data_3MJA # _entry.id 3MJA # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.379 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 3MJA pdb_00003mja 10.2210/pdb3mja/pdb NDB NA0520 ? ? RCSB RCSB058614 ? ? WWPDB D_1000058614 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 3MJ3 . unspecified PDB 3MJB . unspecified # _pdbx_database_status.entry_id 3MJA _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2010-04-12 _pdbx_database_status.status_code REL _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 'Kieft, J.S.' 1 'Golden, B.L.' 2 'Costantino, D.A.' 3 'Chase, E.' 4 # _citation.id primary _citation.title 'Identification and characterization of anion binding sites in RNA.' _citation.journal_abbrev Rna _citation.journal_volume 16 _citation.page_first 1118 _citation.page_last 1123 _citation.year 2010 _citation.journal_id_ASTM RNARFU _citation.country UK _citation.journal_id_ISSN 1355-8382 _citation.journal_id_CSD 2122 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 20410239 _citation.pdbx_database_id_DOI 10.1261/rna.2072710 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kieft, J.S.' 1 ? primary 'Chase, E.' 2 ? primary 'Costantino, D.A.' 3 ? primary 'Golden, B.L.' 4 ? # _cell.entry_id 3MJA _cell.length_a 59.250 _cell.length_b 59.250 _cell.length_c 99.775 _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 3MJA _symmetry.space_group_name_H-M 'P 41 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn 'Domain 3 of the cricket paralysis virus intergenic region IRES RNA' 9326.556 1 ? U6178A 'Domain 3 RNA' ? 2 polymer syn ;RNA (5'-R(P*UP*AP*AP*GP*AP*AP*AP*UP*UP*UP*AP*CP*CP*U)-3') ; 4416.675 1 ? A6199G 'Domain 3 RNA' ? 3 non-polymer syn 'SELENATE ION' 142.958 4 ? U6198U 'Domain 3 RNA' ? # 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 GGUUAUUCAGAUUAGGUAGUCGAAUGACC GGUUAUUCAGAUUAGGUAGUCGAAUGACC B ? 2 polyribonucleotide no no UAAGAAAUUUACCU UAAGAAAUUUACCU C ? # 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 G n 1 3 U n 1 4 U n 1 5 A n 1 6 U n 1 7 U n 1 8 C n 1 9 A n 1 10 G n 1 11 A n 1 12 U n 1 13 U n 1 14 A n 1 15 G n 1 16 G n 1 17 U n 1 18 A n 1 19 G n 1 20 U n 1 21 C n 1 22 G n 1 23 A n 1 24 A n 1 25 U n 1 26 G n 1 27 A n 1 28 C n 1 29 C n 2 1 U n 2 2 A n 2 3 A n 2 4 G n 2 5 A n 2 6 A n 2 7 A n 2 8 U n 2 9 U n 2 10 U n 2 11 A n 2 12 C n 2 13 C n 2 14 U n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'In vitro transcription' # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_align_begin _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_db_isoform 1 PDB 3MJA 3MJA 1 1 GGUUAUUCAGAUUAGGUAGUCGAAUGACC ? 2 PDB 3MJA 3MJA 2 1 UAAGAAAUUUACCU ? # 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 3MJA B 1 ? 29 ? 3MJA 6174 ? 6202 ? 6174 6202 2 2 3MJA C 1 ? 14 ? 3MJA 6203 ? 6216 ? 6203 6216 # 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 SE4 non-polymer . 'SELENATE ION' ? 'O4 Se -2' 142.958 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # _exptl.crystals_number 1 _exptl.entry_id 3MJA _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 3.19 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 61.39 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_details ;1.8 M lithium selenate, 42.5 mM magnesium chloride, 0.5 mM spermidine, 10 mM HEPES-KOH, 50 mM HEPES-NaOH; moved to 2.4 M lithium selenate, 42.5 mM magnesium chloride, 0.5 mM spermidine, 10 mM HEPES-KOH, 50 mM HEPES-NaOH (all otherfor cryoprotections, pH 7.5, VAPOR DIFFUSION, temperature 