data_4GLH # _entry.id 4GLH # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.379 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 4GLH pdb_00004glh 10.2210/pdb4glh/pdb NDB NA1986 ? ? RCSB RCSB074332 ? ? WWPDB D_1000074332 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4GLH _pdbx_database_status.recvd_initial_deposition_date 2012-08-14 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Spingler, B.' 1 'Renciuk, D.' 2 'Vorlickova, M.' 3 # _citation.id primary _citation.title 'Crystal structures of B-DNA dodecamer containing the epigenetic modifications 5-hydroxymethylcytosine or 5-methylcytosine.' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 41 _citation.page_first 9891 _citation.page_last 9900 _citation.year 2013 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 23963698 _citation.pdbx_database_id_DOI 10.1093/nar/gkt738 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Renciuk, D.' 1 ? primary 'Blacque, O.' 2 ? primary 'Vorlickova, M.' 3 ? primary 'Spingler, B.' 4 ? # _cell.entry_id 4GLH _cell.length_a 25.637 _cell.length_b 41.767 _cell.length_c 63.997 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 4GLH _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _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 ;DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5HC)P*GP*CP*G)-3') ; 3693.418 2 ? ? ? ? 2 non-polymer syn 'POTASSIUM ION' 39.098 2 ? ? ? ? 3 water nat water 18.015 68 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(5HC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAATTXGCG _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 DC n 1 2 DG n 1 3 DC n 1 4 DG n 1 5 DA n 1 6 DA n 1 7 DT n 1 8 DT n 1 9 5HC n 1 10 DG n 1 11 DC n 1 12 DG n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific 'Synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 4GLH _struct_ref.pdbx_db_accession 4GLH _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 4GLH A 1 ? 12 ? 4GLH 1 ? 12 ? 1 12 2 1 4GLH B 1 ? 12 ? 4GLH 1 ? 12 ? 1 12 # 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 5HC 'DNA linking' n ;2'-deoxy-5-(hydroxymethyl)cytidine 5'-(dihydrogen phosphate) ; ? 'C10 H16 N3 O8 P' 337.223 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 K non-polymer . 'POTASSIUM ION' ? 'K 1' 39.098 # _exptl.entry_id 4GLH _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.32 _exptl_crystal.density_percent_sol 46.96 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 298.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details ;0.04M sodium cacodylate buffer, 0.08M potassium chloride, 0.012M sodium chloride, 0.012M spermine tetra hydrochloride, 37% MPD, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K ; # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector PIXEL _diffrn_detector.type 'DECTRIS PILATUS 2M-F' _diffrn_detector.pdbx_collection_date 2012-06-09 _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 'BARTELS