data_3C7R # _entry.id 3C7R # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.380 _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 3C7R pdb_00003c7r 10.2210/pdb3c7r/pdb NDB DR0044 ? ? RCSB RCSB046447 ? ? WWPDB D_1000046447 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 2QEK 'free subtype F extended duplex' unspecified PDB 3C44 'subtype F HIV-1 DIS extended duplex bound to paromomycin' unspecified PDB 3C3Z 'subtype F HIV-1 DIS extended duplex bound to ribostamycin' unspecified PDB 3C5D 'subtype F HIV-1 DIS extended duplex bound to lividomycin' unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3C7R _pdbx_database_status.recvd_initial_deposition_date 2008-02-08 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _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.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Freisz, S.' 1 ? 'Lang, K.' 2 ? 'Micura, R.' 3 ? 'Dumas, P.' 4 ? 'Ennifar, E.' 5 ? # _citation.id primary _citation.title 'Binding of aminoglycoside antibiotics to the duplex form of the HIV-1 genomic RNA dimerization initiation site.' _citation.journal_abbrev Angew.Chem.Int.Ed.Engl. _citation.journal_volume 47 _citation.page_first 4110 _citation.page_last 4113 _citation.year 2008 _citation.journal_id_ASTM ACIEAY _citation.country GE _citation.journal_id_ISSN 0570-0833 _citation.journal_id_CSD 0179 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 18435520 _citation.pdbx_database_id_DOI 10.1002/anie.200800726 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Freisz, S.' 1 ? primary 'Lang, K.' 2 ? primary 'Micura, R.' 3 ? primary 'Dumas, P.' 4 ? primary 'Ennifar, E.' 5 ? # _cell.entry_id 3C7R _cell.length_a 100.130 _cell.length_b 30.330 _cell.length_c 58.330 _cell.angle_alpha 90.00 _cell.angle_beta 120.79 _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 3C7R _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _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 'HIV-1 subtype F genomic RNA' 7463.459 2 ? ? ? ? 2 non-polymer syn NEOMYCIN 614.644 2 ? ? ? ? 3 non-polymer syn 'POTASSIUM ION' 39.098 2 ? ? ? ? 4 water nat water 18.015 96 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polydeoxyribonucleotide/polyribonucleotide hybrid' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'CU(UMS)GCUGAAGUGCACACAGCAAG' _entity_poly.pdbx_seq_one_letter_code_can CUUGCUGAAGUGCACACAGCAAG _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 UMS n 1 4 G n 1 5 C n 1 6 U n 1 7 G n 1 8 A n 1 9 A 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.db_name PDB _struct_ref.db_code 3C7R _struct_ref.pdbx_db_accession 3C7R _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # 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 3C7R A 1 ? 23 ? 3C7R 1 ? 23 ? 1 23 2 1 3C7R B 1 ? 23 ? 3C7R 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 K non-polymer . 'POTASSIUM ION' ? 'K 1' 39.098 NMY non-polymer . NEOMYCIN 'MYCIFRADIN; NEOMAS; PIMAVECORT; VONAMYCIN' 'C23 H46 N6 O13' 614.644 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 UMS 'DNA linking' n "2'-METHYLSELENYL-2'-DEOXYURIDINE-5'-PHOSPHATE" ? 'C10 H15 N2 O8 P Se' 401.168 # _exptl.entry_id 3C7R _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.55 _exptl_crystal.density_percent_sol 51.74 _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 6.5 _exptl_crystal_grow.pdbx_details 'MPD, KCl, MgCl2, Na cacodylate, pH 6.5, 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.conc _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.details 1 1 1 'Na cacodylate' ? ? ? 1 2 1 MgCl2 ? ? ? 1 3 1 KCl ? ? ? 1 4 1 MPD ? ? ? 1 5 2 'Na cacodylate' ? ? ? 1 6 2 MgCl2 ? ? ? 1 7 2 KCl ? ? ? 1 8 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 90 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 4' _diffrn_detector.pdbx_collection_date 2006-11-19 _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 0.933 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ESRF BEAMLINE ID14-2' _diffrn_source.pdbx_synchrotron_site ESRF _diffrn_source.pdbx_synchrotron_beamline ID14-2 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.933 # _reflns.entry_id 3C7R _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 29.07 _reflns.d_resolution_high 1.7 _reflns.number_obs 31607 _reflns.number_all ? _reflns.percent_possible_obs 97.5 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.039 _reflns.pdbx_netI_over_sigmaI 43.2 _reflns.B_iso_Wilson_estimate 30.6 _reflns.pdbx_redundancy 8.5 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_Rrim_I_all ? # _reflns_shell.d_res_high 1.70 _reflns_shell.d_res_low 1.75 _reflns_shell.percent_possible_all 79.1 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.354 _reflns_shell.meanI_over_sigI_obs 3.3 _reflns_shell.pdbx_redundancy 6.4 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 2156 _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 _reflns_shell.pdbx_CC_half ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_Rrim_I_all ? # _refine.entry_id 3C7R _refine.ls_number_reflns_obs 31550 _refine.ls_number_reflns_all 31607 _refine.pdbx_ls_sigma_I 0 _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF 791991.66 _refine.pdbx_data_cutoff_low_absF 0.000000 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 29.07 _refine.ls_d_res_high 1.70 _refine.ls_percent_reflns_obs 97.2 _refine.ls_R_factor_obs 0.251 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.251 _refine.ls_R_factor_R_free 0.261 _refine.ls_R_factor_R_free_error 0.005 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 7.9 _refine.ls_number_reflns_R_free 2485 _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 46.4 _refine.aniso_B[1][1] -8.60 _refine.aniso_B[2][2] 20.87 _refine.aniso_B[3][3] -12.27 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] -1.75 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'FLAT MODEL' _refine.solvent_model_param_ksol 0.466491 _refine.solvent_model_param_bsol 70.0801 _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 3C3Z _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_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _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_analyze.entry_id 3C7R _refine_analyze.Luzzati_coordinate_error_obs 0.36 _refine_analyze.Luzzati_sigma_a_obs 0.51 _refine_analyze.Luzzati_d_res_low_obs 5.00 _refine_analyze.Luzzati_coordinate_error_free 0.33 _refine_analyze.Luzzati_sigma_a_free 0.58 _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 980 _refine_hist.pdbx_number_atoms_ligand 86 _refine_hist.number_atoms_solvent 96 _refine_hist.number_atoms_total 1162 _refine_hist.d_res_high 1.70 _refine_hist.d_res_low 29.07 # 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 0.007 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.2 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 9.6 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 4.92 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 6 _refine_ls_shell.d_res_high 1.70 _refine_ls_shell.d_res_low 1.81 _refine_ls_shell.number_reflns_R_work 4345 _refine_ls_shell.R_factor_R_work 0.498 _refine_ls_shell.percent_reflns_obs 87.0 _refine_ls_shell.R_factor_R_free 0.543 _refine_ls_shell.R_factor_R_free_error 0.029 _refine_ls_shell.percent_reflns_R_free 7.7 _refine_ls_shell.number_reflns_R_free 362 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs 4768 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.R_factor_obs ? # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 dna-rna_multi_end.param dna-rna.top 'X-RAY DIFFRACTION' 2 neomycine.param neomycine.top 'X-RAY DIFFRACTION' 3 water_rep.param water_rep.top 'X-RAY DIFFRACTION' 4 ion.param ion.top 'X-RAY DIFFRACTION' 5 ums_xplor.param ums_xplor.top 'X-RAY DIFFRACTION' # _struct.entry_id 3C7R _struct.title 'Crystal Structure of HIV-1 subtype F DIS extended duplex RNA bound to neomycin' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3C7R _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'HIV-1, RNA, Aminoglycoside, neomycin, extended duplex' # 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 3 ? E N N 2 ? F N N 3 ? G N N 4 ? H N N 4 ? # 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 covale1 covale both ? A U 2 "O3'" ? ? ? 1_555 A UMS 3 P ? ? A U 2 A UMS 3 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale2 covale both ? A UMS 3 "O3'" ? ? ? 1_555 A G 4 P ? ? A UMS 3 A G 4 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale3 covale both ? B U 2 "O3'" ? ? ? 1_555 B UMS 3 P ? ? B U 2 B UMS 3 1_555 ? ? ? ? ? ? ? 1.602 ? ? covale4 covale both ? B UMS 3 "O3'" ? ? ? 1_555 B G 4 P ? ? B UMS 3 B G 4 1_555 ? ? ? ? ? ? ? 1.601 ? ? metalc1 metalc ? ? D K . K ? ? ? 1_555 G HOH . O ? ? A K 25 A HOH 51 1_555 ? ? ? ? ? ? ? 2.830 ? ? metalc2 metalc ? ? B UMS 3 O4 ? ? ? 1_555 F K . K ? ? B UMS 3 B K 25 1_555 ? ? ? ? ? ? ? 