DNA-RNA-MULTI-ENDO.PARAM _pdbx_xplor_file.topol_file DNA-RNA-MULTI-ENDO.TOP _pdbx_xplor_file.pdbx_refine_id 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 398D _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 398D _struct.title ;3'-DNA-RNA-5' JUNCTION FORMED DURING INITIATION OF MINUS-STRAND SYNTHESIS OF HIV REPLICATION ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 398D _struct_keywords.pdbx_keywords 'DNA-RNA HYBRID' _struct_keywords.text 'A-DNA/RNA, DOUBLE HELIX, 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 1 ? D N N 2 ? E N N 3 ? F N N 3 ? G N N 3 ? H 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 398D 398D ? ? ? 2 2 PDB 398D 398D ? ? ? # 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 398D A 1 ? 8 ? 398D 1 ? 8 ? 1 8 2 2 398D B 1 ? 8 ? 398D 9 ? 16 ? 9 16 3 1 398D C 1 ? 8 ? 398D 17 ? 24 ? 17 24 4 2 398D D 1 ? 8 ? 398D 25 ? 32 ? 25 32 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_defined_assembly ? dimeric 2 2 author_defined_assembly ? dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,E,F 2 1 C,D,G,H # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _struct_biol.id _struct_biol.details 1 ? 2 ? # 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 G 1 N1 ? ? ? 1_555 B DC 8 N3 ? ? A G 1 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B DC 8 O2 ? ? A G 1 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B DC 8 N4 ? ? A G 1 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 2 N3 ? ? ? 1_555 B DG 7 N1 ? ? A C 2 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 2 N4 ? ? ? 1_555 B DG 7 O6 ? ? A C 2 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 2 O2 ? ? ? 1_555 B DG 7 N2 ? ? A C 2 B DG 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 3 N1 ? ? ? 1_555 B DT 6 N3 ? ? A A 3 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 3 N6 ? ? ? 1_555 B DT 6 O4 ? ? A A 3 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N1 ? ? ? 1_555 B DC 5 N3 ? ? A G 4 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 B DC 5 O2 ? ? A G 4 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 B DC 5 N4 ? ? A G 4 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A U 5 N3 ? ? ? 1_555 B A 4 N1 ? ? A U 5 B A 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A U 5 O4 ? ? ? 1_555 B A 4 N6 ? ? A U 5 B A 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 6 N1 ? ? ? 1_555 B C 3 N3 ? ? A G 6 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 6 N2 ? ? ? 1_555 B C 3 O2 ? ? A G 6 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 6 O6 ? ? ? 1_555 B C 3 N4 ? ? A G 6 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 7 N1 ? ? ? 1_555 B C 2 N3 ? ? A G 7 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 7 N2 ? ? ? 