data_1Y99 # _entry.id 1Y99 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.376 _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 1Y99 pdb_00001y99 10.2210/pdb1y99/pdb NDB AR0056 ? ? RCSB RCSB031276 ? ? WWPDB D_1000031276 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 462D 'HIV-1 subtype A DIS RNA duplex' unspecified PDB 1JJN 'HIV-1 subtype A DIS RNA kissing-complex' unspecified PDB 1K9W 'HIV-1 subtype A DIS RNA kissing-complex' unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1Y99 _pdbx_database_status.recvd_initial_deposition_date 2004-12-15 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _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 'Ennifar, E.' 1 'Yusupov, M.' 2 'Walter, P.' 3 'Marquet, R.' 4 'Ehresmann, B.' 5 'Ehresmann, C.' 6 'Dumas, P.' 7 # _citation.id primary _citation.title 'The crystal structure of the dimerization initiation site of genomic HIV-1 RNA reveals an extended duplex with two adenine bulges' _citation.journal_abbrev 'Structure Fold.Des.' _citation.journal_volume 7 _citation.page_first 1439 _citation.page_last 1449 _citation.year 1999 _citation.journal_id_ASTM FODEFH _citation.country UK _citation.journal_id_ISSN 0969-2126 _citation.journal_id_CSD 1263 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 10574792 _citation.pdbx_database_id_DOI '10.1016/S0969-2126(00)80033-7' # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ennifar, E.' 1 ? primary 'Yusupov, M.' 2 ? primary 'Walter, P.' 3 ? primary 'Marquet, R.' 4 ? primary 'Ehresmann, B.' 5 ? primary 'Ehresmann, C.' 6 ? primary 'Dumas, P.' 7 ? # _cell.entry_id 1Y99 _cell.length_a 45.698 _cell.length_b 31.422 _cell.length_c 51.188 _cell.angle_alpha 90.00 _cell.angle_beta 115.82 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Y99 _symmetry.space_group_name_H-M 'P 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 3 _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 "5'-R(*CP*UP*UP*GP*CP*UP*GP*AP*GP*GP*UP*GP*CP*AP*CP*AP*CP*AP*GP*CP*AP*AP*G)-3'" 7402.472 2 ? ? ? 'HIV-1 DIS RNA' 2 non-polymer syn 'MAGNESIUM ION' 24.305 7 ? ? ? ? 3 water nat water 18.015 82 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code CUUGCUGAGGUGCACACAGCAAG _entity_poly.pdbx_seq_one_letter_code_can CUUGCUGAGGUGCACACAGCAAG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # 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 U n 1 3 U n 1 4 G n 1 5 C n 1 6 U n 1 7 G n 1 8 A n 1 9 G n 1 10 G n 1 11 U n 1 12 G n 1 13 C n 1 14 A n 1 15 C n 1 16 A n 1 17 C n 1 18 A n 1 19 G n 1 20 C n 1 21 A n 1 22 A n 1 23 G n # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1Y99 _struct_ref.pdbx_db_accession 1Y99 _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # 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 1Y99 A 1 ? 23 ? 1Y99 1 ? 23 ? 1 23 2 1 1Y99 B 1 ? 23 ? 1Y99 1 ? 23 ? 1 23 # 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 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # _exptl.entry_id 1Y99 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.23 _exptl_crystal.density_percent_sol 50 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 310 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details 'MPD, spermine, KCl, MgCl2, Na Cacodylate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 310K' _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 MPD ? ? ? 1 2 1 spermine ? ? ? 1 3 1 KCl ? ? ? 1 4 1 MgCl2 ? ? ? 1 5 1 'Na Cacodylate' ? ? ? 1 6 1 H2O ? ? ? 1 7 2 MPD ? ? ? 1 8 2 KCl ? ? ? 1 9 2 MgCl2 ? ? ? 1 10 2 'Na Cacodylate' ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 110 _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 1999-05-19 _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 crystal _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9615 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'LURE BEAMLINE DW32' _diffrn_source.pdbx_synchrotron_site LURE _diffrn_source.pdbx_synchrotron_beamline DW32 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9615 # _reflns.entry_id 1Y99 _reflns.observed_criterion_sigma_I 0 _reflns.observed_criterion_sigma_F 0 _reflns.d_resolution_low 15 _reflns.d_resolution_high 2.2 _reflns.number_obs 6534 _reflns.number_all 6799 _reflns.percent_possible_obs 96.1 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.032 _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate 65.4 _reflns.pdbx_redundancy 2.0 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.20 _reflns_shell.d_res_low 2.28 _reflns_shell.percent_possible_all 85.5 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.351 _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1Y99 _refine.ls_number_reflns_obs 5001 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF 605002.23 _refine.pdbx_data_cutoff_low_absF 0.000000 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 9.97 _refine.ls_d_res_high 2.40 _refine.ls_percent_reflns_obs 96.4 _refine.ls_R_factor_obs 0.225 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.225 _refine.ls_R_factor_R_free 0.238 _refine.ls_R_factor_R_free_error 0.010 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10.4 _refine.ls_number_reflns_R_free 519 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean 40.1 _refine.aniso_B[1][1] -8.13 _refine.aniso_B[2][2] 13.52 _refine.aniso_B[3][3] -5.40 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] -0.63 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'FLAT MODEL' _refine.solvent_model_param_ksol 0.287313 _refine.solvent_model_param_bsol 29.8383 _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model 'PDB ENTRY 462D' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model RESTRAINED _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _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.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _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_analyze.entry_id 1Y99 _refine_analyze.Luzzati_coordinate_error_obs 0.38 _refine_analyze.Luzzati_sigma_a_obs 0.45 _refine_analyze.Luzzati_d_res_low_obs 5.00 _refine_analyze.Luzzati_coordinate_error_free 0.39 _refine_analyze.Luzzati_sigma_a_free 0.57 _refine_analyze.Luzzati_d_res_low_free ? _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 1048 _refine_hist.pdbx_number_atoms_ligand 7 _refine_hist.number_atoms_solvent 82 _refine_hist.number_atoms_total 1137 _refine_hist.d_res_high 2.40 _refine_hist.d_res_low 9.97 # 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 0.004 ? ? ? '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 0.7 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 10.0 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 1.23 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_mcbond_it 2.17 1.50 ? ? 'X-RAY DIFFRACTION' ? c_mcangle_it 3.15 2.00 ? ? 'X-RAY DIFFRACTION' ? c_scbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? c_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 6 _refine_ls_shell.d_res_high 2.40 _refine_ls_shell.d_res_low 2.55 _refine_ls_shell.number_reflns_R_work 653 _refine_ls_shell.R_factor_R_work 0.395 _refine_ls_shell.percent_reflns_obs 85.4 _refine_ls_shell.R_factor_R_free 0.464 _refine_ls_shell.R_factor_R_free_error 0.053 _refine_ls_shell.percent_reflns_R_free 10.4 _refine_ls_shell.number_reflns_R_free 76 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 WATER_REP.PARAM WATER.TOP 'X-RAY DIFFRACTION' 2 DNA-RNA.PARAM DNA-RNA.TOP 'X-RAY DIFFRACTION' 3 ION.PARAM ION.TOP 'X-RAY DIFFRACTION' 4 BRU_REP.PARAM ? 'X-RAY DIFFRACTION' # _struct.entry_id 1Y99 _struct.title 'HIV-1 subtype A DIS RNA duplex' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1Y99 _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'HIV-1, RNA, bulge, magnesium' # 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 1 ? C N N 2 ? D N N 2 ? E N N 2 ? F N N 2 ? G N N 2 ? H N N 2 ? I N N 2 ? J N N 3 ? K N N 3 ? # 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 ? ? A G 4 O6 ? ? ? 1_555 E MG . MG ? ? A G 4 A MG 720 1_555 ? ? ? ? ? ? ? 2.456 ? ? metalc2 metalc ? ? A A 8 OP2 B ? ? 1_555 F MG . MG ? ? A A 8 A MG 760 1_555 ? ? ? ? ? ? ? 2.355 ? ? metalc3 metalc ? ? A A 8 OP2 A ? ? 1_555 F MG . MG ? ? A A 8 A MG 760 1_555 ? ? ? ? ? ? ? 2.471 ? ? metalc4 metalc ? ? A G 9 N7 B ? ? 1_555 F MG . MG ? ? A G 9 A MG 760 1_555 ? ? ? ? ? ? ? 2.580 ? ? metalc5 metalc ? ? A G 9 N7 A ? ? 1_555 F MG . MG ? ? A G 9 A MG 760 1_555 ? ? ? ? ? ? ? 2.583 ? ? metalc6 metalc ? ? A G 9 OP1 A ? ? 1_555 I MG . MG ? ? A G 9 B MG 750 1_555 ? ? ? ? ? ? ? 2.870 ? ? metalc7 metalc ? ? A G 12 O6 ? ? ? 1_555 D MG . MG ? ? A G 12 A MG 710 1_555 ? ? ? ? ? ? ? 3.056 ? ? metalc8 metalc ? ? J HOH . O ? ? ? 1_555 F MG . MG ? ? A HOH 122 A MG 760 1_555 ? ? ? ? ? ? ? 2.072 ? ? metalc9 metalc ? ? J HOH . O ? ? ? 1_555 E MG . MG ? ? A HOH 128 A MG 720 1_555 ? ? ? ? ? ? ? 2.430 ? ? metalc10 metalc ? ? J HOH . O ? ? ? 1_555 G MG . MG ? ? A HOH 129 B MG 730 1_555 ? ? ? ? ? ? ? 2.739 ? ? metalc11 metalc ? ? J HOH . O ? ? ? 1_555 G MG . MG ? ? A HOH 149 B MG 730 1_555 ? ? ? ? ? ? ? 2.625 ? ? metalc12 metalc ? ? J HOH . O ? ? ? 1_555 D MG . MG ? ? A HOH 167 A MG 710 1_555 ? ? ? ? ? ? ? 2.547 ? ? metalc13 metalc ? ? J HOH . O ? ? ? 1_555 D MG . MG ? ? A HOH 172 A MG 710 1_555 ? ? ? ? ? ? ? 