293K ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9786 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ALS BEAMLINE 4.2.2' _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9786 _diffrn_source.pdbx_synchrotron_site ALS _diffrn_source.pdbx_synchrotron_beamline 4.2.2 # _reflns.entry_id 3MJA _reflns.observed_criterion_sigma_F 2.0 _reflns.observed_criterion_sigma_I 2.0 _reflns.d_resolution_high 2.8 _reflns.d_resolution_low 42 _reflns.number_all ? _reflns.number_obs 8365 _reflns.percent_possible_obs 99.9 _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 3MJA _refine.ls_d_res_high 2.800 _refine.ls_d_res_low 30.000 _refine.pdbx_ls_sigma_F 0.00 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.900 _refine.ls_number_reflns_obs 6953 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_R_Free_selection_details RANDOM _refine.details ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_R_work 0.233 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.283 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 9.800 _refine.ls_number_reflns_R_free 818 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 47.745 _refine.solvent_model_param_bsol 35.000 _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] -6.240 _refine.aniso_B[2][2] 2.302 _refine.aniso_B[3][3] 3.937 _refine.aniso_B[1][2] 0.000 _refine.aniso_B[1][3] 0.000 _refine.aniso_B[2][3] 0.000 _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_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.solvent_model_details ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model 'PDB 3B31' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_stereochemistry_target_values 'Engh & Huber' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 100.92 _refine.B_iso_min 27.36 _refine.occupancy_max 1.00 _refine.occupancy_min 1.00 _refine.pdbx_ls_sigma_I ? _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R ? _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 917 _refine_hist.pdbx_number_atoms_ligand 20 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 937 _refine_hist.d_res_high 2.800 _refine_hist.d_res_low 30.000 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function c_bond_d ? 0.006 ? ? 'X-RAY DIFFRACTION' ? c_angle_d ? 1.381 ? ? 'X-RAY DIFFRACTION' ? c_mcbond_it ? 1.559 1.500 ? 'X-RAY DIFFRACTION' ? c_mcangle_it ? 2.512 2.000 ? 'X-RAY DIFFRACTION' ? # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 protein_rep.param protein.top 'X-RAY DIFFRACTION' 2 dna-rna_rep.param dna-rna.top 'X-RAY DIFFRACTION' 3 water_rep.param water.top 'X-RAY DIFFRACTION' 4 ion.param ion.top 'X-RAY DIFFRACTION' 5 CNS_TOPPAR:irhex.param CNS_TOPPAR:irhex.top 'X-RAY DIFFRACTION' # _struct.entry_id 3MJA _struct.title 'Cricket Paralysis Virus IGR IRES Domain 3 RNA bound to selenate, structure #2' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3MJA _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'RNA psuedoknot, anions, selenate, RNA' # 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 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 A C 29 N3 ? ? B G 6174 B C 6202 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 29 O2 ? ? B G 6174 B C 6202 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 29 N4 ? ? B G 6174 B C 6202 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A C 28 N3 ? ? B G 6175 B C 6201 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 28 O2 ? ? B G 6175 B C 6201 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 A C 28 N4 ? ? B G 6175 B C 6201 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A U 3 N3 ? ? ? 