2.729 ? ? metalc3 metalc ? ? B G 4 O6 ? ? ? 1_555 F K . K ? ? B G 4 B K 25 1_555 ? ? ? ? ? ? ? 2.768 ? ? metalc4 metalc ? ? F K . K ? ? ? 1_555 H HOH . O ? ? B K 25 B HOH 63 1_555 ? ? ? ? ? ? ? 2.830 ? ? 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 UMS 3 N3 ? ? ? 1_555 B A 21 N1 ? ? A UMS 3 B A 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A UMS 3 O4 ? ? ? 1_555 B A 21 N6 ? ? A UMS 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 ? ? ? 1_555 B C 17 N3 ? ? A G 7 B C 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 7 N2 ? ? ? 1_555 B C 17 O2 ? ? A G 7 B C 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 7 O6 ? ? ? 1_555 B C 17 N4 ? ? A G 7 B C 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 10 N1 ? ? ? 1_555 B C 15 N3 ? ? A G 10 B C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A G 10 N2 ? ? ? 1_555 B C 15 O2 ? ? A G 10 B C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 10 O6 ? ? ? 1_555 B C 15 N4 ? ? A G 10 B C 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A U 11 N3 ? ? ? 1_555 B A 14 N1 ? ? A U 11 B A 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A U 11 O4 ? ? ? 1_555 B A 14 N6 ? ? A U 11 B A 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 12 N1 ? ? ? 1_555 B C 13 N3 ? ? A G 12 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 12 N2 ? ? ? 1_555 B C 13 O2 ? ? A G 12 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 12 O6 ? ? ? 1_555 B C 13 N4 ? ? A G 12 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 13 N3 ? ? ? 1_555 B G 12 N1 ? ? A C 13 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 13 N4 ? ? ? 1_555 B G 12 O6 ? ? A C 13 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 13 O2 ? ? ? 1_555 B G 12 N2 ? ? A C 13 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A A 14 N1 ? ? ? 1_555 B U 11 N3 ? ? A A 14 B U 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A A 14 N6 ? ? ? 1_555 B U 11 O4 ? ? A A 14 B U 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A C 15 N3 ? ? ? 1_555 B G 10 N1 ? ? A C 15 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A C 15 N4 ? ? ? 1_555 B G 10 O6 ? ? A C 15 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 15 O2 ? ? ? 1_555 B G 10 N2 ? ? A C 15 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A C 17 N3 ? ? ? 1_555 B G 7 N1 ? ? A C 17 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A C 17 N4 ? ? ? 1_555 B G 7 O6 ? ? A C 17 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A C 17 O2 ? ? ? 1_555 B G 7 N2 ? ? A C 17 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A A 18 N1 ? ? ? 1_555 B U 6 N3 ? ? A A 18 B U 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A A 18 N6 ? ? ? 1_555 B U 6 O4 ? ? A A 18 B U 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A G 19 N1 ? ? ? 1_555 B C 5 N3 ? ? A G 19 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A G 19 N2 ? ? ? 1_555 B C 5 O2 ? ? A G 19 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A G 19 O6 ? ? ? 1_555 B C 5 N4 ? ? A G 19 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A C 20 N3 ? ? ? 1_555 B G 4 N1 ? ? A C 20 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A C 20 N4 ? ? ? 1_555 B G 4 O6 ? ? A C 20 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog45 hydrog ? ? A C 20 O2 ? ? ? 1_555 B G 4 N2 ? ? A C 20 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog46 hydrog ? ? A A 21 N1 ? ? ? 1_555 B UMS 3 N3 ? ? A A 21 B UMS 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog47 hydrog ? ? A A 21 N6 ? ? ? 1_555 B UMS 3 O4 ? ? A A 21 B UMS 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog48 hydrog ? ? A A 22 N1 ? ? ? 1_555 B U 2 N3 ? ? A A 22 B U 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog49 hydrog ? ? A A 22 N6 ? ? ? 1_555 B U 2 O4 ? ? A A 22 B U 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? A G 23 N1 ? ? ? 1_555 B C 1 N3 ? ? A G 23 B C 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? A G 23 N2 ? ? ? 1_555 B C 1 O2 ? ? A G 23 B C 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 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 covale ? ? 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 NMY 24 ? 26 'BINDING SITE FOR RESIDUE NMY A 24' AC2 Software B NMY 24 ? 16 'BINDING SITE FOR RESIDUE NMY B 24' AC3 Software A K 25 ? 3 'BINDING SITE FOR RESIDUE K A 25' AC4 Software B K 25 ? 