MONOCHROMATOR' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.00067 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SLS BEAMLINE X06DA' _diffrn_source.pdbx_synchrotron_site SLS _diffrn_source.pdbx_synchrotron_beamline X06DA _diffrn_source.pdbx_wavelength 1.00067 _diffrn_source.pdbx_wavelength_list 1.00067 # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 4GLH _reflns.observed_criterion_sigma_I 2 _reflns.observed_criterion_sigma_F 4 _reflns.d_resolution_low 41.78 _reflns.d_resolution_high 1.662 _reflns.number_obs 7781 _reflns.number_all 8542 _reflns.percent_possible_obs 99.4 _reflns.pdbx_Rmerge_I_obs 0.025 _reflns.pdbx_Rsym_value 0.0152 _reflns.pdbx_netI_over_sigmaI 28.66 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 3.61 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 1.662 _reflns_shell.d_res_low 1.76 _reflns_shell.percent_possible_all 99.0 _reflns_shell.Rmerge_I_obs 0.202 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 6.93 _reflns_shell.pdbx_redundancy 3.71 _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 ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 4GLH _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 7781 _refine.ls_number_reflns_all 8542 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 41.78 _refine.ls_d_res_high 1.662 _refine.ls_percent_reflns_obs 99.7 _refine.ls_R_factor_obs 0.237 _refine.ls_R_factor_all 0.237 _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free 0.276 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.999 _refine.ls_number_reflns_R_free 427 _refine.ls_number_parameters 4703 _refine.ls_number_restraints 10869 _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method 'FREE R' _refine.details 'ANISOTROPIC REFINEMENT REDUCED FREE R (NO CUTOFF) BY ?' _refine.pdbx_starting_model 'PDB ENTRY 1DPN' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'ENGH AND HUBER' _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.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.ls_redundancy_reflns_obs ? _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_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_analyze.entry_id 4GLH _refine_analyze.Luzzati_coordinate_error_obs ? _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues 0 _refine_analyze.occupancy_sum_hydrogen 0. _refine_analyze.occupancy_sum_non_hydrogen 552.3 # _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 490 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 68 _refine_hist.number_atoms_total 560 _refine_hist.d_res_high 1.662 _refine_hist.d_res_low 41.78 # 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 s_bond_d 0.0087 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.0293 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist 0.0000 ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes 0.0149 ? ? ? 'X-RAY DIFFRACTION' ? s_zero_chiral_vol 0.0000 ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol 0.0082 ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr 0.0080 ? ? ? 