1_555 B C 2 O2 ? ? A G 7 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 7 O6 ? ? ? 1_555 B C 2 N4 ? ? A G 7 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 8 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 8 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 8 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 8 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 8 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 8 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? C G 1 N1 ? ? ? 1_555 D DC 8 N3 ? ? C G 17 D DC 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? C G 1 N2 ? ? ? 1_555 D DC 8 O2 ? ? C G 17 D DC 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? C G 1 O6 ? ? ? 1_555 D DC 8 N4 ? ? C G 17 D DC 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? C C 2 N3 ? ? ? 1_555 D DG 7 N1 ? ? C C 18 D DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C C 2 N4 ? ? ? 1_555 D DG 7 O6 ? ? C C 18 D DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C C 2 O2 ? ? ? 1_555 D DG 7 N2 ? ? C C 18 D DG 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? C A 3 N1 ? ? ? 1_555 D DT 6 N3 ? ? C A 19 D DT 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? C A 3 N6 ? ? ? 1_555 D DT 6 O4 ? ? C A 19 D DT 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? C G 4 N1 ? ? ? 1_555 D DC 5 N3 ? ? C G 20 D DC 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? C G 4 N2 ? ? ? 1_555 D DC 5 O2 ? ? C G 20 D DC 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? C G 4 O6 ? ? ? 1_555 D DC 5 N4 ? ? C G 20 D DC 29 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? C U 5 N3 ? ? ? 1_555 D A 4 N1 ? ? C U 21 D A 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? C U 5 O4 ? ? ? 1_555 D A 4 N6 ? ? C U 21 D A 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? C G 6 N1 ? ? ? 1_555 D C 3 N3 ? ? C G 22 D C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? C G 6 N2 ? ? ? 1_555 D C 3 O2 ? ? C G 22 D C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? C G 6 O6 ? ? ? 1_555 D C 3 N4 ? ? C G 22 D C 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? C G 7 N1 ? ? ? 1_555 D C 2 N3 ? ? C G 23 D C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? C G 7 N2 ? ? ? 1_555 D C 2 O2 ? ? C G 23 D C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? C G 7 O6 ? ? ? 1_555 D C 2 N4 ? ? C G 23 D C 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? C C 8 N3 ? ? ? 1_555 D G 1 N1 ? ? C C 24 D G 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C C 8 N4 ? ? ? 1_555 D G 1 O6 ? ? C C 24 D G 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? C C 8 O2 ? ? ? 