3 'BINDING SITE FOR RESIDUE K B 25' 1 ? ? ? ? ? ? ? # 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 26 U A 6 ? U A 6 . ? 1_555 ? 2 AC1 26 G A 7 ? G A 7 . ? 1_555 ? 3 AC1 26 A A 8 ? A A 8 . ? 1_555 ? 4 AC1 26 A A 9 ? A A 9 . ? 1_555 ? 5 AC1 26 G A 10 ? G A 10 . ? 1_555 ? 6 AC1 26 U A 11 ? U A 11 . ? 1_555 ? 7 AC1 26 HOH G . ? HOH A 27 . ? 1_555 ? 8 AC1 26 HOH G . ? HOH A 32 . ? 1_555 ? 9 AC1 26 HOH G . ? HOH A 33 . ? 1_555 ? 10 AC1 26 HOH G . ? HOH A 37 . ? 1_555 ? 11 AC1 26 HOH G . ? HOH A 38 . ? 1_555 ? 12 AC1 26 HOH G . ? HOH A 40 . ? 1_555 ? 13 AC1 26 HOH G . ? HOH A 45 . ? 1_555 ? 14 AC1 26 HOH G . ? HOH A 57 . ? 1_555 ? 15 AC1 26 HOH G . ? HOH A 62 . ? 1_555 ? 16 AC1 26 HOH G . ? HOH A 66 . ? 1_555 ? 17 AC1 26 HOH G . ? HOH A 67 . ? 1_555 ? 18 AC1 26 C B 13 ? C B 13 . ? 1_555 ? 19 AC1 26 A B 14 ? A B 14 . ? 1_555 ? 20 AC1 26 C B 15 ? C B 15 . ? 1_555 ? 21 AC1 26 A B 16 ? A B 16 . ? 1_555 ? 22 AC1 26 HOH H . ? HOH B 27 . ? 1_555 ? 23 AC1 26 HOH H . ? HOH B 29 . ? 1_555 ? 24 AC1 26 HOH H . ? HOH B 30 . ? 1_555 ? 25 AC1 26 HOH H . ? HOH B 46 . ? 1_555 ? 26 AC1 26 HOH H . ? HOH B 69 . ? 1_555 ? 27 AC2 16 C A 13 ? C A 13 . ? 1_555 ? 28 AC2 16 A A 14 ? A A 14 . ? 1_555 ? 29 AC2 16 C A 15 ? C A 15 . ? 1_555 ? 30 AC2 16 A A 16 ? A A 16 . ? 1_555 ? 31 AC2 16 C A 17 ? C A 17 . ? 1_555 ? 32 AC2 16 HOH G . ? HOH A 64 . ? 1_555 ? 33 AC2 16 G B 7 ? G B 7 . ? 1_555 ? 34 AC2 16 A B 8 ? A B 8 . ? 1_555 ? 35 AC2 16 A B 9 ? A B 9 . ? 1_555 ? 36 AC2 16 G B 10 ? G B 10 . ? 1_555 ? 37 AC2 16 U B 11 ? U B 11 . ? 1_555 ? 38 AC2 16 HOH H . ? HOH B 26 . ? 1_555 ? 39 AC2 16 HOH H . ? HOH B 30 . ? 1_555 ? 40 AC2 16 HOH H . ? HOH B 33 . ? 1_555 ? 41 AC2 16 HOH H . ? HOH B 40 . ? 1_555 ? 42 AC2 16 HOH H . ? HOH B 57 . ? 1_555 ? 43 AC3 3 HOH G . ? HOH A 28 . ? 1_555 ? 44 AC3 3 HOH G . ? HOH A 33 . ? 1_555 ? 45 AC3 3 HOH G . ? HOH A 51 . ? 1_555 ? 46 AC4 3 UMS B 3 ? UMS B 3 . ? 1_555 ? 47 AC4 3 G B 4 ? G B 4 . ? 1_555 ? 48 AC4 3 HOH H . ? HOH B 63 . ? 1_555 ? # _database_PDB_matrix.entry_id 3C7R _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 3C7R _atom_sites.fract_transf_matrix[1][1] 0.009987 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.005951 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.032971 _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] 0.019957 _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 K 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 C 1 1 1 C CYT A . n A 1 2 U 2 2 2 U URI A . n A 1 3 UMS 3 3 3 UMS UMS A . n A 1 4 G 4 4 4 G GUA A . n A 1 5 C 5 5 5 C CYT A . n A 1 6 U 6 6 6 U URI A . n A 1 7 G 7 7 7 G GUA A . n A 1 8 A 8 8 8 A ADE A . n A 1 9 A 9 9 9 A ADE A . n A 1 10 G 10 10 10 G GUA A . n A 1 11 U 11 11 11 U URI A . n A 1 12 G 12 12 12 G GUA A . n A 1 13 C 13 13 13 C CYT A . n A 1 14 A 14 14 14 A ADE A . n A 1 15 C 15 15 15 C CYT A . n A 1 16 A 16 16 16 A ADE A . n A 1 17 C 17 17 17 C CYT A . n A 1 18 A 18 18 18 A ADE A . n A 1 19 G 19 19 19 G GUA A . n A 1 20 C 20 20 20 C CYT A . n A 1 21 A 21 21 21 A ADE A . n A 1 22 A 22 22 22 A ADE A . n A 1 23 G 23 23 23 G GUA A . n B 1 1 C 1 1 1 C CYT B . n B 1 2 U 2 2 2 U URI B . n B 1 3 UMS 3 3 3 UMS UMS B . n B 1 4 G 4 4 4 G GUA B . n B 1 5 C 5 5 5 C CYT B . n B 1 6 U 6 6 6 U URI B . n B 1 7 G 7 7 7 G GUA B . n B 1 8 A 8 8 8 A ADE B . n B 1 9 A 9 9 9 A ADE B . n B 1 10 G 10 10 10 G GUA B . n B 1 11 U 11 11 11 U URI B . n B 1 12 G 12 12 12 G GUA B . n B 1 13 C 13 13 13 C CYT B . n B 1 14 A 14 14 14 A ADE B . n B 1 15 C 15 15 15 C CYT B . n B 1 16 A 16 16 16 A ADE B . n B 1 17 C 17 17 17 C CYT B . n B 1 18 A 18 18 18 A ADE B . n B 1 19 G 19 19 19 G GUA B . n B 1 20 C 20 20 20 C CYT B . n B 1 21 A 21 21 21 A ADE B . n B 1 22 A 22 22 22 A ADE B . n B 1 23 G 23 23 23 G GUA 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 NMY 1 24 1 NMY NEO A . D 3 K 1 25 2 K K1 A . E 2 NMY 1 24 1 NMY NEO B . F 3 K 1 25 1 K K1 B . G 4 HOH 1 26 1 HOH TIP A . G 4 HOH 2 27 4 HOH TIP A . G 4 HOH 3 28 5 HOH TIP A . G 4 HOH 4 29 6 HOH TIP A . G 4 HOH 5 30 8 HOH TIP A . G 4 HOH 6 31 9 HOH TIP A . G 4 HOH 7 32 10 HOH TIP A . G 4 HOH 8 33 12 HOH TIP A . G 4 HOH 9 34 14 HOH TIP A . G 4 HOH 10 35 17 HOH TIP A . G 4 HOH 11 36 19 HOH TIP A . G 4 HOH 12 37 23 HOH TIP A . G 4 HOH 13 38 24 HOH TIP A . G 4 HOH 14 39 25 HOH TIP A . G 4 HOH 15 40 26 HOH TIP A . G 4 HOH 16 41 28 HOH TIP A . G 4 HOH 17 42 29 HOH TIP A . G 4 HOH 18 43 30 HOH TIP A . G 4 HOH 19 44 33 HOH TIP A . G 4 HOH 20 45 34 HOH TIP A . G 4 HOH 