'X-RAY DIFFRACTION' ? s_rigid_bond_adp_cmpnt 0.0084 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_adp_cmpnt 0.0267 ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps 0.0000 ? ? ? 'X-RAY DIFFRACTION' ? # _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.entry_id 4GLH _pdbx_refine.R_factor_all_no_cutoff 0.237 _pdbx_refine.R_factor_obs_no_cutoff 0.237 _pdbx_refine.free_R_factor_no_cutoff 0.276 _pdbx_refine.free_R_error_no_cutoff ? _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 4.999 _pdbx_refine.free_R_val_test_set_ct_no_cutoff 427 _pdbx_refine.R_factor_all_4sig_cutoff 0.232 _pdbx_refine.R_factor_obs_4sig_cutoff 0.232 _pdbx_refine.free_R_factor_4sig_cutoff 0.272 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 5.115 _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 399 _pdbx_refine.number_reflns_obs_4sig_cutoff 7800 # _struct.entry_id 4GLH _struct.title 'DNA dodecamer containing 5-hydroxymethyl cytosine' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4GLH _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'B-DNA dodecamer, epigenetics, 5-hydroxymethyl cytosine, DNA' # 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 3 ? F N N 3 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A DT 8 "O3'" ? ? ? 1_555 A 5HC 9 P ? ? A DT 8 A 5HC 9 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale2 covale both ? A 5HC 9 "O3'" ? ? ? 1_555 A DG 10 P ? ? A 5HC 9 A DG 10 1_555 ? ? ? ? ? ? ? 1.598 ? ? covale3 covale both ? B DT 8 "O3'" ? ? ? 1_555 B 5HC 9 P ? ? B DT 8 B 5HC 9 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale4 covale both ? B 5HC 9 "O3'" ? ? ? 1_555 B DG 10 P ? ? B 5HC 9 B DG 10 1_555 ? ? ? ? ? ? ? 1.597 ? ? metalc1 metalc ? ? A DT 7 O2 ? ? ? 1_555 C K . K ? ? A DT 7 A K 101 1_555 ? ? ? ? ? ? ? 2.677 ? ? metalc2 metalc ? ? A DT 8 "O4'" ? ? ? 1_555 C K . K ? ? A DT 8 A K 101 1_555 ? ? ? ? ? ? ? 3.116 ? ? metalc3 metalc ? ? A DT 8 O2 ? ? ? 1_555 D K . K ? ? A DT 8 B K 101 1_555 ? ? ? ? ? ? ? 2.708 ? ? metalc4 metalc ? ? A 5HC 9 "O4'" ? ? ? 1_555 D K . K ? ? A 5HC 9 B K 101 1_555 ? ? ? ? ? ? ? 3.177 ? ? metalc5 metalc ? ? C K . K ? ? ? 1_555 B DT 7 O2 ? ? A K 101 B DT 7 1_555 ? ? ? ? ? ? ? 2.703 ? ? metalc6 metalc ? ? C K . K ? ? ? 1_555 B DT 8 "O4'" ? ? A K 101 B DT 8 1_555 ? ? ? ? ? ? ? 3.291 ? ? metalc7 metalc ? ? C K . K ? ? ? 1_555 F HOH . O ? ? A K 101 B HOH 204 1_555 ? ? ? ? ? ? ? 2.877 ? ? metalc8 metalc ? ? C K . K ? ? ? 1_555 F HOH . O ? ? A K 101 B HOH 205 1_555 ? ? ? ? ? ? ? 2.775 ? ? metalc9 metalc ? ? B DT 7 "O4'" ? ? ? 1_555 D K . K ? ? B DT 7 B K 101 1_555 ? ? ? ? ? ? ? 3.295 ? ? metalc10 metalc ? ? D K . K ? ? ? 1_555 F HOH . O ? ? B K 101 B HOH 204 1_555 ? ? ? ? ? ? ? 2.899 ? ? metalc11 metalc ? ? D K . K ? ? ? 1_555 F HOH . O ? ? B K 101 B HOH 208 1_555 ? ? ? ? ? ? ? 