data_429D # _entry.id 429D # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 429D pdb_0000429d 10.2210/pdb429d/pdb RCSB UR0001 ? ? WWPDB D_1000179226 ? ? # 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 1999-03-01 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-28 # _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' # 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 # 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 429D _pdbx_database_status.recvd_initial_deposition_date 1998-09-29 _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 'Wedekind, J.E.' 1 'McKay, D.B.' 2 # _citation.id primary _citation.title 'Crystal structure of a lead-dependent ribozyme revealing metal binding sites relevant to catalysis.' _citation.journal_abbrev Nat.Struct.Biol. _citation.journal_volume 6 _citation.page_first 261 _citation.page_last 268 _citation.year 1999 _citation.journal_id_ASTM NSBIEW _citation.country US _citation.journal_id_ISSN 1072-8368 _citation.journal_id_CSD 2024 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 10074945 _citation.pdbx_database_id_DOI 10.1038/6700 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Wedekind, J.E.' 1 ? primary 'McKay, D.B.' 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(*CP*GP*GP*AP*CP*CP*GP*AP*GP*CP*CP*AP*G)-3') ; 4194.598 2 ? ? ? ? 2 polymer syn ;RNA (5'-R(*GP*CP*UP*GP*GP*GP*AP*GP*UP*CP*C)-3') ; 3538.154 2 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 2 ? ? ? ? # loop_ _entity_keywords.entity_id _entity_keywords.text 1 'RIBOZYME STRAND OF LEADZYME LZ4' 2 'SUBSTRATE STRAND OF LEADZYME LZ4' # 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 CGGACCGAGCCAG CGGACCGAGCCAG A,C ? 2 polyribonucleotide no no GCUGGGAGUCC GCUGGGAGUCC B,D ? # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name 'MAGNESIUM ION' _pdbx_entity_nonpoly.comp_id MG # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 C n 1 2 G n 1 3 G n 1 4 A n 1 5 C n 1 6 C n 1 7 G n 1 8 A n 1 9 G n 1 10 C n 1 11 C n 1 12 A n 1 13 G n 2 1 G n 2 2 C n 2 3 U n 2 4 G n 2 5 G n 2 6 G n 2 7 A n 2 8 G n 2 9 U n 2 10 C n 2 11 C 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 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 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 C 1 18 18 C C A . n A 1 2 G 2 19 19 G G A . n A 1 3 G 3 20 20 G G A . n A 1 4 A 4 21 21 A A A . n A 1 5 C 5 22 22 C C A . n A 1 6 C 6 23 23 C C A . n A 1 7 G 7 24 24 G G A . n A 1 8 A 8 25 25 A A A . n A 1 9 G 9 26 26 G G A . n A 1 10 C 10 27 27 C C A . n A 1 11 C 11 28 28 C C A . n A 1 12 A 12 29 29 A A A . n A 1 13 G 13 30 30 G G A . n B 2 1 G 1 39 39 G G B . n B 2 2 C 2 40 40 C C B . n B 2 3 U 3 41 41 U U B . n B 2 4 G 4 42 42 G G B . n B 2 5 G 5 43 43 G G B . n B 2 6 G 6 44 44 G G B . n B 2 7 A 7 45 45 A A B . n B 2 8 G 8 46 46 G G B . n B 2 9 U 9 47 47 U U B . n B 2 10 C 10 48 48 C C B . n B 2 11 C 11 49 49 C C B . n C 1 1 C 1 118 118 C C C . n C 1 2 G 2 119 119 G G C . n C 1 3 G 3 120 120 G G C . n C 1 4 A 4 121 121 A A C . n C 1 5 C 5 122 122 C C C . n C 1 6 C 6 123 123 C C C . n C 1 7 G 7 124 124 G G C . n C 1 8 A 8 125 125 A A C . n C 1 9 G 9 126 126 G G C . n C 1 10 C 10 127 127 C C C . n C 1 11 C 11 128 128 C C C . n C 1 12 A 12 129 129 A A C . n C 1 13 G 13 130 130 G G C . n D 2 1 G 1 139 139 G G D . n D 2 2 C 2 140 140 C C D . n D 2 3 U 3 141 141 U U D . n D 2 4 G 4 142 142 G G D . n D 2 5 G 5 143 143 G G D . n D 2 6 G 6 144 144 G G D . n D 2 7 A 7 145 145 A A D . n D 2 8 G 8 146 146 G G D . n D 2 9 U 9 147 147 U U D . n D 2 10 C 10 148 148 C C D . n D 2 11 C 11 149 149 C 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 MG 1 150 150 MG MG A . F 3 MG 1 151 151 MG MG A . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal SHARP phasing . ? 1 CNS refinement . ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 # _cell.entry_id 429D _cell.length_a 60.400 _cell.length_b 60.400 _cell.length_c 133.100 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 429D _symmetry.space_group_name_H-M 'P 61 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting hexagonal _symmetry.Int_Tables_number 178 # _exptl.entry_id 429D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.26 _exptl_crystal.density_percent_sol 45.2 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 293.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_details 'pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K' _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 'MAGNESIUM ACETATE' ? ? ? 1 2 1 'SODIUM CACODYLATE' ? ? ? 1 3 1 SPERMINE ? ? ? 1 4 1 MPD ? ? ? 1 5 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 1998-05-07 _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 'CYCLINDRICALLY BENT TRIANGULAR SI(111) ASYMMETRIC CUT, HORIZONTAL FOCUS' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.980 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SSRL BEAMLINE BL7-1' _diffrn_source.pdbx_synchrotron_site SSRL _diffrn_source.pdbx_synchrotron_beamline BL7-1 _diffrn_source.pdbx_wavelength 0.980 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 429D _reflns.observed_criterion_sigma_I -3.0 _reflns.observed_criterion_sigma_F 0.0 _reflns.d_resolution_low 25.0 _reflns.d_resolution_high 2.70 _reflns.number_obs 4416 _reflns.number_all 4416 _reflns.percent_possible_obs 96.6 _reflns.pdbx_Rmerge_I_obs 0.0640000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 5.0 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.70 _reflns_shell.d_res_low 2.75 _reflns_shell.percent_possible_all 55.4 _reflns_shell.Rmerge_I_obs 0.2100000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy 3.0 _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 429D _refine.ls_number_reflns_obs 4169 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF 10000. _refine.pdbx_data_cutoff_low_absF 0.0 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 25.0 _refine.ls_d_res_high 2.70 _refine.ls_percent_reflns_obs 95.7 _refine.ls_R_factor_obs 0.2550000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2550000 _refine.ls_R_factor_R_free 0.2746000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 9.6 _refine.ls_number_reflns_R_free 417 _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 THROUGHOUT _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MAD PHASING USING 5 HEAVY ATOM DERIVATIVES (INCLUDING PB(II))' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details 'RANDOM SELECTION' _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.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _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.pdbx_overall_phase_error ? _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_analyze.entry_id 429D _refine_analyze.Luzzati_coordinate_error_obs 0.50 _refine_analyze.Luzzati_sigma_a_obs 0.26 _refine_analyze.Luzzati_d_res_low_obs 25.0 _refine_analyze.Luzzati_coordinate_error_free 0.50 _refine_analyze.Luzzati_sigma_a_free 0.36 _refine_analyze.Luzzati_d_res_low_free 25.0 _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _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 1024 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 1026 _refine_hist.d_res_high 2.70 _refine_hist.d_res_low 25.0 # 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 c_bond_d 0.0092 ? ? ? 