data_301D # _entry.id 301D # _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 301D pdb_0000301d 10.2210/pdb301d/pdb RCSB URX059 ? ? WWPDB D_1000178769 ? ? # 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 1997-01-24 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-21 # _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 4 'Structure model' 'Derived calculations' # 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' struct_conn 5 4 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 4 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 5 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 6 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 7 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 8 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 9 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 10 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 11 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 12 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 13 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 14 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 15 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 16 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 17 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 301D _pdbx_database_status.recvd_initial_deposition_date 1996-12-14 _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 'Scott, W.G.' 1 'Murray, J.B.' 2 'Arnold, J.R.P.' 3 'Stoddard, B.L.' 4 'Klug, A.' 5 # _citation.id primary _citation.title 'Capturing the structure of a catalytic RNA intermediate: the hammerhead ribozyme.' _citation.journal_abbrev Science _citation.journal_volume 274 _citation.page_first 2065 _citation.page_last 2069 _citation.year 1996 _citation.journal_id_ASTM SCIEAS _citation.country US _citation.journal_id_ISSN 0036-8075 _citation.journal_id_CSD 0038 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 8953035 _citation.pdbx_database_id_DOI 10.1126/science.274.5295.2065 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Scott, W.G.' 1 ? primary 'Murray, J.B.' 2 ? primary 'Arnold, J.R.' 3 ? primary 'Stoddard, B.L.' 4 ? primary 'Klug, A.' 5 ? # 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 HAMMERHEAD RIBOZYME' 5170.103 1 ? ? ? ? 2 polymer syn 'RNA HAMMERHEAD RIBOZYME' 8019.876 1 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 5 ? ? ? ? # 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 GUGGUCUGAUGAGGCC GUGGUCUGAUGAGGCC A ? 2 polyribonucleotide no no GGCCGAAACUCGUAAGAGUCACCAC GGCCGAAACUCGUAAGAGUCACCAC B ? # _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 G n 1 2 U n 1 3 G n 1 4 G n 1 5 U n 1 6 C n 1 7 U n 1 8 G n 1 9 A n 1 10 U n 1 11 G n 1 12 A n 1 13 G n 1 14 G n 1 15 C n 1 16 C n 2 1 G n 2 2 G n 2 3 C n 2 4 C n 2 5 G n 2 6 A n 2 7 A n 2 8 A n 2 9 C n 2 10 U n 2 11 C n 2 12 G n 2 13 U n 2 14 A n 2 15 A n 2 16 G n 2 17 A n 2 18 G n 2 19 U n 2 20 C n 2 21 A n 2 22 C n 2 23 C n 2 24 A n 2 25 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 G 1 25 25 G G A . n A 1 2 U 2 24 24 U U A . n A 1 3 G 3 23 23 G G A . n A 1 4 G 4 22 22 G G A . n A 1 5 U 5 21 21 U U A . n A 1 6 C 6 30 30 C C A . n A 1 7 U 7 40 40 U U A . n A 1 8 G 8 50 50 G G A . n A 1 9 A 9 60 60 A A A . n A 1 10 U 10 70 70 U U A . n A 1 11 G 11 80 80 G G A . n A 1 12 A 12 90 90 A A A . n A 1 13 G 13 101 101 G G A . n A 1 14 G 14 102 102 G G A . n A 1 15 C 15 103 103 C C A . n A 1 16 C 16 104 104 C C A . n B 2 1 G 1 114 114 G G B . n B 2 2 G 2 113 113 G G B . n B 2 3 C 3 112 112 C C B . n B 2 4 C 4 111 111 C C B . n B 2 5 G 5 120 120 G G B . n B 2 6 A 6 130 130 A A B . n B 2 7 A 7 140 