2.954 ? ? metalc14 metalc ? ? D MG . MG ? ? ? 1_555 K HOH . O ? ? A MG 710 B HOH 145 1_555 ? ? ? ? ? ? ? 2.982 ? ? metalc15 metalc ? ? E MG . MG ? ? ? 1_555 B C 20 N4 ? ? A MG 720 B C 20 1_555 ? ? ? ? ? ? ? 3.032 ? ? metalc16 metalc ? ? F MG . MG ? ? ? 1_555 J HOH . O ? ? A MG 760 A HOH 761 1_555 ? ? ? ? ? ? ? 2.139 ? ? metalc17 metalc ? ? F MG . MG ? ? ? 1_555 J HOH . O ? ? A MG 760 A HOH 762 1_555 ? ? ? ? ? ? ? 2.118 ? ? metalc18 metalc ? ? F MG . MG ? ? ? 1_555 J HOH . O ? ? A MG 760 A HOH 763 1_555 ? ? ? ? ? ? ? 2.337 ? ? metalc19 metalc ? ? B G 4 O6 ? ? ? 1_555 G MG . MG ? ? B G 4 B MG 730 1_555 ? ? ? ? ? ? ? 2.944 ? ? metalc20 metalc ? ? B G 9 OP1 ? ? ? 1_555 I MG . MG ? ? B G 9 B MG 750 1_555 ? ? ? ? ? ? ? 2.735 ? ? metalc21 metalc ? ? B G 10 OP2 ? ? ? 1_555 I MG . MG ? ? B G 10 B MG 750 1_555 ? ? ? ? ? ? ? 3.144 ? ? hydrog1 hydrog ? ? A C 1 N3 ? ? ? 1_555 B G 23 N1 ? ? A C 1 B G 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 1 N4 ? ? ? 1_555 B G 23 O6 ? ? A C 1 B G 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 1 O2 ? ? ? 1_555 B G 23 N2 ? ? A C 1 B G 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A U 2 N3 ? ? ? 1_555 B A 22 N1 ? ? A U 2 B A 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A U 2 O4 ? ? ? 1_555 B A 22 N6 ? ? A U 2 B A 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A U 3 N3 ? ? ? 1_555 B A 21 N1 ? ? A U 3 B A 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A U 3 O4 ? ? ? 1_555 B A 21 N6 ? ? A U 3 B A 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 4 N1 ? ? ? 1_555 B C 20 N3 ? ? A G 4 B C 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N2 ? ? ? 1_555 B C 20 O2 ? ? A G 4 B C 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 O6 ? ? ? 1_555 B C 20 N4 ? ? A G 4 B C 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 5 N3 ? ? ? 1_555 B G 19 N1 ? ? A C 5 B G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 5 N4 ? ? ? 1_555 B G 19 O6 ? ? A C 5 B G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 5 O2 ? ? ? 1_555 B G 19 N2 ? ? A C 5 B G 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A U 6 N3 ? ? ? 1_555 B A 18 N1 ? ? A U 6 B A 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A U 6 O4 ? ? ? 1_555 B A 18 N6 ? ? A U 6 B A 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 7 N1 A ? ? 1_555 B C 17 N3 ? ? A G 7 B C 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 7 N2 A ? ? 1_555 B C 17 O2 ? ? A G 7 B C 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 7 O6 A ? ? 1_555 B C 17 N4 ? ? A G 7 B C 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 9 N1 A ? ? 1_555 B A 16 N1 ? ? A G 9 B A 16 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog20 hydrog ? ? A G 9 O6 A ? ? 1_555 B A 16 N6 ? ? A G 9 B A 16 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog21 hydrog ? ? A G 10 N1 ? ? ? 1_555 B C 15 N3 ? ? A G 10 B C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A G 10 N2 ? ? ? 1_555 B C 15 O2 ? ? A G 10 B C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 10 O6 ? ? ? 1_555 B C 15 N4 ? ? A G 10 B C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A U 11 N3 ? ? ? 1_555 B A 14 N1 ? ? A U 11 B A 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A U 11 O4 ? ? ? 1_555 B A 14 N6 ? ? A U 11 B A 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 12 N1 ? ? ? 1_555 B C 13 N3 ? ? A G 12 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 12 N2 ? ? ? 1_555 B C 13 O2 ? ? A G 12 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 12 O6 ? ? ? 1_555 B C 13 N4 ? ? A G 12 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 13 N3 ? ? ? 1_555 B G 12 N1 ? ? A C 13 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 13 N4 ? ? ? 1_555 B G 12 O6 ? ? A C 13 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A C 13 O2 ? ? ? 1_555 B G 12 N2 ? ? A C 13 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A A 14 N1 ? ? ? 1_555 B U 11 N3 ? ? A A 14 B U 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A A 14 N6 ? ? ? 1_555 B U 11 O4 ? ? A A 14 B U 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 15 N3 ? ? ? 1_555 B G 10 N1 ? ? A C 15 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A C 15 N4 ? ? ? 1_555 B G 10 O6 ? ? A C 15 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A C 15 O2 ? ? ? 1_555 B G 10 N2 ? ? A C 15 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A A 16 N1 ? ? ? 1_555 B G 9 N1 ? ? A A 16 B G 9 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog38 hydrog ? ? A A 16 N6 ? ? ? 1_555 B G 9 O6 ? ? A A 16 B G 9 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog39 hydrog ? ? A C 17 N3 ? ? ? 