1_555 D G 1 N2 ? ? C C 24 D G 25 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 N9 _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 G _pdbx_validate_rmsd_angle.auth_seq_id_1 7 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 "C1'" _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 G _pdbx_validate_rmsd_angle.auth_seq_id_2 7 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 "C2'" _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 G _pdbx_validate_rmsd_angle.auth_seq_id_3 7 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 104.88 _pdbx_validate_rmsd_angle.angle_target_value 112.00 _pdbx_validate_rmsd_angle.angle_deviation -7.12 _pdbx_validate_rmsd_angle.angle_standard_deviation 1.10 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal 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 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 DC OP3 O N N 73 DC P P N N 74 DC OP1 O N N 75 DC OP2 O N N 76 DC "O5'" O N N 77 DC "C5'" C N N 78 DC "C4'" C N R 79 DC "O4'" O N N 80 DC "C3'" C N S 81 DC "O3'" O N N 82 DC "C2'" C N N 83 DC "C1'" C N R 84 DC N1 N N N 85 DC C2 C N N 86 DC O2 O N N 87 DC N3 N N N 88 DC C4 C N N 89 DC N4 N N N 90 DC C5 C N N 91 DC C6 C N N 92 DC HOP3 H N N 93 DC HOP2 H N N 94 DC "H5'" H N N 95 DC "H5''" H N N 96 DC "H4'" H N N 97 DC "H3'" H N N 98 DC "HO3'" H N N 99 DC "H2'" H N N 100 DC "H2''" H N N 101 DC "H1'" H N N 102 DC H41 H N N 103 DC H42 H N N 104 DC H5 H N N 105 DC H6 H N N 106 DG OP3 O N N 107 DG P P N N 108 DG OP1 O N N 109 DG OP2 O N N 110 DG "O5'" O N N 111 DG "C5'" C N N 112 DG "C4'" C N R 113 DG "O4'" O N N 114 DG "C3'" C N S 115 DG "O3'" O N N 116 DG "C2'" C N N 117 DG "C1'" C N R 118 DG N9 N Y N 119 DG C8 C Y N 120 DG N7 N Y N 121 DG C5 C Y N 122 DG C6 C N N 123 DG O6 O N N 124 DG N1 N N N 125 DG C2 C N N 126 DG N2 N N N 127 DG N3 N N N 128 DG C4 C Y N 129 DG HOP3 H N N 130 DG HOP2 H N N 131 DG "H5'" H N N 132 DG "H5''" H N N 133 DG "H4'" H N N 134 DG "H3'" H N N 135 DG "HO3'" H N N 136 DG "H2'" H N N 137 DG "H2''" H N N 138 DG "H1'" H N N 139 DG H8 H N N 140 DG H1 H N N 141 DG H21 H N N 142 DG H22 H N N 143 DT OP3 O N N 144 DT P P N N 145 DT OP1 O N N 146 DT OP2 O N N 147 DT "O5'" O N N 148 DT "C5'" C N N 149 DT "C4'" C N R 150 DT "O4'" O N N 151 DT "C3'" C N S 152 DT "O3'" O N N 153 DT "C2'" C N N 154 DT "C1'" C N R 155 DT N1 N N N 156 DT C2 C N N 157 DT O2 O N N 158 DT N3 N N N 159 DT C4 C N N 160 DT O4 O N N 161 DT C5 C N N 162 DT C7 C N N 163 DT C6 C N N 164 DT HOP3 H N N 165 DT HOP2 H N N 166 DT "H5'" H N N 167 DT "H5''" H N N 168 DT "H4'" H N N 169 DT "H3'" H N N 170 DT "HO3'" H N N 171 DT "H2'" H N N 172 DT "H2''" H N N 173 DT "H1'" H N N 174 DT H3 H N N 175 DT H71 H N N 176 DT H72 H N N 177 DT H73 H N N 178 DT H6 H N N 179 G OP3 O N N 