140 A A B . n B 2 8 A 8 151 151 A A B . n B 2 9 C 9 152 152 C C B . n B 2 10 U 10 153 153 U U B . n B 2 11 C 11 154 154 C C B . n B 2 12 G 12 31 31 G G B L n B 2 13 U 13 32 32 U U B L n B 2 14 A 14 33 33 A A B L n B 2 15 A 15 34 34 A A B L n B 2 16 G 16 164 164 G G B . n B 2 17 A 17 163 163 A A B . n B 2 18 G 18 162 162 G G B . n B 2 19 U 19 161 161 U U B . n B 2 20 C 20 170 170 C C B . n B 2 21 A 21 11 11 A A B . n B 2 22 C 22 12 12 C C B . n B 2 23 C 23 13 13 C C B . n B 2 24 A 24 14 14 A A B . n B 2 25 C 25 15 15 C C B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 MG 1 44 44 MG MG A . D 3 MG 1 45 45 MG MG A . E 3 MG 1 42 42 MG MG B . F 3 MG 1 43 43 MG MG B . G 3 MG 1 46 46 MG MG B . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 0 A C 104 ? "O2'" ? A C 16 "O2'" 2 1 Y 0 B C 15 ? "O2'" ? B C 25 "O2'" # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR refinement 3.1 ? 1 DENZO 'data reduction' . ? 2 # _cell.entry_id 301D _cell.length_a 65.900 _cell.length_b 65.900 _cell.length_c 136.770 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 301D _symmetry.space_group_name_H-M 'P 31 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 # _exptl.entry_id 301D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 81.08 _exptl_crystal.density_Matthews 6.50 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 8.50 _exptl_crystal_grow.pdbx_details 'pH 8.50, VAPOR DIFFUSION, SITTING 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 'LI SULFATE' ? ? ? 1 3 1 'MG SULFATE' ? ? ? 1 4 1 EDTA ? ? ? 1 5 1 'NA CACODYLATE' ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100.00 _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 1996-01-20 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SRS BEAMLINE PX7.2' _diffrn_source.pdbx_synchrotron_site SRS _diffrn_source.pdbx_synchrotron_beamline PX7.2 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 301D _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 22.800 _reflns.d_resolution_high 3.100 _reflns.number_obs 6561 _reflns.number_all ? _reflns.percent_possible_obs 99.100 _reflns.pdbx_Rmerge_I_obs 0.1250000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 12.500 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 6.700 _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 301D _refine.ls_number_reflns_obs 6165 _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 8.000 _refine.ls_d_res_high 3.000 _refine.ls_percent_reflns_obs 92.200 _refine.ls_R_factor_obs 0.2580000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2580000 _refine.ls_R_factor_R_free 0.2970000 _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 ? _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 ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _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 873 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 5 _refine_hist.number_atoms_total 878 _refine_hist.d_res_high 3.000 _refine_hist.d_res_low 8.000 # 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 0.010 ? ? ? '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 1.50 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? x_dihedral_angle_d 16.8 ? ? ? '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' ? # _pdbx_xplor_file.serial_no 1 _pdbx_xplor_file.param_file NDB_PARAMETER_FILE.RNA _pdbx_xplor_file.topol_file NDB_TOPOLOGY_FILE.RNA _pdbx_xplor_file.pdbx_refine_id 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 301D _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 301D _struct.title 'CAPTURING THE STRUCTURE OF A CATALYTIC RNA INTERMEDIATE: RNA HAMMERHEAD RIBOZYME, MG(II)-SOAKED' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 301D _struct_keywords.pdbx_keywords RIBOZYME _struct_keywords.text 'RNA HAMMERHEAD RIBOZYME, CATALYTIC RNA, LOOP, RIBOZYME' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 3 ? E N N 3 ? F N N 3 ? G 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 301D 301D ? ? ? 