'X-RAY DIFFRACTION' ? c_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.419 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 0.913 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? c_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? c_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? c_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 10 _refine_ls_shell.d_res_high 2.70 _refine_ls_shell.d_res_low 2.80 _refine_ls_shell.number_reflns_R_work 316 _refine_ls_shell.R_factor_R_work 0.3900000 _refine_ls_shell.percent_reflns_obs 80.0 _refine_ls_shell.R_factor_R_free 0.4200000 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free 6.7 _refine_ls_shell.number_reflns_R_free 28 _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # _pdbx_xplor_file.serial_no 1 _pdbx_xplor_file.param_file DNA-RNA-ALLATOM.PARAM _pdbx_xplor_file.topol_file ? _pdbx_xplor_file.pdbx_refine_id 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 429D _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 429D _struct.title 'CRYSTAL STRUCTURE OF A LEADZYME; METAL BINDING AND IMPLICATIONS FOR CATALYSIS' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 429D _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'LEADZYME, LEAD-DEPENDENT CLEAVAGE, TRNA INTERNAL LOOP, RNA, BULGED NUCLEOTIDES' # 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 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 1 PDB 429D 429D ? ? ? 2 2 PDB 429D 429D ? ? ? # 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 429D A 1 ? 13 ? 429D 18 ? 30 ? 18 30 2 2 429D B 1 ? 11 ? 429D 39 ? 49 ? 39 49 3 1 429D C 1 ? 13 ? 429D 118 ? 130 ? 118 130 4 2 429D D 1 ? 11 ? 429D 139 ? 149 ? 139 149 # 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 # _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 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 2 N1 ? ? ? 1_555 B C 11 N3 ? ? A G 19 B C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 2 N2 ? ? ? 1_555 B C 11 O2 ? ? A G 19 B C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 2 O6 ? ? ? 1_555 B C 11 N4 ? ? A G 19 B C 49 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 10 N3 ? ? A G 20 B C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 10 O2 ? ? A G 20 B C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 10 N4 ? ? A G 20 B C 48 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 4 N1 ? ? ? 1_555 B U 9 N3 ? ? A A 21 B U 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 4 N6 ? ? ? 1_555 B U 9 O4 ? ? A A 21 B U 47 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 5 N3 ? ? ? 1_555 B G 8 N1 ? ? A C 22 B G 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 5 N4 ? ? ? 1_555 B G 8 O6 ? ? A C 22 B G 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 5 O2 ? ? ? 1_555 B G 8 N2 ? ? A C 22 B G 46 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 6 O2 ? ? ? 1_555 B A 7 N6 ? ? A C 23 B A 45 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog13 hydrog ? ? A C 10 N3 ? ? ? 1_555 B G 5 N1 ? ? A C 27 B G 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 10 N4 ? ? ? 