1_555 B G 7 N1 ? ? A C 17 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A C 17 N4 ? ? ? 1_555 B G 7 O6 ? ? A C 17 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A C 17 O2 ? ? ? 1_555 B G 7 N2 ? ? A C 17 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A A 18 N1 ? ? ? 1_555 B U 6 N3 ? ? A A 18 B U 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A A 18 N6 ? ? ? 1_555 B U 6 O4 ? ? A A 18 B U 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A G 19 N1 ? ? ? 1_555 B C 5 N3 ? ? A G 19 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? A G 19 N2 ? ? ? 1_555 B C 5 O2 ? ? A G 19 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? A G 19 O6 ? ? ? 1_555 B C 5 N4 ? ? A G 19 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? A C 20 N3 ? ? ? 1_555 B G 4 N1 ? ? A C 20 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? A C 20 N4 ? ? ? 1_555 B G 4 O6 ? ? A C 20 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? A C 20 O2 ? ? ? 1_555 B G 4 N2 ? ? A C 20 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? A A 21 N1 ? ? ? 1_555 B U 3 N3 ? ? A A 21 B U 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? A A 21 N6 ? ? ? 1_555 B U 3 O4 ? ? A A 21 B U 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? A A 22 N1 ? ? ? 1_555 B U 2 N3 ? ? A A 22 B U 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? A A 22 N6 ? ? ? 1_555 B U 2 O4 ? ? A A 22 B U 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog54 hydrog ? ? A G 23 N1 ? ? ? 1_555 B C 1 N3 ? ? A G 23 B C 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog55 hydrog ? ? A G 23 N2 ? ? ? 1_555 B C 1 O2 ? ? A G 23 B C 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? A G 23 O6 ? ? ? 1_555 B C 1 N4 ? ? A G 23 B C 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # 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 710 ? 4 'BINDING SITE FOR RESIDUE MG A 710' AC2 Software A MG 720 ? 5 'BINDING SITE FOR RESIDUE MG A 720' AC3 Software B MG 730 ? 4 'BINDING SITE FOR RESIDUE MG B 730' AC4 Software B MG 750 ? 3 'BINDING SITE FOR RESIDUE MG B 750' AC5 Software A MG 760 ? 6 'BINDING SITE FOR RESIDUE MG A 760' # 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 4 G A 12 ? G A 12 . ? 1_555 ? 2 AC1 4 HOH J . ? HOH A 167 . ? 1_555 ? 3 AC1 4 HOH J . ? HOH A 172 . ? 1_555 ? 4 AC1 4 HOH K . ? HOH B 145 . ? 1_555 ? 5 AC2 5 U A 3 ? U A 3 . ? 1_555 ? 6 AC2 5 G A 4 ? G A 4 . ? 1_555 ? 7 AC2 5 HOH J . ? HOH A 128 . ? 1_555 ? 8 AC2 5 G B 19 ? G B 19 . ? 1_555 ? 9 AC2 5 C B 20 ? C B 20 . ? 1_555 ? 10 AC3 4 HOH J . ? HOH A 129 . ? 1_555 ? 11 AC3 4 HOH J . ? HOH A 149 . ? 1_555 ? 12 AC3 4 U B 3 ? U B 3 . ? 1_555 ? 13 AC3 4 G B 4 ? G B 4 . ? 1_555 ? 14 AC4 3 G A 9 ? G A 9 . ? 1_555 ? 15 AC4 3 G B 9 ? G B 9 . ? 1_555 ? 16 AC4 3 G B 10 ? G B 10 . ? 1_555 ? 17 AC5 6 A A 8 ? A A 8 . ? 1_555 ? 18 AC5 6 G A 9 ? G A 9 . ? 1_555 ? 19 AC5 6 HOH J . ? HOH A 122 . ? 1_555 ? 20 AC5 6 HOH J . ? HOH A 761 . ? 1_555 ? 21 AC5 6 HOH J . ? HOH A 762 . ? 1_555 ? 22 AC5 6 HOH J . ? HOH A 763 . ? 1_555 ? # _database_PDB_matrix.entry_id 1Y99 _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 # _atom_sites.entry_id 1Y99 _atom_sites.fract_transf_matrix[1][1] 0.021883 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.010588 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.031825 _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] 0.021702 _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_ _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 1 1 C C A . n A 1 2 U 2 2 2 U U A . n A 1 3 U 3 3 3 U U A . n A 1 4 G 4 4 4 G G A . n A 1 5 C 5 5 5 C C A . n A 1 6 U 6 6 6 U U A . n A 1 7 G 7 7 7 G G A . n A 1 8 A 8 8 8 A A A . n A 1 9 G 9 9 9 G G A . n A 1 10 G 10 10 10 G G A . n A 1 11 U 11 11 11 U U A . n A 1 12 G 12 12 12 G G A . n A 1 13 C 13 13 13 C C A . n A 1 14 A 14 14 14 A A A . n A 1 15 C 15 15 15 C C A . n A 1 16 A 16 16 16 A A A . n A 1 17 C 17 17 17 C C A . n A 1 18 A 18 18 18 A A A . n A 1 19 G 19 19 19 G G A . n A 1 20 C 20 20 20 C C A . n A 1 21 A 21 21 21 A A A . n A 1 22 A 22 22 22 A A A . n A 1 23 G 23 23 23 G G A . n B 1 1 C 1 1 1 C C B . n B 1 2 U 2 2 2 U U B . n B 1 3 U 3 3 3 U U B . n B 1 4 G 4 4 4 G G B . n B 1 5 C 5 5 5 C C B . n B 1 6 U 6 6 6 U U B . n B 1 7 G 7 7 7 G G B . n B 1 8 A 8 8 8 A A B . n B 1 9 G 9 9 9 G G B . n B 1 10 G 10 10 10 G G B . n B 1 11 U 11 11 11 U U B . n B 1 12 G 12 12 12 G G B . n B 1 13 C 13 13 13 C C B . n B 1 14 A 14 14 14 A A B . n B 1 15 C 15 15 15 C C B . n B 1 16 A 16 16 16 A A B . n B 1 17 C 17 17 17 C C B . n B 1 18 A 18 18 18 A A B . n B 1 19 G 19 19 19 G G B . n B 1 20 C 20 20 20 C C B . n B 1 