180 G P P N N 181 G OP1 O N N 182 G OP2 O N N 183 G "O5'" O N N 184 G "C5'" C N N 185 G "C4'" C N R 186 G "O4'" O N N 187 G "C3'" C N S 188 G "O3'" O N N 189 G "C2'" C N R 190 G "O2'" O N N 191 G "C1'" C N R 192 G N9 N Y N 193 G C8 C Y N 194 G N7 N Y N 195 G C5 C Y N 196 G C6 C N N 197 G O6 O N N 198 G N1 N N N 199 G C2 C N N 200 G N2 N N N 201 G N3 N N N 202 G C4 C Y N 203 G HOP3 H N N 204 G HOP2 H N N 205 G "H5'" H N N 206 G "H5''" H N N 207 G "H4'" H N N 208 G "H3'" H N N 209 G "HO3'" H N N 210 G "H2'" H N N 211 G "HO2'" H N N 212 G "H1'" H N N 213 G H8 H N N 214 G H1 H N N 215 G H21 H N N 216 G H22 H N N 217 HOH O O N N 218 HOH H1 H N N 219 HOH H2 H N N 220 U OP3 O N N 221 U P P N N 222 U OP1 O N N 223 U OP2 O N N 224 U "O5'" O N N 225 U "C5'" C N N 226 U "C4'" C N R 227 U "O4'" O N N 228 U "C3'" C N S 229 U "O3'" O N N 230 U "C2'" C N R 231 U "O2'" O N N 232 U "C1'" C N R 233 U N1 N N N 234 U C2 C N N 235 U O2 O N N 236 U N3 N N N 237 U C4 C N N 238 U O4 O N N 239 U C5 C N N 240 U C6 C N N 241 U HOP3 H N N 242 U HOP2 H N N 243 U "H5'" H N N 244 U "H5''" H N N 245 U "H4'" H N N 246 U "H3'" H N N 247 U "HO3'" H N N 248 U "H2'" H N N 249 U "HO2'" H N N 250 U "H1'" H N N 251 U H3 H N N 252 U H5 H N N 253 U H6 H N N 254 # 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 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 DC OP3 P sing N N 76 DC OP3 HOP3 sing N N 77 DC P OP1 doub N N 78 DC P OP2 sing N N 79 DC P "O5'" sing N N 80 DC OP2 HOP2 sing N N 81 DC "O5'" "C5'" sing N N 82 DC "C5'" "C4'" sing N N 83 DC "C5'" "H5'" sing N N 84 DC "C5'" "H5''" sing N N 85 DC "C4'" "O4'" sing N N 86 DC "C4'" "C3'" sing N N 87 DC "C4'" "H4'" sing N N 88 DC "O4'" "C1'" sing N N 89 DC "C3'" "O3'" sing N N 90 DC "C3'" "C2'" sing N N 91 DC "C3'" "H3'" sing N N 92 DC "O3'" "HO3'" sing N N 93 DC "C2'" "C1'" sing N N 94 DC "C2'" "H2'" sing N N 95 DC "C2'" "H2''" sing N N 96 DC "C1'" N1 sing N N 97 DC "C1'" "H1'" sing N N 98 DC N1 C2 sing N N 99 DC N1 C6 sing N N 100 DC C2 O2 doub N N 101 DC C2 N3 sing N N 102 DC N3 C4 doub N N 103 DC C4 N4 sing N N 104 DC C4 C5 sing N N 105 DC N4 H41 sing N N 106 DC N4 H42 sing N N 107 DC C5 C6 doub N N 108 DC C5 H5 sing N N 109 DC C6 H6 sing N N 110 DG OP3 P sing N N 111 DG OP3 HOP3 sing N N 112 DG P OP1 doub N N 113 DG P OP2 sing N N 114 DG P "O5'" sing N N 115 DG OP2 HOP2 sing N N 116 DG "O5'" "C5'" sing N N 117 DG "C5'" "C4'" sing N N 118 DG "C5'" "H5'" sing N N 119 DG "C5'" "H5''" sing N N 120 DG "C4'" "O4'" sing N N 121 DG "C4'" "C3'" sing N N 122 DG "C4'" "H4'" sing N N 123 DG "O4'" "C1'" sing N N 124 DG "C3'" "O3'" sing N N 125 DG "C3'" "C2'" sing N N 126 DG "C3'" "H3'" sing N N 127 DG "O3'" "HO3'" sing N N 128 DG "C2'" "C1'" sing