1_555 A A 27 N1 ? ? B U 6176 B A 6200 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A U 3 O4 ? ? ? 1_555 A A 27 N6 ? ? B U 6176 B A 6200 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A U 4 O2 ? ? ? 1_555 A G 26 N2 ? ? B U 6177 B G 6199 1_555 ? ? ? ? ? ? 'U-G MISPAIR' ? ? ? hydrog10 hydrog ? ? A A 5 N1 ? ? ? 1_555 A U 25 N3 ? ? B A 6178 B U 6198 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A A 5 N6 ? ? ? 1_555 A U 25 O4 ? ? B A 6178 B U 6198 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A U 6 N3 ? ? ? 1_555 A A 24 N1 ? ? B U 6179 B A 6197 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A U 6 O4 ? ? ? 1_555 A A 24 N6 ? ? B U 6179 B A 6197 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A U 7 N3 ? ? ? 1_555 A A 23 N1 ? ? B U 6180 B A 6196 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A U 7 O4 ? ? ? 1_555 A A 23 N6 ? ? B U 6180 B A 6196 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 8 N3 ? ? ? 1_555 A G 22 N1 ? ? B C 6181 B G 6195 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 8 N4 ? ? ? 1_555 A G 22 O6 ? ? B C 6181 B G 6195 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 8 O2 ? ? ? 1_555 A G 22 N2 ? ? B C 6181 B G 6195 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 10 N1 ? ? ? 1_555 A C 21 N3 ? ? B G 6183 B C 6194 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A G 10 N2 ? ? ? 1_555 A C 21 O2 ? ? B G 6183 B C 6194 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 10 O6 ? ? ? 1_555 A C 21 N4 ? ? B G 6183 B C 6194 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A A 11 N1 ? ? ? 1_555 A U 20 N3 ? ? B A 6184 B U 6193 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A A 11 N6 ? ? ? 1_555 A U 20 O4 ? ? B A 6184 B U 6193 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A A 14 N1 ? ? ? 1_555 B U 14 N3 ? ? B A 6187 C U 6216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A A 14 N6 ? ? ? 1_555 B U 14 O4 ? ? B A 6187 C U 6216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 15 N1 ? ? ? 1_555 B C 13 N3 ? ? B G 6188 C C 6215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 15 N2 ? ? ? 1_555 B C 13 O2 ? ? B G 6188 C C 6215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 15 O6 ? ? ? 1_555 B C 13 N4 ? ? B G 6188 C C 6215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A G 16 N1 ? ? ? 1_555 B C 12 N3 ? ? B G 6189 C C 6214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A G 16 N2 ? ? ? 1_555 B C 12 O2 ? ? B G 6189 C C 6214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A G 16 O6 ? ? ? 1_555 B C 12 N4 ? ? B G 6189 C C 6214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A U 17 N3 ? ? ? 1_555 B A 11 N1 ? ? B U 6190 C A 6213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A U 17 O4 ? ? ? 1_555 B A 11 N6 ? ? B U 6190 C A 6213 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A A 18 N1 ? ? ? 1_555 B U 10 N3 ? ? B A 6191 C U 6212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A A 18 N6 ? ? ? 1_555 B U 10 O4 ? ? B A 6191 C U 6212 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A G 19 N2 ? ? ? 1_555 B A 7 N3 ? ? B G 6192 C A 6209 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # 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 B SE4 100 ? 2 'BINDING SITE FOR RESIDUE SE4 B 100' AC2 Software C SE4 101 ? 1 'BINDING SITE FOR RESIDUE SE4 C 101' AC3 Software C SE4 102 ? 