21 A 21 21 21 A A B . n B 1 22 A 22 22 22 A A B . n B 1 23 G 23 23 23 G G 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 2 MG 1 700 700 MG MG A . D 2 MG 1 710 710 MG MG A . E 2 MG 1 720 720 MG MG A . F 2 MG 1 760 760 MG MG A . G 2 MG 1 730 730 MG MG B . H 2 MG 1 740 740 MG MG B . I 2 MG 1 750 750 MG MG B . J 3 HOH 1 100 100 HOH HOH A . J 3 HOH 2 102 102 HOH HOH A . J 3 HOH 3 104 104 HOH HOH A . J 3 HOH 4 105 105 HOH HOH A . J 3 HOH 5 106 106 HOH HOH A . J 3 HOH 6 107 107 HOH HOH A . J 3 HOH 7 109 109 HOH HOH A . J 3 HOH 8 110 110 HOH HOH A . J 3 HOH 9 114 114 HOH HOH A . J 3 HOH 10 117 117 HOH HOH A . J 3 HOH 11 118 118 HOH HOH A . J 3 HOH 12 121 121 HOH HOH A . J 3 HOH 13 122 122 HOH HOH A . J 3 HOH 14 126 126 HOH HOH A . J 3 HOH 15 128 128 HOH HOH A . J 3 HOH 16 129 129 HOH HOH A . J 3 HOH 17 132 132 HOH HOH A . J 3 HOH 18 136 136 HOH HOH A . J 3 HOH 19 137 137 HOH HOH A . J 3 HOH 20 139 139 HOH HOH A . J 3 HOH 21 140 140 HOH HOH A . J 3 HOH 22 141 141 HOH HOH A . J 3 HOH 23 142 142 HOH HOH A . J 3 HOH 24 143 143 HOH HOH A . J 3 HOH 25 144 144 HOH HOH A . J 3 HOH 26 146 146 HOH HOH A . J 3 HOH 27 147 147 HOH HOH A . J 3 HOH 28 149 149 HOH HOH A . J 3 HOH 29 150 150 HOH HOH A . J 3 HOH 30 151 151 HOH HOH A . J 3 HOH 31 152 152 HOH HOH A . J 3 HOH 32 154 154 HOH HOH A . J 3 HOH 33 156 156 HOH HOH A . J 3 HOH 34 158 158 HOH HOH A . J 3 HOH 35 161 161 HOH HOH A . J 3 HOH 36 162 162 HOH HOH A . J 3 HOH 37 163 163 HOH HOH A . J 3 HOH 38 164 164 HOH HOH A . J 3 HOH 39 167 167 HOH HOH A . J 3 HOH 40 168 168 HOH HOH A . J 3 HOH 41 170 170 HOH HOH A . J 3 HOH 42 171 171 HOH HOH A . J 3 HOH 43 172 172 HOH HOH A . J 3 HOH 44 173 173 HOH HOH A . J 3 HOH 45 175 175 HOH HOH A . J 3 HOH 46 177 177 HOH HOH A . J 3 HOH 47 761 761 HOH HOH A . J 3 HOH 48 762 762 HOH HOH A . J 3 HOH 49 763 763 HOH HOH A . K 3 HOH 1 101 101 HOH HOH B . K 3 HOH 2 103 103 HOH HOH B . K 3 HOH 3 108 108 HOH HOH B . K 3 HOH 4 111 111 HOH HOH B . K 3 HOH 5 112 112 HOH HOH B . K 3 HOH 6 113 113 HOH HOH B . K 3 HOH 7 115 115 HOH HOH B . K 3 HOH 8 116 116 HOH HOH B . K 3 HOH 9 119 119 HOH HOH B . K 3 HOH 10 120 120 HOH HOH B . K 3 HOH 11 123 123 HOH HOH B . K 3 HOH 12 124 124 HOH HOH B . K 3 HOH 13 125 125 HOH HOH B . K 3 HOH 14 127 127 HOH HOH B . K 3 HOH 15 130 130 HOH HOH B . K 3 HOH 16 131 131 HOH HOH B . K 3 HOH 17 133 133 HOH HOH B . K 3 HOH 18 134 134 HOH HOH B . K 3 HOH 19 135 135 HOH HOH B . K 3 HOH 20 138 138 HOH HOH B . K 3 HOH 21 145 145 HOH HOH B . K 3 HOH 22 148 148 HOH HOH B . K 3 HOH 23 153 153 HOH HOH B . K 3 HOH 24 155 155 HOH HOH B . K 3 HOH 25 157 157 HOH HOH B . K 3 HOH 26 159 159 HOH HOH B . K 3 HOH 27 160 160 HOH HOH B . K 3 HOH 28 165 165 HOH HOH B . K 3 HOH 29 166 166 HOH HOH B . K 3 HOH 30 169 169 HOH HOH B . K 3 HOH 31 174 174 HOH HOH B . K 3 HOH 32 176 176 HOH HOH B . K 3 HOH 33 178 178 HOH HOH B . # _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,H,I,J,K # _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_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 B HOH 127 ? K HOH . 2 1 B HOH 169 ? K HOH . 3 1 B HOH 176 ? K HOH . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O6 ? A G 4 ? A G 4 ? 1_555 MG ? E MG . ? A MG 720 ? 1_555 O ? J HOH . ? A HOH 128 ? 1_555 127.6 ? 2 O6 ? A G 4 ? A G 4 ? 1_555 MG ? E MG . ? A MG 720 ? 1_555 N4 ? B C 20 ? B C 20 ? 1_555 68.2 ? 3 O ? J HOH . ? A HOH 128 ? 1_555 MG ? E MG . ? A MG 720 ? 1_555 N4 ? B C 20 ? B C 20 ? 1_555 163.4 ? 4 OP2 B A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 OP2 A A A 8 ? A A 8 ? 1_555 16.2 ? 5 OP2 B A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 N7 B A G 9 ? A G 9 ? 1_555 81.9 ? 6 OP2 A A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 N7 B A G 9 ? A G 9 ? 1_555 96.1 ? 7 OP2 B A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 N7 A A G 9 ? A G 9 ? 1_555 86.7 ? 8 OP2 A A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 N7 A A G 9 ? A G 9 ? 1_555 101.0 ? 9 N7 B A G 9 ? A G 9 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 N7 A A G 9 ? A G 9 ? 1_555 5.0 ? 10 OP2 B A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 122 ? 1_555 104.6 ? 11 OP2 A A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 122 ? 1_555 110.1 ? 12 N7 B A G 9 ? A G 9 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 122 ? 1_555 98.9 ? 13 N7 A A G 9 ? A G 9 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 122 ? 1_555 96.4 ? 14 OP2 B A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 761 ? 1_555 81.3 ? 15 OP2 A A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 761 ? 1_555 65.6 ? 16 N7 B A G 9 ? A G 9 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 761 ? 