2.889 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 1 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 5 B DT 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 6 B DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 6 B DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 7 B DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 7 B DA 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 8 B DA 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 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 K 101 ? 6 'BINDING SITE FOR RESIDUE K A 101' AC2 Software B K 101 ? 6 'BINDING SITE FOR RESIDUE K B 101' # 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 6 DT A 7 ? DT A 7 . ? 1_555 ? 2 AC1 6 DT A 8 ? DT A 8 . ? 1_555 ? 3 AC1 6 DT B 7 ? DT B 7 . ? 1_555 ? 4 AC1 6 DT B 8 ? DT B 8 . ? 1_555 ? 5 AC1 6 HOH F . ? HOH B 204 . ? 1_555 ? 6 AC1 6 HOH F . ? HOH B 205 . ? 1_555 ? 7 AC2 6 DT A 8 ? DT A 8 . ? 1_555 ? 8 AC2 6 5HC A 9 ? 5HC A 9 . ? 1_555 ? 9 AC2 6 DA B 6 ? DA B 6 . ? 1_555 ? 10 AC2 6 DT B 7 ? DT B 7 . ? 1_555 ? 11 AC2 6 HOH F . ? HOH B 204 . ? 1_555 ? 12 AC2 6 HOH F . ? HOH B 208 . ? 1_555 ? # _database_PDB_matrix.entry_id 4GLH _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] 0.000000 _database_PDB_matrix.origx_vector[2] 0.000000 _database_PDB_matrix.origx_vector[3] 0.000000 # _atom_sites.entry_id 4GLH _atom_sites.fract_transf_matrix[1][1] 0.039006 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.023942 _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] 0.015626 _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 # 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 DC 1 1 1 DC DC A . n A 1 2 DG 2 2 2 DG DG A . n A 1 3 DC 3 3 3 DC DC A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DA 5 5 5 DA DA A . n A 1 6 DA 6 6 6 DA DA A . n A 1 7 DT 7 7 7 DT DT A . n A 1 8 DT 8 8 8 DT DT A . n A 1 9 5HC 9 9 9 5HC 5HC A . n A 1 10 DG 10 10 10 DG DG A . n A 1 11 DC 11 11 11 DC DC A . n A 1 12 DG 12 12 12 DG DG A . n B 1 1 DC 1 1 1 DC DC B . n B 1 2 DG 2 2 2 DG DG B . n B 1 3 DC 3 3 3 DC DC B . n B 1 4 DG 4 4 4 DG DG B . n B 1 5 DA 5 5 5 DA DA B . n B 1 6 DA 6 6 6 DA DA B . n B 1 7 DT 7 7 7 DT DT B . n B 1 8 DT 8 8 8 DT DT B . n B 1 9 5HC 9 9 9 5HC 5HC B . n B 1 10 DG 10 10 10 DG DG B . n B 1 11 DC 11 11 11 DC DC B . n B 1 12 DG 12 12 12 DG DG 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 K 1 101 51 K K A . D 2 K 1 101 52 K K B . E 3 HOH 1 201 104 HOH HOH A . E 3 HOH 2 202 105 HOH HOH A . E 3 HOH 3 203 108 HOH HOH A . E 3 HOH 4 204 112 HOH HOH A . E 3 HOH 5 205 116 HOH HOH A . E 3 HOH 6 206 118 HOH HOH A . E 3 HOH 7 207 123 HOH HOH A . E 3 HOH 8 208 124 HOH HOH A . E 3 HOH 9 209 127 HOH HOH A . E 3 HOH 10 210 128 HOH HOH A . E 3 HOH 11 211 129 HOH HOH A . E 3 HOH 12 212 131 HOH HOH A . E 3 HOH 13 213 132 HOH HOH A . E 3 HOH 14 214 133 HOH HOH A . E 3 HOH 15 215 134 HOH HOH A . E 3 HOH 16 216 135 HOH HOH A . E 3 HOH 17 217 137 HOH HOH A . E 3 HOH 18 218 138 HOH HOH A . E 