N N 129 DG "C2'" "H2'" sing N N 130 DG "C2'" "H2''" sing N N 131 DG "C1'" N9 sing N N 132 DG "C1'" "H1'" sing N N 133 DG N9 C8 sing Y N 134 DG N9 C4 sing Y N 135 DG C8 N7 doub Y N 136 DG C8 H8 sing N N 137 DG N7 C5 sing Y N 138 DG C5 C6 sing N N 139 DG C5 C4 doub Y N 140 DG C6 O6 doub N N 141 DG C6 N1 sing N N 142 DG N1 C2 sing N N 143 DG N1 H1 sing N N 144 DG C2 N2 sing N N 145 DG C2 N3 doub N N 146 DG N2 H21 sing N N 147 DG N2 H22 sing N N 148 DG N3 C4 sing N N 149 DT OP3 P sing N N 150 DT OP3 HOP3 sing N N 151 DT P OP1 doub N N 152 DT P OP2 sing N N 153 DT P "O5'" sing N N 154 DT OP2 HOP2 sing N N 155 DT "O5'" "C5'" sing N N 156 DT "C5'" "C4'" sing N N 157 DT "C5'" "H5'" sing N N 158 DT "C5'" "H5''" sing N N 159 DT "C4'" "O4'" sing N N 160 DT "C4'" "C3'" sing N N 161 DT "C4'" "H4'" sing N N 162 DT "O4'" "C1'" sing N N 163 DT "C3'" "O3'" sing N N 164 DT "C3'" "C2'" sing N N 165 DT "C3'" "H3'" sing N N 166 DT "O3'" "HO3'" sing N N 167 DT "C2'" "C1'" sing N N 168 DT "C2'" "H2'" sing N N 169 DT "C2'" "H2''" sing N N 170 DT "C1'" N1 sing N N 171 DT "C1'" "H1'" sing N N 172 DT N1 C2 sing N N 173 DT N1 C6 sing N N 174 DT C2 O2 doub N N 175 DT C2 N3 sing N N 176 DT N3 C4 sing N N 177 DT N3 H3 sing N N 178 DT C4 O4 doub N N 179 DT C4 C5 sing N N 180 DT C5 C7 sing N N 181 DT C5 C6 doub N N 182 DT C7 H71 sing N N 183 DT C7 H72 sing N N 184 DT C7 H73 sing N N 185 DT C6 H6 sing N N 186 G OP3 P sing N N 187 G OP3 HOP3 sing N N 188 G P OP1 doub N N 189 G P OP2 sing N N 190 G P "O5'" sing N N 191 G OP2 HOP2 sing N N 192 G "O5'" "C5'" sing N N 193 G "C5'" "C4'" sing N N 194 G "C5'" "H5'" sing N N 195 G "C5'" "H5''" sing N N 196 G "C4'" "O4'" sing N N 197 G "C4'" "C3'" sing N N 198 G "C4'" "H4'" sing N N 199 G "O4'" "C1'" sing N N 200 G "C3'" "O3'" sing N N 201 G "C3'" "C2'" sing N N 202 G "C3'" "H3'" sing N N 203 G "O3'" "HO3'" sing N N 204 G "C2'" "O2'" sing N N 205 G "C2'" "C1'" sing N N 206 G "C2'" "H2'" sing N N 207 G "O2'" "HO2'" sing N N 208 G "C1'" N9 sing N N 209 G "C1'" "H1'" sing N N 210 G N9 C8 sing Y N 211 G N9 C4 sing Y N 212 G C8 N7 doub Y N 213 G C8 H8 sing N N 214 G N7 C5 sing Y N 215 G C5 C6 sing N N 216 G C5 C4 doub Y N 217 G C6 O6 doub N N 218 G C6 N1 sing N N 219 G N1 C2 sing N N 220 G N1 H1 sing N N 221 G C2 N2 sing N N 222 G C2 N3 doub N N 223 G N2 H21 sing N N 224 G N2 H22 sing N N 225 G N3 C4 sing N N 226 HOH O H1 sing N N 227 HOH O H2 sing N N 228 U OP3 P sing N N 229 U OP3 HOP3 sing N N 230 U P OP1 doub N N 231 U P OP2 sing N N 232 U P "O5'" sing N N 233 U OP2 HOP2 sing N N 234 U "O5'" "C5'" sing N N 235 U "C5'" "C4'" sing N N 236 U "C5'" "H5'" sing N N 237 U "C5'" "H5''" sing N N 238 U "C4'" "O4'" sing N N 239 U "C4'" "C3'" sing N N 240 U "C4'" "H4'" sing N N 241 U "O4'" "C1'" sing N N 242 U "C3'" "O3'" sing N N 243 U "C3'" "C2'" sing N N 244 U "C3'" "H3'" sing N N 245 U "O3'" "HO3'" sing N N 246 U "C2'" "O2'" sing N N 247 U "C2'" "C1'" sing N N 248 U "C2'" "H2'" sing N N 249 U "O2'" "HO2'" sing N N 250 U "C1'" N1 sing N N 251 U "C1'" "H1'" sing N N 252 U N1 C2 sing N N 253 U N1 C6 sing N N 254 U C2 O2 doub N N 255 U C2 N3 sing N N 256 U N3 C4 sing N N 257 U N3 H3 sing N N 258 U C4 O4 doub N N 259 U C4 C5 sing N N 260 U C5 C6 doub N N 261 U C5 H5 sing N N 262 U C6 H6 sing N N 263 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 398D 'double helix' 398D '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 G 1 1_555 B DC 8 1_555 -0.190 -0.135 0.077 -9.227 -14.536 -2.360 1 A_G1:DC16_B A 1 ? B 16 ? 19 1 1 A C 2 1_555 B DG 7 1_555 0.154 -0.109 0.302 -7.677 -6.041 0.574 2 A_C2:DG15_B A 2 ? B 15 ? 19 1 1 A A 3 1_555 B DT 6 1_555 -0.004 -0.142 0.246 3.235 -13.488 2.465 3 A_A3:DT14_B A 3 ? B 14 ? 20 1 1 A G 4 1_555 B DC 5 1_555 -0.102 -0.229 0.068 -3.767 -12.224 -1.474 4 A_G4:DC13_B A 4 ? B 13 ? 19 1 1 A U 5 1_555 B A 4 1_555 0.081 -0.165 0.041 -1.937 -9.802 -2.366 5 A_U5:A12_B A 5 ? B 12 ? 20 1 1 A G 6 1_555 B C 3 1_555 -0.175 -0.191 0.002 -3.228 -11.686 -0.406 6 A_G6:C11_B A 6 ? B 11 ? 19 1 1 A G 7 1_555 B C 2 1_555 -0.344 -0.139 0.066 -10.142 -13.005 -0.954 7 A_G7:C10_B A 7 ? B 10 ? 19 1 1 A C 8 1_555 B G 1 1_555 0.137 -0.158 0.222 -7.286 -6.042 0.405 8 A_C8:G9_B A 8 ? B 9 ? 19 1 1 C G 1 1_555 D DC 8 1_555 -0.403 -0.146 0.133 -10.643 -0.607 0.081 9 C_G17:DC32_D C 17 ? D 32 ? 19 1 1 C C 2 1_555 D DG 7 1_555 0.200 -0.154 -0.058 -7.336 -13.732 0.291 10 C_C18:DG31_D C 18 ? D 31 ? 19 1 1 C A 3 1_555 D DT 6 1_555 -0.031 -0.161 -0.011 -4.523 -12.509 -0.971 11 C_A19:DT30_D C 19 ? D 30 ? 20 1 1 C G 4 1_555 D DC 5 1_555 -0.263 -0.144 0.150 -0.577 -12.200 -0.098 12 C_G20:DC29_D C 20 ? D 29 ? 19 1 1 C U 5 1_555 D A 4 1_555 0.137 -0.094 0.423 -2.933 -14.459 7.485 13 C_U21:A28_D C 21 ? D 28 ? 20 1 1 C G 6 1_555 D C 3 1_555 -0.143 -0.085 -0.055 -5.537 -10.619 0.021 14 C_G22:C27_D C 22 ? D 27 ? 19 1 1 C G 7 1_555 D C 2 1_555 -0.099 -0.159 -0.352 -9.097 -13.911 0.918 15 C_G23:C26_D C 23 ? D 26 ? 19 1 1 C C 8 1_555 D G 1 1_555 0.188 -0.013 0.357 -5.111 1.788 0.841 16 C_C24:G25_D C 24 ? D 25 ? 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 G 1 1_555 B DC 8 1_555 A C 2 1_555 B DG 7 1_555 0.303 -1.321 3.218 -0.604 1.799 37.563 -2.278 -0.546 3.149 2.792 0.937 37.610 1 AA_G1C2:DG15DC16_BB A 1 ? B 16 ? A 2 ? B 15 ? 1 A C 2 1_555 B DG 7 1_555 A A 3 1_555 B DT 6 1_555 0.358 -1.653 2.856 1.592 8.630 26.702 -5.030 -0.438 2.240 18.077 -3.334 28.082 2 AA_C2A3:DT14DG15_BB A 2 ? B 15 ? A 3 ? B 14 ? 