21 46 36 HOH TIP A . G 4 HOH 22 47 39 HOH TIP A . G 4 HOH 23 48 42 HOH TIP A . G 4 HOH 24 49 43 HOH TIP A . G 4 HOH 25 50 45 HOH TIP A . G 4 HOH 26 51 47 HOH TIP A . G 4 HOH 27 52 49 HOH TIP A . G 4 HOH 28 53 50 HOH TIP A . G 4 HOH 29 54 53 HOH TIP A . G 4 HOH 30 55 55 HOH TIP A . G 4 HOH 31 56 57 HOH TIP A . G 4 HOH 32 57 60 HOH TIP A . G 4 HOH 33 58 61 HOH TIP A . G 4 HOH 34 59 62 HOH TIP A . G 4 HOH 35 60 65 HOH TIP A . G 4 HOH 36 61 70 HOH TIP A . G 4 HOH 37 62 71 HOH TIP A . G 4 HOH 38 63 75 HOH TIP A . G 4 HOH 39 64 76 HOH TIP A . G 4 HOH 40 65 77 HOH TIP A . G 4 HOH 41 66 82 HOH TIP A . G 4 HOH 42 67 83 HOH TIP A . G 4 HOH 43 68 87 HOH TIP A . G 4 HOH 44 69 89 HOH TIP A . G 4 HOH 45 70 91 HOH TIP A . G 4 HOH 46 71 92 HOH TIP A . G 4 HOH 47 72 95 HOH TIP A . G 4 HOH 48 73 98 HOH TIP A . G 4 HOH 49 74 105 HOH TIP A . G 4 HOH 50 75 108 HOH TIP A . G 4 HOH 51 76 111 HOH TIP A . G 4 HOH 52 77 112 HOH TIP A . G 4 HOH 53 78 35 HOH TIP A . H 4 HOH 1 26 2 HOH TIP B . H 4 HOH 2 27 7 HOH TIP B . H 4 HOH 3 28 11 HOH TIP B . H 4 HOH 4 29 13 HOH TIP B . H 4 HOH 5 30 15 HOH TIP B . H 4 HOH 6 31 16 HOH TIP B . H 4 HOH 7 32 18 HOH TIP B . H 4 HOH 8 33 20 HOH TIP B . H 4 HOH 9 34 22 HOH TIP B . H 4 HOH 10 35 27 HOH TIP B . H 4 HOH 11 36 31 HOH TIP B . H 4 HOH 12 37 32 HOH TIP B . H 4 HOH 13 39 37 HOH TIP B . H 4 HOH 14 40 38 HOH TIP B . H 4 HOH 15 41 40 HOH TIP B . H 4 HOH 16 42 41 HOH TIP B . H 4 HOH 17 43 44 HOH TIP B . H 4 HOH 18 44 51 HOH TIP B . H 4 HOH 19 45 52 HOH TIP B . H 4 HOH 20 46 54 HOH TIP B . H 4 HOH 21 47 58 HOH TIP B . H 4 HOH 22 48 59 HOH TIP B . H 4 HOH 23 49 64 HOH TIP B . H 4 HOH 24 50 66 HOH TIP B . H 4 HOH 25 51 67 HOH TIP B . H 4 HOH 26 52 69 HOH TIP B . H 4 HOH 27 53 73 HOH TIP B . H 4 HOH 28 54 74 HOH TIP B . H 4 HOH 29 55 78 HOH TIP B . H 4 HOH 30 56 80 HOH TIP B . H 4 HOH 31 57 81 HOH TIP B . H 4 HOH 32 58 85 HOH TIP B . H 4 HOH 33 59 88 HOH TIP B . H 4 HOH 34 60 90 HOH TIP B . H 4 HOH 35 61 97 HOH TIP B . H 4 HOH 36 62 99 HOH TIP B . H 4 HOH 37 63 100 HOH TIP B . H 4 HOH 38 64 101 HOH TIP B . H 4 HOH 39 65 102 HOH TIP B . H 4 HOH 40 66 104 HOH TIP B . H 4 HOH 41 67 106 HOH TIP B . H 4 HOH 42 68 109 HOH TIP B . H 4 HOH 43 69 110 HOH TIP B . # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A UMS 3 A UMS 3 ? DU ? 2 B UMS 3 B UMS 3 ? DU ? # _struct_site_keywords.site_id 1 _struct_site_keywords.text 'MAJOR GROOVE BINDER' # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _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 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 6490 ? 1 MORE -17 ? 1 'SSA (A^2)' 7530 ? # _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_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 O4 ? B UMS 3 ? B UMS 3 ? 1_555 K ? F K . ? B K 25 ? 1_555 O6 ? B G 4 ? B G 4 ? 1_555 75.3 ? 2 O4 ? B UMS 3 ? B UMS 3 ? 1_555 K ? F K . ? B K 25 ? 1_555 O ? H HOH . ? B HOH 63 ? 1_555 82.6 ? 3 O6 ? B G 4 ? B G 4 ? 1_555 K ? F K . ? B K 25 ? 1_555 O ? H HOH . ? B HOH 63 ? 1_555 80.4 ? # 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 2008-05-06 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2019-12-11 4 'Structure model' 1 3 2023-11-01 # _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' 'Derived calculations' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Database references' 6 4 'Structure model' 'Derived calculations' 7 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 3 'Structure model' reflns 2 3 'Structure model' struct_conn 3 4 'Structure model' chem_comp_atom 4 4 'Structure model' chem_comp_bond 5 4 'Structure model' database_2 6 4 'Structure model' pdbx_initial_refinement_model 7 4 'Structure model' struct_conn 8 4 'Structure model' struct_conn_type 9 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 3 'Structure model' '_reflns.pdbx_Rsym_value' 2 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 3 4 'Structure model' '_database_2.pdbx_DOI' 4 4 'Structure model' '_database_2.pdbx_database_accession' 5 4 'Structure model' '_struct_conn.conn_type_id' 6 4 'Structure model' '_struct_conn.id' 7 4 'Structure model' '_struct_conn.pdbx_dist_value' 8 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 9 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 10 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 11 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 12 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 13 