2 2 PDB 301D 301D ? ? ? # 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 301D A 1 ? 16 ? 301D 25 ? 104 ? 25 104 2 2 301D B 1 ? 25 ? 301D 114 ? 15 ? 114 15 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G # _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.pdbx_parent_biol_id ? _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? B A 21 OP2 ? ? ? 1_555 G MG . MG ? ? B A 11 B MG 46 1_555 ? ? ? ? ? ? ? 2.427 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 B C 25 N3 ? ? A G 25 B C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 25 O2 ? ? A G 25 B C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 25 N4 ? ? A G 25 B C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A U 2 N3 ? ? ? 1_555 B A 24 N1 ? ? A U 24 B A 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A U 2 O4 ? ? ? 1_555 B A 24 N6 ? ? A U 24 B A 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 23 N3 ? ? A G 23 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 23 O2 ? ? A G 23 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 23 N4 ? ? A G 23 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N1 ? ? ? 1_555 B C 22 N3 ? ? A G 22 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N2 ? ? ? 1_555 B C 22 O2 ? ? A G 22 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 B C 22 N4 ? ? A G 22 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A U 5 N3 ? ? ? 1_555 B A 21 N1 ? ? A U 21 B A 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A U 5 O4 ? ? ? 1_555 B A 21 N6 ? ? A U 21 B A 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 6 N3 ? ? ? 1_555 B C 20 N4 ? ? A C 30 B C 170 1_555 ? ? ? ? ? ? 'C-C MISPAIR' ? ? ? hydrog15 hydrog ? ? A G 8 N2 ? ? ? 1_555 B U 19 O2 ? ? A G 50 B U 161 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog16 hydrog ? ? A U 10 O2 ? ? ? 1_555 B A 7 N6 ? ? A U 70 B A 140 1_555 ? ? ? ? ? ? 'U-A PAIR' ? ? ? hydrog17 hydrog ? ? A G 11 N2 ? ? ? 1_555 B A 6 N7 ? ? A G 80 B A 130 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog18 hydrog ? ? A G 11 N3 ? ? ? 1_555 B A 6 N6 ? ? A G 80 B A 130 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog19 hydrog ? ? A A 12 N6 ? ? ? 1_555 B G 5 N3 ? ? A A 90 B G 120 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog20 hydrog ? ? A A 12 N7 ? ? ? 1_555 B G 5 N2 ? ? A A 90 B G 120 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog21 hydrog ? ? A G 13 N1 ? ? ? 1_555 B C 4 N3 ? ? A G 101 B C 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A G 13 N2 ? ? ? 1_555 B C 4 O2 ? ? A G 101 B C 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 13 O6 ? ? ? 1_555 B C 4 N4 ? ? A G 101 B C 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 14 N1 ? ? ? 1_555 B C 3 N3 ? ? A G 102 B C 112 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 14 N2 ? ? ? 1_555 B C 3 O2 ? ? A G 102 B C 112 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 14 O6 ? ? ? 1_555 B C 3 N4 ? ? A G 102 B C 112 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 15 N3 ? ? ? 1_555 B G 2 N1 ? ? A C 103 B G 113 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 15 N4 ? ? ? 1_555 B G 2 O6 ? ? A C 103 B G 113 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 15 O2 ? ? ? 1_555 B G 2 N2 ? ? A C 103 B G 113 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 16 O2 ? ? ? 1_555 B G 1 N1 ? ? A C 104 B G 114 1_555 ? ? ? ? ? ? 