3 HOH 19 219 139 HOH HOH A . E 3 HOH 20 220 140 HOH HOH A . E 3 HOH 21 221 145 HOH HOH A . E 3 HOH 22 222 146 HOH HOH A . E 3 HOH 23 223 150 HOH HOH A . E 3 HOH 24 224 152 HOH HOH A . E 3 HOH 25 225 153 HOH HOH A . E 3 HOH 26 226 156 HOH HOH A . E 3 HOH 27 227 157 HOH HOH A . E 3 HOH 28 228 159 HOH HOH A . E 3 HOH 29 229 160 HOH HOH A . E 3 HOH 30 230 162 HOH HOH A . E 3 HOH 31 231 164 HOH HOH A . E 3 HOH 32 232 166 HOH HOH A . E 3 HOH 33 233 167 HOH HOH A . E 3 HOH 34 234 168 HOH HOH A . F 3 HOH 1 201 101 HOH HOH B . F 3 HOH 2 202 102 HOH HOH B . F 3 HOH 3 203 103 HOH HOH B . F 3 HOH 4 204 106 HOH HOH B . F 3 HOH 5 205 107 HOH HOH B . F 3 HOH 6 206 109 HOH HOH B . F 3 HOH 7 207 110 HOH HOH B . F 3 HOH 8 208 111 HOH HOH B . F 3 HOH 9 209 113 HOH HOH B . F 3 HOH 10 210 114 HOH HOH B . F 3 HOH 11 211 115 HOH HOH B . F 3 HOH 12 212 117 HOH HOH B . F 3 HOH 13 213 119 HOH HOH B . F 3 HOH 14 214 120 HOH HOH B . F 3 HOH 15 215 121 HOH HOH B . F 3 HOH 16 216 122 HOH HOH B . F 3 HOH 17 217 125 HOH HOH B . F 3 HOH 18 218 126 HOH HOH B . F 3 HOH 19 219 130 HOH HOH B . F 3 HOH 20 220 136 HOH HOH B . F 3 HOH 21 221 141 HOH HOH B . F 3 HOH 22 222 142 HOH HOH B . F 3 HOH 23 223 143 HOH HOH B . F 3 HOH 24 224 144 HOH HOH B . F 3 HOH 25 225 147 HOH HOH B . F 3 HOH 26 226 148 HOH HOH B . F 3 HOH 27 227 149 HOH HOH B . F 3 HOH 28 228 151 HOH HOH B . F 3 HOH 29 229 154 HOH HOH B . F 3 HOH 30 230 155 HOH HOH B . F 3 HOH 31 231 158 HOH HOH B . F 3 HOH 32 232 161 HOH HOH B . F 3 HOH 33 233 163 HOH HOH B . F 3 HOH 34 234 165 HOH HOH 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 5HC 9 A 5HC 9 ? DC ? 2 B 5HC 9 B 5HC 9 ? DC ? # _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 # 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)' 1480 ? 1 MORE -3 ? 1 'SSA (A^2)' 4490 ? # _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 O2 ? A DT 7 ? A DT 7 ? 1_555 K ? C K . ? A K 101 ? 1_555 "O4'" ? A DT 8 ? A DT 8 ? 1_555 67.4 ? 2 O2 ? A DT 7 ? A DT 7 ? 1_555 K ? C K . ? A K 101 ? 1_555 O2 ? B DT 7 ? B DT 7 ? 1_555 84.6 ? 3 "O4'" ? A DT 8 ? A DT 8 ? 1_555 K ? C K . ? A K 101 ? 1_555 O2 ? B DT 7 ? B DT 7 ? 1_555 141.0 ? 4 O2 ? A DT 7 ? A DT 7 ? 1_555 K ? C K . ? A K 101 ? 1_555 "O4'" ? B DT 8 ? B DT 8 ? 1_555 134.2 ? 5 "O4'" ? A DT 8 ? A DT 8 ? 1_555 K ? C K . ? A K 101 ? 1_555 "O4'" ? B DT 8 ? B DT 8 ? 1_555 153.0 ? 6 O2 ? B DT 7 ? B DT 7 ? 1_555 K ? C K . ? A K 101 ? 1_555 "O4'" ? B DT 8 ? B DT 8 ? 1_555 65.4 ? 7 O2 ? A DT 7 ? A DT 7 ? 1_555 K ? C K . ? A K 101 ? 1_555 O ? F HOH . ? B HOH 204 ? 1_555 123.8 ? 8 "O4'" ? A DT 8 ? A DT 8 ? 1_555 K ? C K . ? A K 101 ? 1_555 O ? F HOH . ? B HOH 204 ? 1_555 79.8 ? 9 O2 ? B DT 7 ? B DT 7 ? 1_555 K ? C K . ? A K 101 ? 1_555 O ? F HOH . ? B HOH 204 ? 1_555 95.4 ? 10 "O4'" ? B DT 8 ? B DT 8 ? 1_555 K ? C K . ? A K 101 ? 1_555 O ? F HOH . ? B HOH 204 ? 1_555 94.1 ? 11 O2 ? A DT 7 ? A DT 7 ? 1_555 K ? C K . ? A K 101 ? 1_555 O ? F HOH . ? B HOH 205 ? 