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 14 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 15 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 16 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 17 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 18 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 19 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 20 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 21 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 22 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 23 4 'Structure model' '_struct_conn_type.id' 24 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 25 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 26 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 DNA 'data collection' . ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 MOLREP phasing . ? 5 # 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 K K K N N 114 NMY C1 C N R 115 NMY O1 O N N 116 NMY C2 C N R 117 NMY N2 N N N 118 NMY C3 C N R 119 NMY O3 O N N 120 NMY C4 C N S 121 NMY O4 O N N 122 NMY C5 C N R 123 NMY O5 O N N 124 NMY C6 C N N 125 NMY C7 C N R 126 NMY N7 N N N 127 NMY C12 C N S 128 NMY C11 C N R 129 NMY O11 O N N 130 NMY C10 C N R 131 NMY C9 C N S 132 NMY N9 N N N 133 NMY C8 C N N 134 NMY C13 C N S 135 NMY C14 C N R 136 NMY C15 C N S 137 NMY C16 C N R 138 NMY O16 O N N 139 NMY C17 C N N 140 NMY C21 C N S 141 NMY C20 C N R 142 NMY C19 C N R 143 NMY C18 C N R 144 NMY O18 O N N 145 NMY C22 C N S 146 NMY O22 O N N 147 NMY C23 C N N 148 NMY N6 N N N 149 NMY O14 O N N 150 NMY O20 O N N 151 NMY O21 O N N 152 NMY O17 O N N 153 NMY O12 O N N 154 NMY N19 N N N 155 NMY N23 N N N 156 NMY H1 H N N 157 NMY H2 H N N 158 NMY HN21 H N N 159 NMY HN22 H N N 160 NMY H3 H N N 161 NMY HO3 H N N 162 NMY H4 H N N 163 NMY HO4 H N N 164 NMY H5 H N N 165 NMY H61 H N N 166 NMY H62 H N N 167 NMY H7 H N N 168 NMY H71 H N N 169 NMY H72 H N N 170 NMY H12 H N N 171 NMY H11 H N N 172 NMY H10 H N N 173 NMY H9 H N N 174 NMY H91 H N N 175 NMY H92 H N N 176 NMY H81 H N N 177 NMY H82 H N N 178 NMY H13 H N N 179 NMY H14 H N N 180 NMY H15 H N N 181 NMY H16 H N N 182 NMY H171 H N N 183 NMY H172 H N N 184 NMY H21 H N N 185 NMY H20 H N N 186 NMY H19 H N N 187 NMY H18 H N N 188 NMY H22 H N N 189 NMY H231 H N N 190 NMY H232 H N N 191 NMY HN61 H N N 192 NMY HN62 H N N 193 NMY HO41 H N N 194 NMY HO22 H N N 195 NMY HO21 H N N 196 NMY H17 H N N 197 NMY HO12 H N N 198 NMY H191 H N N 199 NMY H192 H N N 200 NMY HN31 H N N 201 NMY HN32 H N N 202 U OP3 O N N 203 U P P N N 204 U OP1 O N N 205 U OP2 O N N 206 U "O5'" O N N 207 U "C5'" C N N 208 U "C4'" C N R 209 U "O4'" O N N 210 U "C3'" C N S 211 U "O3'" O N N 212 U "C2'" C N R 213 U "O2'" O N N 214 U "C1'" C N R 215 U N1 N N N 216 U C2 C N N 217 U O2 O N N 218 U N3 N N N 219 U C4 C N N 220 U O4 O N N 221 U C5 C N N 222 U C6 C N N 223 U HOP3 H N N 224 U HOP2 H N N 225 U "H5'" H N N 226 U "H5''" H N N 227 U "H4'" H N N 228 U "H3'" H N N 229 U "HO3'" H N N 230 U "H2'" H N N 231 U "HO2'" H N N 232 U "H1'" H N N 233 U H3 H N N 234 U H5 H N N 235 U H6 H N N 236 UMS OP3 O N N 237 UMS P P N N 238 UMS OP1 O N N 239 UMS OP2 O N N 240 UMS "O5'" O N N 241 UMS "C5'" C N N 242 UMS "C4'" C N R 243 UMS "O4'" O N N 244 UMS "C3'" C N R 245 UMS "O3'" O N N 246 UMS "C2'" C N R 247 UMS "SE2'" SE N N 248 UMS "C1'" C N R 249 UMS "CA'" C N N 250 UMS N1 N N N 251 UMS C2 C N N 252 UMS O2 O N N 253 UMS N3 N N N 254 UMS C4 C N N 255 UMS O4 O N N 256 UMS C5 C N N 257 UMS C6 C N N 258 UMS HOP3 H N N 259 UMS HOP2 H N N 260 UMS "H5'" H N N 261 UMS "H5'2" H N N 262 UMS "H4'" H N N 263 UMS "H3'" H N N 264 UMS "HO3'" H N N 265 UMS "H2'" H N N 266 UMS "H1'" H N N 267 UMS "HA'" H N N 268 UMS "HA'2" H N N 269 UMS "HA'3" H N N 270 UMS H3 H N N 271 UMS H5 H N N 272 UMS H6 H N N 273 # 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 NMY C1 O5 sing N N 118 NMY C1 O1 sing N N 119 NMY C1 C2 sing N N 120 NMY C1 H1 sing N N 121 NMY O1 C10 sing N N 122 NMY C2 N2 sing N N 123 NMY C2 C3 sing N N 124 NMY C2 H2 sing N N 125 NMY N2 HN21 sing N N 126 NMY N2 HN22 sing N N 127 NMY C3 C4 sing N N 128 NMY C3 O3 sing N N 129 NMY C3 H3 sing N N 130 NMY O3 HO3 sing N N 131 NMY C4 C5 sing N N 132 NMY C4 O4 sing N N 133 NMY C4 H4 sing N N 134 NMY O4 HO4 sing N N 135 NMY C5 O5 sing N N 136 NMY C5 C6 sing N N 137 NMY C5 H5 sing N N 138 NMY C6 N6 sing N N 139 NMY C6 H61 sing