'C-G PAIR' ? ? ? hydrog31 hydrog ? ? B A 8 N6 ? ? ? 1_555 B U 19 O4 ? ? B A 151 B U 161 1_555 ? ? ? ? ? ? 'A-U PAIR' ? ? ? hydrog32 hydrog ? ? B C 9 N3 ? ? ? 1_555 B G 18 N1 ? ? B C 152 B G 162 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? B C 9 N4 ? ? ? 1_555 B G 18 O6 ? ? B C 152 B G 162 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? B C 9 O2 ? ? ? 1_555 B G 18 N2 ? ? B C 152 B G 162 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? B U 10 N3 ? ? ? 1_555 B A 17 N1 ? ? B U 153 B A 163 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? B U 10 O4 ? ? ? 1_555 B A 17 N6 ? ? B U 153 B A 163 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? B C 11 N3 ? ? ? 1_555 B G 16 N1 ? ? B C 154 B G 164 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? B C 11 N4 ? ? ? 1_555 B G 16 O6 ? ? B C 154 B G 164 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? B C 11 O2 ? ? ? 1_555 B G 16 N2 ? ? B C 154 B G 164 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? B G 12 N2 ? L ? 1_555 B A 15 N7 ? L B G 31 B A 34 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A MG 44 ? 1 'BINDING SITE FOR RESIDUE MG A 44' AC2 Software B MG 46 ? 1 'BINDING SITE FOR RESIDUE MG B 46' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 1 C A 6 ? C A 30 . ? 1_555 ? 2 AC2 1 A B 21 ? A B 11 . ? 1_555 ? # 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 G A 50 ? ? 0.061 'SIDE CHAIN' 2 1 U A 70 ? ? 0.062 'SIDE CHAIN' 3 1 A B 140 ? ? 0.075 'SIDE CHAIN' 4 1 G B 31 L ? 0.065 'SIDE CHAIN' 5 1 A B 33 L ? 0.054 'SIDE CHAIN' # _refine_B_iso.class 'ALL ATOMS' _refine_B_iso.details TR _refine_B_iso.treatment isotropic _refine_B_iso.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_occupancy.class 'ALL ATOMS' _refine_occupancy.treatment fix _refine_occupancy.pdbx_refine_id '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 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 301D 'double helix' 301D 'a-form double helix' 301D tetraloop 301D 'mismatched base pair' 301D 'three-way junction' # 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 C 25 1_555 -0.846 -0.365 -0.178 -17.267 -9.010 -4.507 1 A_G25:C15_B A 25 ? B 15 ? 19 1 1 A U 2 1_555 B A 24 1_555 0.065 -0.050 -0.155 -0.918 -19.415 -12.750 2 A_U24:A14_B A 24 ? B 14 ? 20 1 1 A G 3 1_555 B C 23 1_555 0.311 -0.301 0.102 -0.639 -11.497 3.168 3 A_G23:C13_B A 23 ? B 13 ? 19 1 1 A G 4 1_555 B C 22 1_555 -0.110 -0.615 -0.351 -4.583 -20.522 8.479 4 A_G22:C12_B A 22 ? B 12 ? 19 1 1 A U 5 1_555 B A 21 1_555 -0.787 -0.558 -0.577 0.946 -3.869 -3.599 5 A_U21:A11_B A 21 ? B 11 ? 20 1 1 A C 6 1_555 B C 20 1_555 2.696 -1.150 -0.351 24.666 3.183 3.921 6 A_C30:C170_B A 30 ? B 170 ? ? ? 1 B G 1 1_555 A C 16 1_555 -1.490 0.191 0.333 0.186 -9.421 20.932 7 B_G114:C104_A B 114 ? A 104 ? ? 1 1 B G 2 1_555 A C 15 1_555 -0.856 -0.534 -0.212 -7.662 -15.564 2.791 8 B_G113:C103_A B 113 ? A 103 ? 19 1 1 B C 3 1_555 A G 14 1_555 0.776 -0.536 -0.097 2.183 -9.351 -6.496 9 B_C112:G102_A B 112 ? A 102 ? 19 1 1 B C 4 1_555 A G 13 1_555 1.007 -0.538 -0.306 8.279 -9.653 0.578 10 B_C111:G101_A B 111 ? A 101 ? 19 1 1 B G 5 1_555 A A 12 1_555 6.802 -4.737 -0.807 5.183 -11.044 -5.699 11 B_G120:A90_A B 120 ? A 90 ? 11 10 1 B A 6 1_555 A G 11 1_555 -6.308 -3.778 0.718 -22.002 16.867 5.103 12 B_A130:G80_A B 130 ? A 80 ? 11 9 1 B A 7 1_555 A U 10 1_555 -4.494 -0.144 1.646 27.980 -16.028 42.446 13 B_A140:U70_A B 140 ? A 70 ? ? 5 1 B A 8 1_555 B U 19 1_555 0.770 1.034 -1.051 -6.295 -35.862 -38.256 14 B_A151:U161_B B 151 ? B 161 ? ? ? 1 B C 9 1_555 B G 18 1_555 0.195 -0.266 0.242 -0.144 -6.596 -4.078 15 B_C152:G162_B B 152 ? B 162 ? 