2 'BINDING SITE FOR RESIDUE SE4 C 102' AC4 Software B SE4 103 ? 2 'BINDING SITE FOR RESIDUE SE4 B 103' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 2 G A 22 ? G B 6195 . ? 1_555 ? 2 AC1 2 A A 23 ? A B 6196 . ? 1_555 ? 3 AC2 1 C B 13 ? C C 6215 . ? 1_555 ? 4 AC3 2 G B 4 ? G C 6206 . ? 1_555 ? 5 AC3 2 A B 5 ? A C 6207 . ? 1_555 ? 6 AC4 2 C A 28 ? C B 6201 . ? 1_555 ? 7 AC4 2 C A 29 ? C B 6202 . ? 1_555 ? # _atom_sites.entry_id 3MJA _atom_sites.fract_transf_matrix[1][1] 0.016878 _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] 0.016878 _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] 0.010023 _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 SE # 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 6174 6174 G G B . n A 1 2 G 2 6175 6175 G G B . n A 1 3 U 3 6176 6176 U U B . n A 1 4 U 4 6177 6177 U U B . n A 1 5 A 5 6178 6178 A A B . n A 1 6 U 6 6179 6179 U U B . n A 1 7 U 7 6180 6180 U U B . n A 1 8 C 8 6181 6181 C C B . n A 1 9 A 9 6182 6182 A A B . n A 1 10 G 10 6183 6183 G G B . n A 1 11 A 11 6184 6184 A A B . n A 1 12 U 12 6185 6185 U U B . n A 1 13 U 13 6186 6186 U U B . n A 1 14 A 14 6187 6187 A A B . n A 1 15 G 15 6188 6188 G G B . n A 1 16 G 16 6189 6189 G G B . n A 1 17 U 17 6190 6190 U U B . n A 1 18 A 18 6191 6191 A A B . n A 1 19 G 19 6192 6192 G G B . n A 1 20 U 20 6193 6193 U U B . n A 1 21 C 21 6194 6194 C C B . n A 1 22 G 22 6195 6195 G G B . n A 1 23 A 23 6196 6196 A A B . n A 1 24 A 24 6197 6197 A A B . n A 1 25 U 25 6198 6198 U U B . n A 1 26 G 26 6199 6199 G G B . n A 1 27 A 27 6200 6200 A A B . n A 1 28 C 28 6201 6201 C C B . n A 1 29 C 29 6202 6202 C C B . n B 2 1 U 1 6203 6203 U U C . n B 2 2 A 2 6204 6204 A A C . n B 2 3 A 3 6205 6205 A A C . n B 2 4 G 4 6206 6206 G G C . n B 2 5 A 5 6207 6207 A A C . n B 2 6 A 6 6208 6208 A A C . n B 2 7 A 7 6209 6209 A A C . n B 2 8 U 8 6210 6210 U U C . n B 2 9 U 9 6211 6211 U U C . n B 2 10 U 10 6212 6212 U U C . n B 2 11 A 11 6213 6213 A A C . n B 2 12 C 12 6214 6214 C C C . n B 2 13 C 13 6215 6215 C C C . n B 2 14 U 14 6216 6216 U U C . 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 SE4 1 100 100 SE4 SE4 B . D 3 SE4 1 103 103 SE4 SE4 B . E 3 SE4 1 101 101 SE4 SE4 C . F 3 SE4 1 102 102 SE4 SE4 C . # _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 # _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_ _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 2010-05-19 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2023-09-06 # _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' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' 5 3 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 3 'Structure model' pdbx_initial_refinement_model 5 3 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 4 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 5 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.pdbx_ordinal _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id 1 CNS . ? package 'Axel T. Brunger' axel.brunger@yale.edu refinement http://cns-online.org/ Fortran_77 ? 2 PDB_EXTRACT 3.100 'Jan. 22, 2010' package PDB help@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 P B G 6174 ? ? OP3 B G 6174 ? ? 1.529 1.607 -0.078 0.012 N 2 1 P C U 6203 ? ? OP3 C U 6203 ? ? 