N N 140 NMY C6 H62 sing N N 141 NMY C7 N7 sing N N 142 NMY C7 C12 sing N N 143 NMY C7 C8 sing N N 144 NMY C7 H7 sing N N 145 NMY N7 H71 sing N N 146 NMY N7 H72 sing N N 147 NMY C12 O12 sing N N 148 NMY C12 C11 sing N N 149 NMY C12 H12 sing N N 150 NMY C11 O11 sing N N 151 NMY C11 C10 sing N N 152 NMY C11 H11 sing N N 153 NMY O11 C13 sing N N 154 NMY C10 C9 sing N N 155 NMY C10 H10 sing N N 156 NMY C9 C8 sing N N 157 NMY C9 N9 sing N N 158 NMY C9 H9 sing N N 159 NMY N9 H91 sing N N 160 NMY N9 H92 sing N N 161 NMY C8 H81 sing N N 162 NMY C8 H82 sing N N 163 NMY C13 C14 sing N N 164 NMY C13 O16 sing N N 165 NMY C13 H13 sing N N 166 NMY C14 O14 sing N N 167 NMY C14 C15 sing N N 168 NMY C14 H14 sing N N 169 NMY C15 O18 sing N N 170 NMY C15 C16 sing N N 171 NMY C15 H15 sing N N 172 NMY C16 O16 sing N N 173 NMY C16 C17 sing N N 174 NMY C16 H16 sing N N 175 NMY C17 O17 sing N N 176 NMY C17 H171 sing N N 177 NMY C17 H172 sing N N 178 NMY C21 C20 sing N N 179 NMY C21 C22 sing N N 180 NMY C21 O21 sing N N 181 NMY C21 H21 sing N N 182 NMY C20 C19 sing N N 183 NMY C20 O20 sing N N 184 NMY C20 H20 sing N N 185 NMY C19 N23 sing N N 186 NMY C19 C18 sing N N 187 NMY C19 H19 sing N N 188 NMY C18 O22 sing N N 189 NMY C18 O18 sing N N 190 NMY C18 H18 sing N N 191 NMY C22 O22 sing N N 192 NMY C22 C23 sing N N 193 NMY C22 H22 sing N N 194 NMY C23 N19 sing N N 195 NMY C23 H231 sing N N 196 NMY C23 H232 sing N N 197 NMY N6 HN61 sing N N 198 NMY N6 HN62 sing N N 199 NMY O14 HO41 sing N N 200 NMY O20 HO22 sing N N 201 NMY O21 HO21 sing N N 202 NMY O17 H17 sing N N 203 NMY O12 HO12 sing N N 204 NMY N19 H191 sing N N 205 NMY N19 H192 sing N N 206 NMY N23 HN31 sing N N 207 NMY N23 HN32 sing N N 208 U OP3 P sing N N 209 U OP3 HOP3 sing N N 210 U P OP1 doub N N 211 U P OP2 sing N N 212 U P "O5'" sing N N 213 U OP2 HOP2 sing N N 214 U "O5'" "C5'" sing N N 215 U "C5'" "C4'" sing N N 216 U "C5'" "H5'" sing N N 217 U "C5'" "H5''" sing N N 218 U "C4'" "O4'" sing N N 219 U "C4'" "C3'" sing N N 220 U "C4'" "H4'" sing N N 221 U "O4'" "C1'" sing N N 222 U "C3'" "O3'" sing N N 223 U "C3'" "C2'" sing N N 224 U "C3'" "H3'" sing N N 225 U "O3'" "HO3'" sing N N 226 U "C2'" "O2'" sing N N 227 U "C2'" "C1'" sing N N 228 U "C2'" "H2'" sing N N 229 U "O2'" "HO2'" sing N N 230 U "C1'" N1 sing N N 231 U "C1'" "H1'" sing N N 232 U N1 C2 sing N N 233 U N1 C6 sing N N 234 U C2 O2 doub N N 235 U C2 N3 sing N N 236 U N3 C4 sing N N 237 U N3 H3 sing N N 238 U C4 O4 doub N N 239 U C4 C5 sing N N 240 U C5 C6 doub N N 241 U C5 H5 sing N N 242 U C6 H6 sing N N 243 UMS OP3 P sing N N 244 UMS OP3 HOP3 sing N N 245 UMS P OP1 doub N N 246 UMS P OP2 sing N N 247 UMS P "O5'" sing N N 248 UMS OP2 HOP2 sing N N 249 UMS "O5'" "C5'" sing N N 250 UMS "C5'" "C4'" sing N N 251 UMS "C5'" "H5'" sing N N 252 UMS "C5'" "H5'2" sing N N 253 UMS "C4'" "O4'" sing N N 254 UMS "C4'" "C3'" sing N N 255 UMS "C4'" "H4'" sing N N 256 UMS "O4'" "C1'" sing N N 257 UMS "C3'" "O3'" sing N N 258 UMS "C3'" "C2'" sing N N 259 UMS "C3'" "H3'" sing N N 260 UMS "O3'" "HO3'" sing N N 261 UMS "C2'" "SE2'" sing N N 262 UMS "C2'" "C1'" sing N N 263 UMS "C2'" "H2'" sing N N 264 UMS "SE2'" "CA'" sing N N 265 UMS "C1'" N1 sing N N 266 UMS "C1'" "H1'" sing N N 267 UMS "CA'" "HA'" sing N N 268 UMS "CA'" "HA'2" sing N N 269 UMS "CA'" "HA'3" sing N N 270 UMS N1 C2 sing N N 271 UMS N1 C6 sing N N 272 UMS C2 O2 doub N N 273 UMS C2 N3 sing N N 274 UMS N3 C4 sing N N 275 UMS N3 H3 sing N N 276 UMS C4 O4 doub N N 277 UMS C4 C5 sing N N 278 UMS C5 C6 doub N N 279 UMS C5 H5 sing N N 280 UMS C6 H6 sing N N 281 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3C7R 'double helix' 3C7R 'a-form double helix' 3C7R 'internal loop' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A C 1 1_555 B G 23 1_555 -0.063 -0.262 -0.032 11.910 -19.445 -2.470 1 A_C1:G23_B A 1 ? B 23 ? 19 1 1 A U 2 1_555 B A 22 1_555 -0.119 -0.326 -0.042 0.806 -15.236 1.228 2 A_U2:A22_B A 2 ? B 22 ? 20 1 1 A UMS 3 1_555 B A 21 1_555 0.088 -0.455 -0.133 3.951 -10.389 0.734 3 A_UMS3:A21_B A 3 ? B 21 ? 20 1 1 A G 4 1_555 B C 20 1_555 -0.150 -0.234 -0.153 -2.782 -16.582 -0.347 4 A_G4:C20_B A 4 ? B 20 ? 19 1 1 A C 5 1_555 B G 19 1_555 0.204 -0.165 -0.043 0.486 -12.691 1.455 5 A_C5:G19_B A 5 ? B 19 ? 19 1 1 A U 6 1_555 B A 18 1_555 -0.080 -0.201 0.099 1.773 -10.185 6.588 6 A_U6:A18_B A 6 ? B 18 ? 20 1 1 A G 7 1_555 B C 17 1_555 -0.290 -0.086 -0.088 -9.148 -25.425 4.569 7 A_G7:C17_B A 7 ? B 17 ? 