1_555 95.2 ? 12 "O4'" ? A DT 8 ? A DT 8 ? 1_555 K ? C K . ? A K 101 ? 1_555 O ? F HOH . ? B HOH 205 ? 1_555 94.1 ? 13 O2 ? B DT 7 ? B DT 7 ? 1_555 K ? C K . ? A K 101 ? 1_555 O ? F HOH . ? B HOH 205 ? 1_555 115.8 ? 14 "O4'" ? B DT 8 ? B DT 8 ? 1_555 K ? C K . ? A K 101 ? 1_555 O ? F HOH . ? B HOH 205 ? 1_555 70.6 ? 15 O ? F HOH . ? B HOH 204 ? 1_555 K ? C K . ? A K 101 ? 1_555 O ? F HOH . ? B HOH 205 ? 1_555 132.7 ? 16 O2 ? A DT 8 ? A DT 8 ? 1_555 K ? D K . ? B K 101 ? 1_555 "O4'" ? A 5HC 9 ? A 5HC 9 ? 1_555 62.8 ? 17 O2 ? A DT 8 ? A DT 8 ? 1_555 K ? D K . ? B K 101 ? 1_555 "O4'" ? B DT 7 ? B DT 7 ? 1_555 140.8 ? 18 "O4'" ? A 5HC 9 ? A 5HC 9 ? 1_555 K ? D K . ? B K 101 ? 1_555 "O4'" ? B DT 7 ? B DT 7 ? 1_555 156.3 ? 19 O2 ? A DT 8 ? A DT 8 ? 1_555 K ? D K . ? B K 101 ? 1_555 O ? F HOH . ? B HOH 204 ? 1_555 103.2 ? 20 "O4'" ? A 5HC 9 ? A 5HC 9 ? 1_555 K ? D K . ? B K 101 ? 1_555 O ? F HOH . ? B HOH 204 ? 1_555 102.0 ? 21 "O4'" ? B DT 7 ? B DT 7 ? 1_555 K ? D K . ? B K 101 ? 1_555 O ? F HOH . ? B HOH 204 ? 1_555 74.1 ? 22 O2 ? A DT 8 ? A DT 8 ? 1_555 K ? D K . ? B K 101 ? 1_555 O ? F HOH . ? B HOH 208 ? 1_555 119.2 ? 23 "O4'" ? A 5HC 9 ? A 5HC 9 ? 1_555 K ? D K . ? B K 101 ? 1_555 O ? F HOH . ? B HOH 208 ? 1_555 79.1 ? 24 "O4'" ? B DT 7 ? B DT 7 ? 1_555 K ? D K . ? B K 101 ? 1_555 O ? F HOH . ? B HOH 208 ? 1_555 86.1 ? 25 O ? F HOH . ? B HOH 204 ? 1_555 K ? D K . ? B K 101 ? 1_555 O ? F HOH . ? B HOH 208 ? 1_555 131.1 ? # 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 2013-08-28 2 'Structure model' 1 1 2013-09-04 3 'Structure model' 1 2 2013-12-04 4 'Structure model' 1 3 2023-09-13 # _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' 'Database references' 2 3 'Structure model' 'Database references' 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_seq_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.value' 14 4 'Structure model' '_struct_conn.pdbx_dist_value' 15 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 16 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 17 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 18 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 19 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 20 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 21 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 22 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 23 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 24 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 25 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 26 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 27 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 28 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 29 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 30 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 31 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 32 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal RemDAq 'data collection' . ? 