19 1 1 B U 10 1_555 B A 17 1_555 -1.114 -0.002 0.674 -0.478 0.357 -12.132 16 B_U153:A163_B B 153 ? B 163 ? 20 1 1 B C 11 1_555 B G 16 1_555 0.429 -0.178 0.157 9.025 -5.090 -2.172 17 B_C154:G164_B B 154 ? B 164 ? 19 1 1 B G 12 1_555 B A 15 1_555 7.073 -6.037 -0.136 -1.000 -15.677 -38.283 18 B_G31L:A34L_B B 31 L B 34 L ? ? # 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 C 25 1_555 A U 2 1_555 B A 24 1_555 -0.575 -1.071 2.758 -4.109 5.915 44.350 -1.847 0.444 2.641 7.775 5.401 44.901 1 AA_G25U24:A14C15_BB A 25 ? B 15 ? A 24 ? B 14 ? 1 A U 2 1_555 B A 24 1_555 A G 3 1_555 B C 23 1_555 0.628 -1.395 3.239 -2.832 4.258 28.954 -3.618 -1.816 2.935 8.433 5.609 29.392 2 AA_U24G23:C13A14_BB A 24 ? B 14 ? A 23 ? B 13 ? 1 A G 3 1_555 B C 23 1_555 A G 4 1_555 B C 22 1_555 0.598 -1.990 3.369 5.932 7.109 29.137 -5.159 0.017 2.878 13.702 -11.433 30.542 3 AA_G23G22:C12C13_BB A 23 ? B 13 ? A 22 ? B 12 ? 1 A G 4 1_555 B C 22 1_555 A U 5 1_555 B A 21 1_555 -0.652 -2.065 3.058 -0.783 0.170 21.628 -5.562 1.445 3.063 0.452 2.086 21.642 4 AA_G22U21:A11C12_BB A 22 ? B 12 ? A 21 ? B 11 ? 1 A U 5 1_555 B A 21 1_555 A C 6 1_555 B C 20 1_555 0.758 -0.603 2.745 -0.527 1.225 46.111 -0.857 -1.005 2.720 1.563 0.673 46.129 5 AA_U21C30:C170A11_BB A 21 ? B 11 ? A 30 ? B 170 ? 1 B G 1 1_555 A C 16 1_555 B G 2 1_555 A C 15 1_555 -1.107 -1.558 3.269 -3.642 11.855 33.878 -4.105 1.304 2.692 19.550 6.005 36.014 6 BB_G114G113:C103C104_AA B 114 ? A 104 ? B 113 ? A 103 ? 1 B G 2 1_555 A C 15 1_555 B C 3 1_555 A G 14 1_555 -0.565 -0.792 3.154 -4.905 -0.906 44.931 -0.951 0.308 3.210 -1.181 6.395 45.193 7 BB_G113C112:G102C103_AA B 113 ? A 103 ? B 112 ? A 102 ? 1 B C 3 1_555 A G 14 1_555 B C 4 1_555 A G 13 1_555 -0.363 -1.674 3.256 1.464 -4.284 23.974 -2.573 1.334 3.469 -10.196 -3.484 24.391 8 BB_C112C111:G101G102_AA B 112 ? A 102 ? B 111 ? A 101 ? 1 B C 4 1_555 A G 13 1_555 B G 5 1_555 A A 12 1_555 -0.730 -0.834 3.769 5.017 6.063 62.625 -1.104 0.951 3.621 5.809 -4.806 63.068 9 BB_C111G120:A90G101_AA B 111 ? A 101 ? B 120 ? A 90 ? 1 B G 5 1_555 A A 12 1_555 B A 6 1_555 A G 11 1_555 1.204 -1.623 3.755 0.109 0.173 -15.834 5.741 4.462 3.764 -0.627 0.395 -15.836 10 BB_G120A130:G80A90_AA B 120 ? A 90 ? B 130 ? A 80 ? 1 B A 6 1_555 A G 11 1_555 B A 7 1_555 A U 10 1_555 2.395 -1.446 1.553 -16.865 9.263 34.127 -2.454 -4.112 0.027 14.450 26.308 39.037 11 BB_A130A140:U70G80_AA B 130 ? A 80 ? B 140 ? A 70 ? 1 B A 7 1_555 A U 10 1_555 B A 8 1_555 B U 19 1_555 -2.121 -2.729 3.755 -4.585 20.914 66.524 -3.199 1.684 3.011 18.577 4.073 69.506 12 BB_A140A151:U161U70_BA B 140 ? A 70 ? B 151 ? B 161 ? 1 B A 8 1_555 B U 19 1_555 B C 9 1_555 B G 18 1_555 1.693 -0.686 2.898 -13.988 -6.844 30.652 -0.300 -4.636 2.057 -12.023 24.570 34.296 13 BB_A151C152:G162U161_BB B 151 ? B 161 ? B 152 ? B 162 ? 1 B C 9 1_555 B G 18 1_555 B U 10 1_555 B A 17 1_555 -0.441 -1.672 3.323 -8.942 2.021 29.451 -3.549 -0.949 3.197 3.860 17.075 30.815 14 BB_C152U153:A163G162_BB B 152 ? B 162 ? B 153 ? B 163 ? 1 B U 10 1_555 B A 17 1_555 B C 11 1_555 B G 16 1_555 0.025 -1.582 3.030 1.103 -0.877 42.966 -2.077 0.068 3.060 -1.197 -1.505 42.988 15 BB_U153C154:G164A163_BB B 153 ? B 163 ? B 154 ? B 164 ? 1 B C 11 1_555 B G 16 1_555 B G 12 1_555 B A 15 1_555 -3.988 -1.772 3.910 6.374 14.895 48.467 -3.153 5.104 2.776 17.583 -7.524 50.948 16 BB_C154G31L:A34LG164_BB B 154 ? B 164 ? B 31 L B 34 L # _atom_sites.entry_id 301D _atom_sites.fract_transf_matrix[1][1] 0.015175 _atom_sites.fract_transf_matrix[1][2] 0.008761 _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] 0.017792 _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] 0.007312 _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_