1 A A 3 1_555 B DT 6 1_555 A G 4 1_555 B DC 5 1_555 -0.666 -1.212 3.388 -1.102 7.567 34.901 -3.073 0.926 3.085 12.432 1.811 35.704 3 AA_A3G4:DC13DT14_BB A 3 ? B 14 ? A 4 ? B 13 ? 1 A G 4 1_555 B DC 5 1_555 A U 5 1_555 B A 4 1_555 -0.241 -1.183 3.213 -2.154 10.251 31.787 -3.635 0.087 2.722 18.111 3.806 33.426 4 AA_G4U5:A12DC13_BB A 4 ? B 13 ? A 5 ? B 12 ? 1 A U 5 1_555 B A 4 1_555 A G 6 1_555 B C 3 1_555 0.302 -1.394 3.137 0.043 11.182 32.176 -3.974 -0.510 2.527 19.456 -0.075 34.015 5 AA_U5G6:C11A12_BB A 5 ? B 12 ? A 6 ? B 11 ? 1 A G 6 1_555 B C 3 1_555 A G 7 1_555 B C 2 1_555 0.458 -2.056 3.350 0.291 7.424 30.510 -5.130 -0.794 2.789 13.850 -0.542 31.381 6 AA_G6G7:C10C11_BB A 6 ? B 11 ? A 7 ? B 10 ? 1 A G 7 1_555 B C 2 1_555 A C 8 1_555 B G 1 1_555 0.881 -2.137 3.162 3.256 3.654 33.068 -4.287 -1.024 2.986 6.376 -5.681 33.418 7 AA_G7C8:G9C10_BB A 7 ? B 10 ? A 8 ? B 9 ? 1 A C 8 1_555 B G 1 1_555 C G 1 1_555 D DC 8 1_555 -0.391 -3.847 3.258 3.057 4.967 -18.203 8.641 0.637 4.159 -15.202 9.357 -19.107 8 AC_C8G17:DC32G9_DB A 8 ? B 9 ? C 17 ? D 32 ? 1 C G 1 1_555 D DC 8 1_555 C C 2 1_555 D DG 7 1_555 -0.653 -1.144 3.455 1.011 11.055 35.681 -3.256 1.156 2.964 17.526 -1.603 37.315 9 CC_G17C18:DG31DC32_DD C 17 ? D 32 ? C 18 ? D 31 ? 1 C C 2 1_555 D DG 7 1_555 C A 3 1_555 D DT 6 1_555 0.936 -1.550 3.160 1.328 17.873 23.686 -6.139 -1.601 1.656 37.433 -2.782 29.625 10 CC_C18A19:DT30DG31_DD C 18 ? D 31 ? C 19 ? D 30 ? 1 C A 3 1_555 D DT 6 1_555 C G 4 1_555 D DC 5 1_555 0.264 -1.455 3.236 -0.116 4.546 33.122 -3.251 -0.477 3.014 7.927 0.202 33.424 11 CC_A19G20:DC29DT30_DD C 19 ? D 30 ? C 20 ? D 29 ? 1 C G 4 1_555 D DC 5 1_555 C U 5 1_555 D A 4 1_555 0.331 -1.233 3.249 -1.470 9.975 33.094 -3.523 -0.771 2.756 17.026 2.509 34.555 12 CC_G20U21:A28DC29_DD C 20 ? D 29 ? C 21 ? D 28 ? 1 C U 5 1_555 D A 4 1_555 C G 6 1_555 D C 3 1_555 -0.270 -1.440 3.197 1.439 10.833 30.088 -4.385 0.726 2.525 20.054 -2.664 31.968 13 CC_U21G22:C27A28_DD C 21 ? D 28 ? C 22 ? D 27 ? 1 C G 6 1_555 D C 3 1_555 C G 7 1_555 D C 2 1_555 0.269 -1.824 3.370 1.709 6.915 30.411 -4.668 -0.185 2.905 12.960 -3.203 31.215 14 CC_G22G23:C26C27_DD C 22 ? D 27 ? C 23 ? D 26 ? 1 C G 7 1_555 D C 2 1_555 C C 8 1_555 D G 1 1_555 0.578 -2.272 3.134 -1.250 7.824 33.143 -4.974 -1.162 2.525 13.477 2.154 34.051 15 CC_G23C24:G25C26_DD C 23 ? D 26 ? C 24 ? D 25 ? # _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 'CANONICAL A-RNA MODEL OF IDENTICAL SIZE AND SEQUENCE' # _atom_sites.entry_id 398D _atom_sites.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 0.023397 _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] 0.022650 _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] 0.019257 _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_