1_555 157.4 ? 17 N7 A A G 9 ? A G 9 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 761 ? 1_555 161.7 ? 18 O ? J HOH . ? A HOH 122 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 761 ? 1_555 100.0 ? 19 OP2 B A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 762 ? 1_555 79.9 ? 20 OP2 A A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 762 ? 1_555 75.0 ? 21 N7 B A G 9 ? A G 9 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 762 ? 1_555 78.6 ? 22 N7 A A G 9 ? A G 9 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 762 ? 1_555 80.7 ? 23 O ? J HOH . ? A HOH 122 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 762 ? 1_555 174.6 ? 24 O ? J HOH . ? A HOH 761 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 762 ? 1_555 83.5 ? 25 OP2 B A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 763 ? 1_555 155.9 ? 26 OP2 A A A 8 ? A A 8 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 763 ? 1_555 151.4 ? 27 N7 B A G 9 ? A G 9 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 763 ? 1_555 85.8 ? 28 N7 A A G 9 ? A G 9 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 763 ? 1_555 81.8 ? 29 O ? J HOH . ? A HOH 122 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 763 ? 1_555 97.8 ? 30 O ? J HOH . ? A HOH 761 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 763 ? 1_555 103.8 ? 31 O ? J HOH . ? A HOH 762 ? 1_555 MG ? F MG . ? A MG 760 ? 1_555 O ? J HOH . ? A HOH 763 ? 1_555 77.4 ? 32 OP1 A A G 9 ? A G 9 ? 1_555 MG ? I MG . ? B MG 750 ? 1_555 OP1 ? B G 9 ? B G 9 ? 1_555 101.8 ? 33 OP1 A A G 9 ? A G 9 ? 1_555 MG ? I MG . ? B MG 750 ? 1_555 OP2 ? B G 10 ? B G 10 ? 1_555 137.3 ? 34 OP1 ? B G 9 ? B G 9 ? 1_555 MG ? I MG . ? B MG 750 ? 1_555 OP2 ? B G 10 ? B G 10 ? 1_555 71.5 ? 35 O6 ? A G 12 ? A G 12 ? 1_555 MG ? D MG . ? A MG 710 ? 1_555 O ? J HOH . ? A HOH 167 ? 1_555 85.1 ? 36 O6 ? A G 12 ? A G 12 ? 1_555 MG ? D MG . ? A MG 710 ? 1_555 O ? J HOH . ? A HOH 172 ? 1_555 70.1 ? 37 O ? J HOH . ? A HOH 167 ? 1_555 MG ? D MG . ? A MG 710 ? 1_555 O ? J HOH . ? A HOH 172 ? 1_555 79.5 ? 38 O6 ? A G 12 ? A G 12 ? 1_555 MG ? D MG . ? A MG 710 ? 1_555 O ? K HOH . ? B HOH 145 ? 1_555 136.3 ? 39 O ? J HOH . ? A HOH 167 ? 1_555 MG ? D MG . ? A MG 710 ? 1_555 O ? K HOH . ? B HOH 145 ? 1_555 102.2 ? 40 O ? J HOH . ? A HOH 172 ? 1_555 MG ? D MG . ? A MG 710 ? 1_555 O ? K HOH . ? B HOH 145 ? 1_555 153.4 ? 41 O ? J HOH . ? A HOH 129 ? 1_555 MG ? G MG . ? B MG 730 ? 1_555 O ? J HOH . ? A HOH 149 ? 1_555 125.3 ? 42 O ? J HOH . ? A HOH 129 ? 1_555 MG ? G MG . ? B MG 730 ? 1_555 O6 ? B G 4 ? B G 4 ? 1_555 90.3 ? 43 O ? J HOH . ? A HOH 149 ? 1_555 MG ? G MG . ? B MG 730 ? 1_555 O6 ? B G 4 ? B G 4 ? 1_555 99.8 ? # 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 2004-12-21 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2023-08-23 # _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' 6 4 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' pdbx_initial_refinement_model 5 4 'Structure model' pdbx_struct_conn_angle 6 4 'Structure model' struct_conn 7 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' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_alt_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_asym_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 15 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 16 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 17 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_alt_id' 18 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 19 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 20 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 21 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 22 4 'Structure model' '_pdbx_struct_conn_angle.value' 23 4 'Structure model' '_struct_conn.pdbx_dist_value' 24 4 'Structure model' '_struct_conn.pdbx_ptnr1_label_alt_id' 25 4 'Structure model' '_struct_conn.pdbx_ptnr2_label_alt_id' 26 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 27 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 28 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 29 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 30 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 31 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 32 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 33 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 34 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 35 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 36 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 37 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 38 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 39 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 40 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 41 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 42 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CNS refinement 1.1 ? 