1.521 1.607 -0.086 0.012 N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id U _pdbx_validate_planes.auth_asym_id B _pdbx_validate_planes.auth_seq_id 6180 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.072 _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 SE4 SE SE N N 111 SE4 O1 O N N 112 SE4 O2 O N N 113 SE4 O3 O N N 114 SE4 O4 O N N 115 U OP3 O N N 116 U P P N N 117 U OP1 O N N 118 U OP2 O N N 119 U "O5'" O N N 120 U "C5'" C N N 121 U "C4'" C N R 122 U "O4'" O N N 123 U "C3'" C N S 124 U "O3'" O N N 125 U "C2'" C N R 126 U "O2'" O N N 127 U "C1'" C N R 128 U N1 N N N 129 U C2 C N N 130 U O2 O N N 131 U N3 N N N 132 U C4 C N N 133 U O4 O N N 134 U C5 C N N 135 U C6 C N N 136 U HOP3 H N N 137 U HOP2 H N N 138 U "H5'" H N N 139 U "H5''" H N N 140 U "H4'" H N N 141 U "H3'" H N N 142 U "HO3'" H N N 143 U "H2'" H N N 144 U "HO2'" H N N 145 U "H1'" H N N 146 U H3 H N N 147 U H5 H N N 148 U H6 H N N 149 # 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 SE4 SE O1 doub N N 116 SE4 SE O2 doub N N 117 SE4 SE O3 sing N N 118 SE4 SE O4 sing N N 119 U OP3 P sing N N 120 U OP3 HOP3 sing N N 121 U P OP1 doub N N 122 U P OP2 sing N N 123 U P "O5'" sing N N 124 U OP2 HOP2 sing N N 125 U "O5'" "C5'" sing N N 126 U "C5'" "C4'" sing N N 127 U "C5'" "H5'" sing N N 128 U "C5'" "H5''" sing N N 129 U "C4'" "O4'" sing N N 130 U "C4'" "C3'" sing N N 131 U "C4'" "H4'" sing N N 132 U "O4'" "C1'" sing N N 133 U "C3'" "O3'" sing N N 134 U "C3'" "C2'" sing N N 135 U "C3'" "H3'" sing N N 136 U "O3'" "HO3'" sing N N 137 U "C2'" "O2'" sing N N 138 U "C2'" "C1'" sing N N 139 U "C2'" "H2'" sing N N 140 U "O2'" "HO2'" sing N N 141 U "C1'" N1 sing N N 142 U "C1'" "H1'" sing N N 143 U N1 C2 sing N N 144 U N1 C6 sing N N 145 U C2 O2 doub N N 146 U C2 N3 sing N N 147 U N3 C4 sing N N 148 U N3 H3 sing N N 149 U C4 O4 doub N N 150 U C4 C5 sing N N 151 U C5 C6 doub N N 152 U C5 H5 sing N N 153 U C6 H6 sing N N 154 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3MJA 'double helix' 3MJA 'a-form double helix' 3MJA 'bulge loop' 3MJA 'mismatched base pair' # 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 A C 29 1_555 -0.655 -0.618 0.592 8.434 -18.488 -0.364 1 B_G6174:C6202_B B 6174 ? B 6202 ? 19 1 1 A G 2 1_555 A C 28 1_555 -0.531 -0.159 -0.190 -4.613 -18.822 -2.300 2 B_G6175:C6201_B B 6175 ? B 6201 ? 19 1 1 A U 3 1_555 A A 27 1_555 0.566 -0.003 0.150 0.122 -12.387 -1.868 3 B_U6176:A6200_B B 6176 ? B 6200 ? 20 1 1 A U 4 1_555 A G 26 1_555 -0.571 -0.234 0.259 2.283 -7.785 0.654 4 B_U6177:G6199_B B 6177 ? B 6199 ? ? 1 1 A A 5 1_555 A U 25 1_555 0.954 -0.535 0.027 -3.629 -7.477 -5.759 5 B_A6178:U6198_B B 6178 ? B 6198 ? 20 1 1 A U 6 1_555 A A 24 1_555 -0.433 -0.156 0.017 0.668 -13.323 0.811 6 B_U6179:A6197_B B 6179 ? B 6197 ? 20 1 1 A U 7 1_555 A A 23 1_555 -0.176 0.101 0.213 -3.708 -14.755 3.921 7 B_U6180:A6196_B B 6180 ? B 6196 ? 20 1 1 A C 8 1_555 A G 22 1_555 0.169 -0.414 -0.346 3.486 -5.898 -8.672 8 B_C6181:G6195_B B 6181 ? B 6195 ? 19 1 1 A G 10 1_555 A C 21 1_555 0.018 -0.063 0.335 -1.176 -13.805 -0.269 9 B_G6183:C6194_B B 6183 ? B 6194 ? 19 1 1 A A 11 1_555 A U 20 1_555 0.120 -0.078 0.385 -17.195 -30.017 -4.090 10 B_A6184:U6193_B B 6184 ? B 6193 ? 20 1 1 B A 7 1_555 A G 19 1_555 2.024 6.681 -1.816 49.898 9.512 140.984 11 C_A6209:G6192_B C 6209 ? B 6192 ? ? 6 1 B U 10 1_555 A A 18 1_555 -0.267 -0.368 0.273 -4.209 -5.005 -2.048 12 C_U6212:A6191_B C 6212 ? B 6191 ? 20 1 1 B A 11 1_555 A U 17 1_555 -0.739 -0.403 0.161 4.279 -10.666 -1.599 13 C_A6213:U6190_B C 6213 ? B 6190 ? 20 1 1 B C 12 1_555 A G 16 1_555 1.216 -0.316 0.170 -0.125 -14.940 9.787 14 C_C6214:G6189_B C 6214 ? B 6189 ? 