1_555 B G 5 O6 ? ? A C 27 B G 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 10 O2 ? ? ? 1_555 B G 5 N2 ? ? A C 27 B G 43 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 11 N3 ? ? ? 1_555 B G 4 N1 ? ? A C 28 B G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 11 N4 ? ? ? 1_555 B G 4 O6 ? ? A C 28 B G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 11 O2 ? ? ? 1_555 B G 4 N2 ? ? A C 28 B G 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A A 12 N1 ? ? ? 1_555 B U 3 N3 ? ? A A 29 B U 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 12 N6 ? ? ? 1_555 B U 3 O4 ? ? A A 29 B U 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 13 N1 ? ? ? 1_555 B C 2 N3 ? ? A G 30 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A G 13 N2 ? ? ? 1_555 B C 2 O2 ? ? A G 30 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 13 O6 ? ? ? 1_555 B C 2 N4 ? ? A G 30 B C 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? C G 2 N1 ? ? ? 1_555 D C 11 N3 ? ? C G 119 D C 149 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? C G 2 N2 ? ? ? 1_555 D C 11 O2 ? ? C G 119 D C 149 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? C G 2 O6 ? ? ? 1_555 D C 11 N4 ? ? C G 119 D C 149 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C G 3 N1 ? ? ? 1_555 D C 10 N3 ? ? C G 120 D C 148 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C G 3 N2 ? ? ? 1_555 D C 10 O2 ? ? C G 120 D C 148 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? C G 3 O6 ? ? ? 1_555 D C 10 N4 ? ? C G 120 D C 148 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? C A 4 N1 ? ? ? 1_555 D U 9 N3 ? ? C A 121 D U 147 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? C A 4 N6 ? ? ? 1_555 D U 9 O4 ? ? C A 121 D U 147 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? C C 5 N3 ? ? ? 1_555 D G 8 N1 ? ? C C 122 D G 146 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? C C 5 N4 ? ? ? 1_555 D G 8 O6 ? ? C C 122 D G 146 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? C C 5 O2 ? ? ? 1_555 D G 8 N2 ? ? C C 122 D G 146 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? C C 6 O2 ? ? ? 1_555 D A 7 N6 ? ? C C 123 D A 145 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog36 hydrog ? ? C C 10 N3 ? ? ? 1_555 D G 5 N1 ? ? C C 127 D G 143 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? C C 10 N4 ? ? ? 1_555 D G 5 O6 ? ? C C 127 D G 143 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? C C 10 O2 ? ? ? 1_555 D G 5 N2 ? ? C C 127 D G 143 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? C C 11 N3 ? ? ? 1_555 D G 4 N1 ? ? C C 128 D G 142 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? C C 11 N4 ? ? ? 1_555 D G 4 O6 ? ? C C 128 D G 142 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? C C 11 O2 ? ? ? 1_555 D G 4 N2 ? ? C C 128 D G 142 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? C A 12 N1 ? ? ? 1_555 D U 3 N3 ? ? C A 129 D U 141 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? C A 12 N6 ? ? ? 1_555 D U 3 O4 ? ? C A 129 D U 141 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? C G 13 N1 ? ? ? 1_555 D C 2 N3 ? ? C G 130 D C 140 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? C G 13 N2 ? ? ? 1_555 D C 2 O2 ? ? C G 130 D C 140 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? C G 13 O6 ? ? ? 