1 DENZO 'data reduction' . ? 2 SCALEPACK 'data scaling' . ? 3 AMoRE phasing . ? 4 # loop_ _pdbx_validate_polymer_linkage.id _pdbx_validate_polymer_linkage.PDB_model_num _pdbx_validate_polymer_linkage.auth_atom_id_1 _pdbx_validate_polymer_linkage.auth_asym_id_1 _pdbx_validate_polymer_linkage.auth_comp_id_1 _pdbx_validate_polymer_linkage.auth_seq_id_1 _pdbx_validate_polymer_linkage.PDB_ins_code_1 _pdbx_validate_polymer_linkage.label_alt_id_1 _pdbx_validate_polymer_linkage.auth_atom_id_2 _pdbx_validate_polymer_linkage.auth_asym_id_2 _pdbx_validate_polymer_linkage.auth_comp_id_2 _pdbx_validate_polymer_linkage.auth_seq_id_2 _pdbx_validate_polymer_linkage.PDB_ins_code_2 _pdbx_validate_polymer_linkage.label_alt_id_2 _pdbx_validate_polymer_linkage.dist 1 1 "O3'" A U 6 ? ? P A G 7 ? B 2.72 2 1 "O3'" A G 9 ? A P A G 10 ? ? 2.71 # 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 HOH O O N N 111 HOH H1 H N N 112 HOH H2 H N N 113 MG MG MG N N 114 U OP3 O N N 115 U P P N N 116 U OP1 O N N 117 U OP2 O N N 118 U "O5'" O N N 119 U "C5'" C N N 120 U "C4'" C N R 121 U "O4'" O N N 122 U "C3'" C N S 123 U "O3'" O N N 124 U "C2'" C N R 125 U "O2'" O N N 126 U "C1'" C N R 127 U N1 N N N 128 U C2 C N N 129 U O2 O N N 130 U N3 N N N 131 U C4 C N N 132 U O4 O N N 133 U C5 C N N 134 U C6 C N N 135 U HOP3 H N N 136 U HOP2 H N N 137 U "H5'" H N N 138 U "H5''" H N N 139 U "H4'" H N N 140 U "H3'" H N N 141 U "HO3'" H N N 142 U "H2'" H N N 143 U "HO2'" H N N 144 U "H1'" H N N 145 U H3 H N N 146 U H5 H N N 147 U H6 H N N 148 # 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 HOH O H1 sing N N 116 HOH O H2 sing N N 117 U OP3 P sing N N 118 U OP3 HOP3 sing N N 119 U P OP1 doub N N 120 U P OP2 sing N N 121 U P "O5'" sing N N 122 U OP2 HOP2 sing N N 123 U "O5'" "C5'" sing N N 124 U "C5'" "C4'" sing N N 125 U "C5'" "H5'" sing N N 126 U "C5'" "H5''" sing N N 127 U "C4'" "O4'" sing N N 128 U "C4'" "C3'" sing N N 129 U "C4'" "H4'" sing N N 130 U "O4'" "C1'" sing N N 131 U "C3'" "O3'" sing N N 132 U "C3'" "C2'" sing N N 133 U "C3'" "H3'" sing N N 134 U "O3'" "HO3'" sing N N 135 U "C2'" "O2'" sing N N 136 U "C2'" "C1'" sing N N 137 U "C2'" "H2'" sing N N 138 U "O2'" "HO2'" sing N N 139 U "C1'" N1 sing N N 140 U "C1'" "H1'" sing N N 141 U N1 C2 sing N N 142 U N1 C6 sing N N 143 U C2 O2 doub N N 144 U C2 N3 sing N N 145 U N3 C4 sing N N 146 U N3 H3 sing N N 147 U C4 O4 doub N N 148 U C4 C5 sing N N 149 U C5 C6 doub N N 150 U C5 H5 sing N N 151 U C6 H6 sing N N 152 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1Y99 'double helix' 1Y99 'a-form double helix' 1Y99 'bulge loop' 1Y99 '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 C 1 1_555 B G 23 1_555 0.035 -0.161 0.051 9.446 -24.754 0.691 1 A_C1:G23_B A 1 ? B 23 ? 19 1 1 A U 2 1_555 B A 22 1_555 -0.435 -0.416 0.651 -2.436 -13.483 1.979 2 A_U2:A22_B A 2 ? B 22 ? 20 1 1 A U 3 1_555 B A 21 1_555 -0.353 -0.217 0.390 -1.498 -11.247 0.120 3 A_U3:A21_B A 3 ? B 21 ? 20 1 1 A G 4 1_555 B C 20 1_555 -0.775 -0.214 -0.053 -3.068 -13.127 4.710 4 A_G4:C20_B A 4 ? B 20 ? 19 1 1 A C 5 1_555 B G 19 1_555 0.064 -0.125 0.248 -4.648 -14.008 4.212 5 A_C5:G19_B A 5 ? B 19 ? 19 1 1 A U 6 1_555 B A 18 1_555 0.244 -0.312 0.429 -4.126 -10.417 1.627 6 A_U6:A18_B A 6 ? B 18 ? 20 1 1 A G 7 1_555 B C 17 1_555 -0.529 -0.182 -0.336 -2.590 -3.738 -0.058 7 A_G7:C17_B A 7 ? B 17 ? 19 1 1 A G 9 1_555 B A 16 1_555 -0.594 1.461 -0.417 16.208 -21.691 -13.840 8 A_G9:A16_B A 9 ? B 16 ? 8 ? 1 A G 10 1_555 B C 15 1_555 -0.292 -0.251 0.300 -3.109 -10.141 -2.064 9 A_G10:C15_B A 10 ? B 15 ? 19 1 1 A U 11 1_555 B A 14 1_555 0.194 -0.211 0.151 -1.162 -10.755 -2.284 10 A_U11:A14_B A 11 ? B 14 ? 20 1 1 A G 12 1_555 B C 13 1_555 -0.102 -0.103 -0.137 -6.973 -15.515 4.775 11 A_G12:C13_B A 12 ? B 13 ? 19 1 1 A C 13 1_555 B G 12 1_555 0.277 -0.274 0.036 -0.339 -10.896 1.352 12 A_C13:G12_B A 13 ? B 12 ? 19 1 1 A A 14 1_555 B U 11 1_555 0.085 -0.304 -0.127 -3.588 -11.236 0.899 13 A_A14:U11_B A 14 ? B 11 ? 20 1 1 A C 15 1_555 B G 10 1_555 0.498 -0.254 0.272 4.539 -11.223 -1.019 14 A_C15:G10_B A 15 ? B 10 ? 19 1 1 A A 16 1_555 B G 9 1_555 0.123 1.562 -0.415 -18.343 -21.974 -1.741 15 A_A16:G9_B A 16 ? B 9 ? 8 ? 1 A C 17 1_555 B G 7 1_555 -0.010 -0.323 -0.020 2.113 -10.223 1.379 16 A_C17:G7_B A 17 ? B 7 ? 