19 1 1 A G 10 1_555 B C 15 1_555 -0.511 -0.276 -0.236 -3.142 -4.879 -1.301 8 A_G10:C15_B A 10 ? B 15 ? 19 1 1 A U 11 1_555 B A 14 1_555 -0.140 -0.229 -0.001 -0.693 -7.626 1.473 9 A_U11:A14_B A 11 ? B 14 ? 20 1 1 A G 12 1_555 B C 13 1_555 -0.229 -0.232 0.197 3.516 -6.840 2.134 10 A_G12:C13_B A 12 ? B 13 ? 19 1 1 A C 13 1_555 B G 12 1_555 0.319 -0.220 -0.132 4.835 -14.752 3.946 11 A_C13:G12_B A 13 ? B 12 ? 19 1 1 A A 14 1_555 B U 11 1_555 0.276 -0.042 -0.198 -6.735 -6.474 0.784 12 A_A14:U11_B A 14 ? B 11 ? 20 1 1 A C 15 1_555 B G 10 1_555 0.349 -0.210 -0.094 1.442 -2.630 -0.938 13 A_C15:G10_B A 15 ? B 10 ? 19 1 1 A C 17 1_555 B G 7 1_555 0.268 -0.171 -0.254 9.336 -24.294 4.872 14 A_C17:G7_B A 17 ? B 7 ? 19 1 1 A A 18 1_555 B U 6 1_555 -0.168 -0.157 0.082 -1.324 -16.573 7.944 15 A_A18:U6_B A 18 ? B 6 ? 20 1 1 A G 19 1_555 B C 5 1_555 -0.100 -0.192 0.033 2.261 -14.244 1.054 16 A_G19:C5_B A 19 ? B 5 ? 19 1 1 A C 20 1_555 B G 4 1_555 0.140 -0.133 0.011 1.972 -12.545 2.531 17 A_C20:G4_B A 20 ? B 4 ? 19 1 1 A A 21 1_555 B UMS 3 1_555 -0.237 -0.122 -0.072 -7.584 -12.165 4.746 18 A_A21:UMS3_B A 21 ? B 3 ? 20 1 1 A A 22 1_555 B U 2 1_555 0.119 -0.290 0.238 1.133 -8.548 1.136 19 A_A22:U2_B A 22 ? B 2 ? 20 1 1 A G 23 1_555 B C 1 1_555 0.121 -0.147 -0.046 -6.660 -21.835 3.042 20 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 -0.484 -1.539 3.468 -5.114 12.322 33.242 -4.273 0.056 2.783 20.540 8.525 35.749 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 UMS 3 1_555 B A 21 1_555 -0.332 -1.162 3.189 -1.313 9.159 33.580 -3.245 0.369 2.796 15.491 2.220 34.796 2 AA_U2UMS3:A21A22_BB A 2 ? B 22 ? A 3 ? B 21 ? 1 A UMS 3 1_555 B A 21 1_555 A G 4 1_555 B C 20 1_555 0.101 -1.368 3.297 0.330 16.161 31.020 -4.521 -0.123 2.324 27.964 -0.571 34.887 3 AA_UMS3G4: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 0.591 -1.322 3.218 0.108 6.781 33.983 -3.207 -0.976 2.910 11.461 -0.182 34.634 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 0.306 -1.794 3.224 0.617 5.791 26.988 -5.074 -0.501 2.791 12.229 -1.304 27.598 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 -0.160 -1.462 3.352 2.331 14.678 32.784 -4.334 0.571 2.477 24.499 -3.891 35.911 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 10 1_555 B C 15 1_555 -1.399 -3.801 6.257 8.472 24.576 76.908 -4.076 1.473 4.917 19.251 -6.637 80.533 7 AA_G7G10:C15C17_BB A 7 ? B 17 ? 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 -0.344 -2.409 3.288 -1.435 1.402 33.940 -4.342 0.361 3.200 2.399 2.455 33.998 8 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 -0.806 -1.812 3.051 -2.627 8.461 25.940 -5.629 1.144 2.418 18.186 5.646 27.387 9 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 0.567 -1.293 3.213 3.164 13.168 35.623 -3.533 -0.498 2.629 20.628 -4.956 38.032 10 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 0.315 -1.629 3.372 0.588 14.985 30.801 -4.961 -0.451 2.356 26.345 -1.034 34.179 11 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 0.418 -2.457 3.166 0.897 -1.451 30.582 -4.369 -0.616 3.287 -2.748 -1.698 30.628 12 AA_A14C15:G10U11_BB A 14 ? B 11 ? A 15 ? B 10 ? 1 A C 15 1_555 B G 10 1_555 A C 17 1_555 B G 7 1_555 1.684 -3.764 6.212 -2.856 19.202 77.562 -3.861 -1.453 5.264 15.108 2.247 79.581 13 AA_C15C17:G7G10_BB A 15 ? B 10 ? 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 0.237 -1.485 3.466 -2.731 13.350 30.932 -4.660 -0.838 2.594 23.645 4.838 33.733 14 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 -0.697 -1.361 3.115 -2.090 7.042 31.460 -3.592 0.914 2.792 12.770 3.790 32.285 15 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 0.253 -1.388 3.224 0.220 7.327 33.023 -3.502 -0.402 2.860 12.696 -0.381 33.805 16 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 UMS 3 1_555 0.097 -1.500 3.325 1.812 13.211 29.975 -4.771 0.118 2.465 24.098 -3.305 32.745 17 AA_C20A21:UMS3G4_BB A 20 ? B 4 ? A 21 ? B 3 ? 1 A A 21 1_555 B UMS 3 1_555 A A 22 1_555 B U 2 1_555 -0.069 -1.282 2.955 -1.711 7.847 32.622 -3.326 -0.122 2.586 13.712 2.990 33.570 18 AA_A21A22:U2UMS3_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 0.613 -1.438 3.357 6.489 14.668 34.795 -3.975 -0.149 2.633 23.073 -10.207 38.210 19 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 NEOMYCIN NMY 3 'POTASSIUM ION' K 4 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 3C3Z _pdbx_initial_refinement_model.details ? #