1_555 D C 2 N4 ? ? C G 130 D C 140 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id G _pdbx_validate_planes.auth_asym_id C _pdbx_validate_planes.auth_seq_id 126 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.061 _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 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 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 MG MG MG N N 111 U OP3 O N N 112 U P P N N 113 U OP1 O N N 114 U OP2 O N N 115 U "O5'" O N N 116 U "C5'" C N N 117 U "C4'" C N R 118 U "O4'" O N N 119 U "C3'" C N S 120 U "O3'" O N N 121 U "C2'" C N R 122 U "O2'" O N N 123 U "C1'" C N R 124 U N1 N N N 125 U C2 C N N 126 U O2 O N N 127 U N3 N N N 128 U C4 C N N 129 U O4 O N N 130 U C5 C N N 131 U C6 C N N 132 U HOP3 H N N 133 U HOP2 H N N 134 U "H5'" H N N 135 U "H5''" H N N 136 U "H4'" H N N 137 U "H3'" H N N 138 U "HO3'" H N N 139 U "H2'" H N N 140 U "HO2'" H N N 141 U "H1'" H N N 142 U H3 H N N 143 U H5 H N N 144 U H6 H N N 145 # 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 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 U OP3 P sing N N 116 U OP3 HOP3 sing N N 117 U P OP1 doub N N 118 U P OP2 sing N N 119 U P "O5'" sing N N 120 U OP2 HOP2 sing N N 121 U "O5'" "C5'" sing N N 122 U "C5'" "C4'" sing N N 123 U "C5'" "H5'" sing N N 124 U "C5'" "H5''" sing N N 125 U "C4'" "O4'" sing N N 126 U "C4'" "C3'" sing N N 127 U "C4'" "H4'" sing N N 128 U "O4'" "C1'" sing N N 129 U "C3'" "O3'" sing N N 130 U "C3'" "C2'" sing N N 131 U "C3'" "H3'" sing N N 132 U "O3'" "HO3'" sing N N 133 U "C2'" "O2'" sing N N 134 U "C2'" "C1'" sing N N 135 U "C2'" "H2'" sing N N 136 U "O2'" "HO2'" sing N N 137 U "C1'" N1 sing N N 138 U "C1'" "H1'" sing N N 139 U N1 C2 sing N N 140 U N1 C6 sing N N 141 U C2 O2 doub N N 142 U C2 N3 sing N N 143 U N3 C4 sing N N 144 U N3 H3 sing N N 145 U C4 O4 doub N N 146 U C4 C5 sing N N 147 U C5 C6 doub N N 148 U C5 H5 sing N N 149 U C6 H6 sing N N 150 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 429D 'double helix' 429D 'a-form double helix' 429D 'mismatched base pair' 429D 'internal loop' # 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 2 1_555 B C 11 1_555 0.087 -0.316 0.346 1.009 -15.034 -2.527 1 A_G19:C49_B A 19 ? B 49 ? 19 1 1 A G 3 1_555 B C 10 1_555 -0.235 -0.329 0.371 8.987 -10.400 -2.803 2 A_G20:C48_B A 20 ? B 48 ? 19 1 1 A A 4 1_555 B U 9 1_555 -0.173 -0.076 0.139 9.232 -17.788 1.987 3 A_A21:U47_B A 21 ? B 47 ? 20 1 1 A C 5 1_555 B G 8 1_555 0.664 -0.245 -0.190 -8.323 -26.684 5.982 4 A_C22:G46_B A 22 ? B 46 ? 19 1 1 A C 6 1_555 B A 7 1_555 5.858 -1.632 1.215 -25.694 -12.213 -0.298 5 A_C23:A45_B A 23 ? B 45 ? ? ? 1 A C 10 1_555 B G 5 1_555 -0.021 -0.278 0.247 -3.292 -9.208 0.312 6 A_C27:G43_B A 27 ? B 43 ? 19 1 1 A C 11 1_555 B G 4 1_555 0.406 -0.252 0.250 -2.308 -14.390 4.435 7 A_C28:G42_B A 28 ? B 42 ? 19 1 1 A A 12 1_555 B U 3 1_555 0.359 -0.313 0.056 2.143 -8.850 2.654 8 A_A29:U41_B A 29 ? B 41 ? 20 1 1 A G 13 1_555 B C 2 1_555 -0.198 -0.142 -0.338 -8.025 -16.857 -0.154 9 A_G30:C40_B A 30 ? B 40 ? 19 1 1 C G 2 1_555 D C 11 1_555 0.024 -0.342 -0.413 -11.020 -9.047 -3.068 10 C_G119:C149_D C 119 ? D 149 ? 19 1 1 C G 3 1_555 D C 10 1_555 -0.254 -0.312 -0.310 -3.284 -8.282 -1.819 11 C_G120:C148_D C 120 ? D 148 ? 19 1 1 C A 4 1_555 D U 9 1_555 0.522 -0.117 0.227 -1.216 -11.044 4.835 12 C_A121:U147_D C 121 ? D 147 ? 20 1 1 C C 5 1_555 D G 8 1_555 0.840 -0.843 0.288 -7.846 -19.840 -0.001 13 C_C122:G146_D C 122 ? D 146 ? 19 1 1 C C 6 1_555 D A 7 1_555 4.542 -0.860 0.396 -22.990 -17.289 4.436 14 C_C123:A145_D C 123 ? D 145 ? ? 1 1 C C 10 1_555 D G 5 1_555 0.145 -0.203 -0.042 3.661 -8.753 2.496 15 C_C127:G143_D C 127 ? D 143 ? 