19 1 1 A A 18 1_555 B U 6 1_555 -0.050 -0.277 0.160 5.806 -17.231 4.989 17 A_A18:U6_B A 18 ? B 6 ? 20 1 1 A G 19 1_555 B C 5 1_555 -0.407 -0.247 -0.025 4.667 -14.745 0.200 18 A_G19:C5_B A 19 ? B 5 ? 19 1 1 A C 20 1_555 B G 4 1_555 0.479 -0.172 -0.211 7.208 -14.834 2.695 19 A_C20:G4_B A 20 ? B 4 ? 19 1 1 A A 21 1_555 B U 3 1_555 0.198 -0.047 0.074 -1.947 -12.997 3.201 20 A_A21:U3_B A 21 ? B 3 ? 20 1 1 A A 22 1_555 B U 2 1_555 0.629 -0.128 0.380 3.381 -17.277 -2.207 21 A_A22:U2_B A 22 ? B 2 ? 20 1 1 A G 23 1_555 B C 1 1_555 -0.525 -0.094 0.075 -7.156 -23.579 -1.699 22 A_G23:C1_B A 23 ? B 1 ? 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 C 1 1_555 B G 23 1_555 A U 2 1_555 B A 22 1_555 -0.223 -1.345 3.399 -7.211 10.951 34.195 -3.636 -0.628 2.839 17.831 11.741 36.553 1 AA_C1U2:A22G23_BB A 1 ? B 23 ? A 2 ? B 22 ? 1 A U 2 1_555 B A 22 1_555 A U 3 1_555 B A 21 1_555 -0.060 -1.354 3.066 -0.380 6.100 33.574 -3.182 0.049 2.785 10.452 0.651 34.110 2 AA_U2U3:A21A22_BB A 2 ? B 22 ? A 3 ? B 21 ? 1 A U 3 1_555 B A 21 1_555 A G 4 1_555 B C 20 1_555 0.160 -1.611 3.080 0.967 10.798 31.039 -4.449 -0.139 2.404 19.450 -1.742 32.834 3 AA_U3G4:C20A21_BB A 3 ? B 21 ? A 4 ? B 20 ? 1 A G 4 1_555 B C 20 1_555 A C 5 1_555 B G 19 1_555 -0.105 -1.124 3.308 -2.787 3.213 37.546 -2.150 -0.196 3.204 4.973 4.312 37.777 4 AA_G4C5:G19C20_BB A 4 ? B 20 ? A 5 ? B 19 ? 1 A C 5 1_555 B G 19 1_555 A U 6 1_555 B A 18 1_555 0.122 -1.474 3.160 0.333 11.566 33.820 -3.905 -0.155 2.537 19.197 -0.553 35.690 5 AA_C5U6:A18G19_BB A 5 ? B 19 ? A 6 ? B 18 ? 1 A U 6 1_555 B A 18 1_555 A G 7 1_555 B C 17 1_555 -0.187 -1.394 3.046 4.549 21.463 27.839 -4.822 0.844 1.562 38.016 -8.057 35.311 6 AA_U6G7:C17A18_BB A 6 ? B 18 ? A 7 ? B 17 ? 1 A G 7 1_555 B C 17 1_555 A G 9 1_555 B A 16 1_555 -1.621 -0.288 3.021 3.379 -1.369 36.195 -0.289 3.022 2.871 -2.197 -5.422 36.372 7 AA_G7G9:A16C17_BB A 7 ? B 17 ? A 9 ? B 16 ? 1 A G 9 1_555 B A 16 1_555 A G 10 1_555 B C 15 1_555 0.339 -2.210 3.362 -9.441 12.129 37.028 -4.510 -1.490 2.398 18.168 14.142 39.988 8 AA_G9G10:C15A16_BB A 9 ? B 16 ? A 10 ? B 15 ? 1 A G 10 1_555 B C 15 1_555 A U 11 1_555 B A 14 1_555 -0.468 -1.735 3.184 0.727 1.843 36.485 -3.012 0.843 3.086 2.941 -1.159 36.536 9 AA_G10U11:A14C15_BB A 10 ? B 15 ? A 11 ? B 14 ? 1 A U 11 1_555 B A 14 1_555 A G 12 1_555 B C 13 1_555 0.640 -1.558 3.291 4.368 8.726 29.012 -4.603 -0.388 2.780 16.828 -8.425 30.575 10 AA_U11G12:C13A14_BB A 11 ? B 14 ? A 12 ? B 13 ? 1 A G 12 1_555 B C 13 1_555 A C 13 1_555 B G 12 1_555 -0.316 -1.282 3.041 -3.272 4.347 34.934 -2.696 0.081 2.882 7.187 5.409 35.342 11 AA_G12C13:G12C13_BB A 12 ? B 13 ? A 13 ? B 12 ? 1 A C 13 1_555 B G 12 1_555 A A 14 1_555 B U 11 1_555 -0.088 -1.569 3.289 1.605 11.894 29.602 -4.839 0.428 2.482 22.166 -2.992 31.892 12 AA_C13A14:U11G12_BB A 13 ? B 12 ? A 14 ? B 11 ? 1 A A 14 1_555 B U 11 1_555 A C 15 1_555 B G 10 1_555 0.448 -1.529 3.032 -1.370 0.737 35.473 -2.606 -0.919 2.982 1.209 2.247 35.506 13 AA_A14C15:G10U11_BB A 14 ? B 11 ? A 15 ? B 10 ? 1 A C 15 1_555 B G 10 1_555 A A 16 1_555 B G 9 1_555 0.424 -2.056 3.546 10.491 11.544 31.787 -5.102 0.858 2.669 19.666 -17.871 35.319 14 AA_C15A16:G9G10_BB A 15 ? B 10 ? A 16 ? B 9 ? 1 A A 16 1_555 B G 9 1_555 A C 17 1_555 B G 7 1_555 1.290 0.179 2.937 -6.321 0.518 37.967 0.215 -2.638 2.698 0.789 9.633 38.474 15 AA_A16C17:G7G9_BB A 16 ? B 9 ? A 17 ? B 7 ? 1 A C 17 1_555 B G 7 1_555 A A 18 1_555 B U 6 1_555 -0.243 -1.289 3.133 -1.438 11.336 28.990 -4.332 0.208 2.475 21.614 2.741 31.116 16 AA_C17A18:U6G7_BB A 17 ? B 7 ? A 18 ? B 6 ? 1 A A 18 1_555 B U 6 1_555 A G 19 1_555 B C 5 1_555 -0.534 -1.441 3.221 -2.045 13.177 30.353 -4.542 0.626 2.433 23.778 3.690 33.090 17 AA_A18G19:C5U6_BB A 18 ? B 6 ? A 19 ? B 5 ? 1 A G 19 1_555 B C 5 1_555 A C 20 1_555 B G 4 1_555 0.411 -1.119 3.159 1.693 3.385 36.783 -2.200 -0.431 3.063 5.346 -2.674 36.971 18 AA_G19C20:G4C5_BB A 19 ? B 5 ? A 20 ? B 4 ? 1 A C 20 1_555 B G 4 1_555 A A 21 1_555 B U 3 1_555 -0.395 -1.334 3.370 -0.345 13.259 32.121 -4.182 0.612 2.635 22.787 0.592 34.685 19 AA_C20A21:U3G4_BB A 20 ? B 4 ? A 21 ? B 3 ? 1 A A 21 1_555 B U 3 1_555 A A 22 1_555 B U 2 1_555 -0.336 -1.041 3.034 -1.332 2.648 34.164 -2.147 0.378 2.958 4.497 2.263 34.289 20 AA_A21A22:U2U3_BB A 21 ? B 3 ? A 22 ? B 2 ? 1 A A 22 1_555 B U 2 1_555 A G 23 1_555 B C 1 1_555 0.456 -1.229 3.383 6.299 10.546 33.967 -3.473 0.151 2.921 17.362 -10.370 36.059 21 AA_A22G23:C1U2_BB A 22 ? B 2 ? A 23 ? B 1 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MAGNESIUM ION' MG 3 water HOH # _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 462D _pdbx_initial_refinement_model.details 'PDB ENTRY 462D' #