19 1 1 B C 13 1_555 A G 15 1_555 0.615 -0.362 0.105 -2.621 -12.223 1.366 15 C_C6215:G6188_B C 6215 ? B 6188 ? 19 1 1 B U 14 1_555 A A 14 1_555 0.582 0.074 -0.062 4.411 -11.135 -5.378 16 C_U6216:A6187_B C 6216 ? B 6187 ? 20 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 A C 29 1_555 A G 2 1_555 A C 28 1_555 -0.927 -2.019 3.474 2.952 4.622 33.378 -4.224 2.075 3.084 7.980 -5.096 33.813 1 BB_G6174G6175:C6201C6202_BB B 6174 ? B 6202 ? B 6175 ? B 6201 ? 1 A G 2 1_555 A C 28 1_555 A U 3 1_555 A A 27 1_555 -0.060 -1.171 3.290 -1.547 2.240 34.621 -2.303 -0.135 3.210 3.756 2.594 34.725 2 BB_G6175U6176:A6200C6201_BB B 6175 ? B 6201 ? B 6176 ? B 6200 ? 1 A U 3 1_555 A A 27 1_555 A U 4 1_555 A G 26 1_555 0.322 -1.103 3.076 -0.224 7.744 26.203 -4.059 -0.733 2.644 16.625 0.480 27.305 3 BB_U6176U6177:G6199A6200_BB B 6176 ? B 6200 ? B 6177 ? B 6199 ? 1 A U 4 1_555 A G 26 1_555 A A 5 1_555 A U 25 1_555 -0.220 -1.347 3.220 1.301 13.212 39.154 -3.224 0.441 2.642 19.061 -1.877 41.260 4 BB_U6177A6178:U6198G6199_BB B 6177 ? B 6199 ? B 6178 ? B 6198 ? 1 A A 5 1_555 A U 25 1_555 A U 6 1_555 A A 24 1_555 -0.022 -1.596 3.196 -1.014 6.787 26.914 -4.829 -0.178 2.719 14.288 2.134 27.759 5 BB_A6178U6179:A6197U6198_BB B 6178 ? B 6198 ? B 6179 ? B 6197 ? 1 A U 6 1_555 A A 24 1_555 A U 7 1_555 A A 23 1_555 0.524 -1.106 3.358 -0.613 9.234 33.657 -3.222 -0.966 2.951 15.585 1.035 34.871 6 BB_U6179U6180:A6196A6197_BB B 6179 ? B 6197 ? B 6180 ? B 6196 ? 1 A U 7 1_555 A A 23 1_555 A C 8 1_555 A G 22 1_555 -0.501 -1.260 3.313 5.135 7.253 29.428 -3.740 1.910 2.804 13.884 -9.830 30.713 7 BB_U6180C6181:G6195A6196_BB B 6180 ? B 6196 ? B 6181 ? B 6195 ? 1 A C 8 1_555 A G 22 1_555 A G 10 1_555 A C 21 1_555 0.263 -1.895 3.275 -6.624 7.215 31.253 -4.525 -1.533 2.673 12.999 11.934 32.715 8 BB_C6181G6183:C6194G6195_BB B 6181 ? B 6195 ? B 6183 ? B 6194 ? 1 A G 10 1_555 A C 21 1_555 A A 11 1_555 A U 20 1_555 -0.507 -1.810 3.639 2.807 2.489 40.193 -2.929 1.079 3.484 3.612 -4.073 40.361 9 BB_G6183A6184:U6193C6194_BB B 6183 ? B 6194 ? B 6184 ? B 6193 ? 1 A A 11 1_555 A U 20 1_555 B A 7 1_555 A G 19 1_555 -2.339 -3.048 -5.257 -152.887 30.603 32.671 -1.172 3.109 0.115 16.991 84.883 156.905 10 BC_A6184A6209:G6192U6193_BB B 6184 ? B 6193 ? C 6209 ? B 6192 ? 1 B A 7 1_555 A G 19 1_555 B U 10 1_555 A A 18 1_555 -2.411 -2.579 2.432 87.807 -127.205 116.842 -0.735 1.602 2.473 -65.112 -44.945 166.761 11 CC_A6209U6212:A6191G6192_BB C 6209 ? B 6192 ? C 6212 ? B 6191 ? 1 B U 10 1_555 A A 18 1_555 B A 11 1_555 A U 17 1_555 -0.377 -1.770 2.798 -0.380 9.366 28.479 -4.920 0.668 2.126 18.418 0.748 29.952 12 CC_U6212A6213:U6190A6191_BB C 6212 ? B 6191 ? C 6213 ? B 6190 ? 1 B A 11 1_555 A U 17 1_555 B C 12 1_555 A G 16 1_555 0.562 -0.844 3.319 2.345 7.226 41.628 -1.909 -0.539 3.162 10.067 -3.268 42.285 13 CC_A6213C6214:G6189U6190_BB C 6213 ? B 6190 ? C 6214 ? B 6189 ? 1 B C 12 1_555 A G 16 1_555 B C 13 1_555 A G 15 1_555 0.189 -1.654 3.179 3.607 6.871 29.050 -4.486 0.316 2.728 13.399 -7.033 30.048 14 CC_C6214C6215:G6188G6189_BB C 6214 ? B 6189 ? C 6215 ? B 6188 ? 1 B C 13 1_555 A G 15 1_555 B U 14 1_555 A A 14 1_555 -0.546 -1.125 3.030 4.888 6.101 34.907 -2.613 1.516 2.703 10.015 -8.025 35.745 15 CC_C6215U6216:A6187G6188_BB C 6215 ? B 6188 ? C 6216 ? B 6187 ? # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name 'SELENATE ION' _pdbx_entity_nonpoly.comp_id SE4 # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 3B31 _pdbx_initial_refinement_model.details 'PDB 3B31' #