19 1 1 C C 11 1_555 D G 4 1_555 0.401 -0.286 0.285 -2.382 -9.762 0.243 16 C_C128:G142_D C 128 ? D 142 ? 19 1 1 C A 12 1_555 D U 3 1_555 0.133 -0.332 -0.038 6.827 -5.636 4.136 17 C_A129:U141_D C 129 ? D 141 ? 20 1 1 C G 13 1_555 D C 2 1_555 -0.537 -0.269 0.080 11.567 -7.279 3.955 18 C_G130:C140_D C 130 ? D 140 ? 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 2 1_555 B C 11 1_555 A G 3 1_555 B C 10 1_555 -0.610 -1.354 3.068 -1.984 8.221 32.043 -3.614 0.772 2.680 14.578 3.518 33.112 1 AA_G19G20:C48C49_BB A 19 ? B 49 ? A 20 ? B 48 ? 1 A G 3 1_555 B C 10 1_555 A A 4 1_555 B U 9 1_555 0.838 -1.361 3.193 2.971 4.205 32.774 -3.064 -0.988 3.061 7.395 -5.226 33.165 2 AA_G20A21:U47C48_BB A 20 ? B 48 ? A 21 ? B 47 ? 1 A A 4 1_555 B U 9 1_555 A C 5 1_555 B G 8 1_555 1.175 -1.723 3.644 11.902 8.671 37.101 -3.649 -0.187 3.381 13.017 -17.867 39.821 3 AA_A21C22:G46U47_BB A 21 ? B 47 ? A 22 ? B 46 ? 1 A C 5 1_555 B G 8 1_555 A C 6 1_555 B A 7 1_555 0.030 -1.299 3.666 1.332 16.549 53.860 -2.388 0.049 3.173 17.799 -1.432 56.178 4 AA_C22C23:A45G46_BB A 22 ? B 46 ? A 23 ? B 45 ? 1 A C 10 1_555 B G 5 1_555 A C 11 1_555 B G 4 1_555 -0.705 -1.452 3.000 1.117 5.171 33.666 -3.204 1.360 2.730 8.860 -1.914 34.067 5 AA_C27C28:G42G43_BB A 27 ? B 43 ? A 28 ? B 42 ? 1 A C 11 1_555 B G 4 1_555 A A 12 1_555 B U 3 1_555 -0.285 -1.708 2.935 -1.038 8.937 28.884 -4.768 0.373 2.323 17.391 2.019 30.224 6 AA_C28A29:U41G42_BB A 28 ? B 42 ? A 29 ? B 41 ? 1 A A 12 1_555 B U 3 1_555 A G 13 1_555 B C 2 1_555 -0.556 -1.374 3.540 2.843 14.424 34.074 -4.097 1.256 2.706 23.315 -4.596 37.023 7 AA_A29G30:C40U41_BB A 29 ? B 41 ? A 30 ? B 40 ? 1 C G 2 1_555 D C 11 1_555 C G 3 1_555 D C 10 1_555 -0.471 -1.101 3.193 -2.782 10.838 28.518 -4.071 0.384 2.641 21.008 5.393 30.592 8 CC_G119G120:C148C149_DD C 119 ? D 149 ? C 120 ? D 148 ? 1 C G 3 1_555 D C 10 1_555 C A 4 1_555 D U 9 1_555 0.956 -1.339 3.013 -3.394 7.340 38.413 -2.760 -1.778 2.632 11.007 5.090 39.224 9 CC_G120A121:U147C148_DD C 120 ? D 148 ? C 121 ? D 147 ? 1 C A 4 1_555 D U 9 1_555 C C 5 1_555 D G 8 1_555 0.743 -2.195 3.320 7.401 4.963 30.609 -4.897 -0.016 3.029 9.160 -13.661 31.850 10 CC_A121C122:G146U147_DD C 121 ? D 147 ? C 122 ? D 146 ? 1 C C 5 1_555 D G 8 1_555 C C 6 1_555 D A 7 1_555 0.498 -1.147 3.465 11.358 15.400 50.470 -2.262 0.182 3.059 17.361 -12.804 53.753 11 CC_C122C123:A145G146_DD C 122 ? D 146 ? C 123 ? D 145 ? 1 C C 6 1_555 D A 7 1_555 C C 10 1_555 D G 5 1_555 -3.958 -1.618 5.869 16.088 -2.922 87.985 -1.048 3.391 5.281 -2.088 -11.498 89.184 12 CC_C123C127:G143A145_DD C 123 ? D 145 ? C 127 ? D 143 ? 1 C C 10 1_555 D G 5 1_555 C C 11 1_555 D G 4 1_555 -1.027 -2.513 3.338 -3.444 3.880 29.329 -5.694 1.287 3.085 7.589 6.735 29.774 13 CC_C127C128:G142G143_DD C 127 ? D 143 ? C 128 ? D 142 ? 1 C C 11 1_555 D G 4 1_555 C A 12 1_555 D U 3 1_555 -0.512 -1.640 2.757 0.877 8.713 26.350 -5.021 1.229 2.099 18.475 -1.859 27.743 14 CC_C128A129:U141G142_DD C 128 ? D 142 ? C 129 ? D 141 ? 1 C A 12 1_555 D U 3 1_555 C G 13 1_555 D C 2 1_555 -0.158 -1.906 3.025 -4.301 9.984 29.769 -5.039 -0.375 2.283 18.668 8.041 31.650 15 CC_A129G130:C140U141_DD C 129 ? D 141 ? C 130 ? D 140 ? # _atom_sites.entry_id 429D _atom_sites.fract_transf_matrix[1][1] 0.016556 _atom_sites.fract_transf_matrix[1][2] 0.009559 _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] 0.019118 _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] 0.007513 _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_