1 PHASER phasing . ? 2 SHELXL-97 refinement . ? 3 XDS 'data reduction' . ? 4 XDS 'data scaling' . ? 5 # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DC 3 ? ? "C1'" A DC 3 ? ? N1 A DC 3 ? ? 102.94 108.00 -5.06 0.70 N 2 1 "C3'" A DG 4 ? ? "C2'" A DG 4 ? ? "C1'" A DG 4 ? ? 96.03 102.40 -6.37 0.80 N 3 1 "O4'" A DA 6 ? ? "C1'" A DA 6 ? ? N9 A DA 6 ? ? 102.82 108.00 -5.18 0.70 N 4 1 "C3'" A DT 7 ? ? "O3'" A DT 7 ? ? P A DT 8 ? ? 127.25 119.70 7.55 1.20 Y 5 1 "O4'" A DT 8 ? ? "C1'" A DT 8 ? ? N1 A DT 8 ? ? 102.30 108.00 -5.70 0.70 N 6 1 "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? "C1'" A DG 10 ? ? 97.45 102.40 -4.95 0.80 N 7 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 100.56 108.00 -7.44 0.70 N 8 1 "O4'" A DG 12 ? ? "C1'" A DG 12 ? ? N9 A DG 12 ? ? 102.66 108.00 -5.34 0.70 N 9 1 C5 A DG 12 ? ? C6 A DG 12 ? ? O6 A DG 12 ? ? 125.00 128.60 -3.60 0.60 N 10 1 "O4'" B DC 1 ? ? "C1'" B DC 1 ? ? N1 B DC 1 ? ? 110.68 108.30 2.38 0.30 N 11 1 "O4'" B DG 4 ? ? "C1'" B DG 4 ? ? N9 B DG 4 ? ? 111.09 108.30 2.79 0.30 N 12 1 "O4'" B DA 6 ? ? "C1'" B DA 6 ? ? N9 B DA 6 ? ? 102.49 108.00 -5.51 0.70 N 13 1 C6 B DA 6 ? ? N1 B DA 6 ? ? C2 B DA 6 ? ? 122.62 118.60 4.02 0.60 N 14 1 C2 B DA 6 ? ? N3 B DA 6 ? ? C4 B DA 6 ? ? 107.38 110.60 -3.22 0.50 N 15 1 "O4'" B DT 7 ? ? "C1'" B DT 7 ? ? N1 B DT 7 ? ? 103.03 108.00 -4.97 0.70 N 16 1 N1 B DT 8 ? ? "C1'" B DT 8 ? ? "C2'" B DT 8 ? ? 123.72 114.30 9.42 1.40 N 17 1 "O4'" B DT 8 ? ? "C1'" B DT 8 ? ? N1 B DT 8 ? ? 99.35 108.00 -8.65 0.70 N 18 1 "C3'" B DG 10 ? ? "C2'" B DG 10 ? ? "C1'" B DG 10 ? ? 95.69 102.40 -6.71 0.80 N 19 1 "C3'" B DC 11 ? ? "O3'" B DC 11 ? ? P B DG 12 ? ? 127.31 119.70 7.61 1.20 Y # 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 5HC P P N N 1 5HC OP1 O N N 2 5HC OP2 O N N 3 5HC "O5'" O N N 4 5HC "C5'" C N N 5 5HC "C4'" C N R 6 5HC "O4'" O N N 7 5HC "C3'" C N S 8 5HC "O3'" O N N 9 5HC "C2'" C N N 10 5HC "C1'" C N R 11 5HC N1 N N N 12 5HC C2 C N N 13 5HC O2 O N N 14 5HC N3 N N N 15 5HC C4 C N N 16 5HC N4 N N N 17 5HC C5 C N N 18 5HC C5M C N N 19 5HC O5 O N N 20 5HC C6 C N N 21 5HC OP3 O N N 22 5HC HOP2 H N N 23 5HC "H5'" H N N 24 5HC "H5''" H N N 25 5HC H4 H N N 26 5HC "H3'" H N N 27 5HC "HO3'" H N N 28 5HC "H2'" H N N 29 5HC "H2''" H N N 30 5HC "H1'" H N N 31 5HC HN41 H N N 32 5HC HN42 H N N 33 5HC H5M2 H N N 34 5HC H5M1 H N N 35 5HC HO5 H N N 36 5HC H6 H N N 37 5HC HOP3 H N N 38 DA OP3 O N N 39 DA P P N N 40 DA OP1 O N N 41 DA OP2 O N N 42 DA "O5'" O N N 43 DA "C5'" C N N 44 DA "C4'" C N R 45 DA "O4'" O N N 46 DA "C3'" C N S 47 DA "O3'" O N N 48 DA "C2'" C N N 49 DA "C1'" C N R 50 DA N9 N Y N 51 DA C8 C Y N 52 DA N7 N Y N 53 DA C5 C Y N 54 DA C6 C Y N 55 DA N6 N N N 56 DA N1 N Y N 57 DA C2 C Y N 58 DA N3 N Y N 59 DA C4 C Y N 60 DA HOP3 H N N 61 DA HOP2 H N N 62 DA "H5'" H N N 63 DA "H5''" H N N 64 DA "H4'" H N N 65 DA "H3'" H N N 66 DA "HO3'" H N N 67 DA "H2'" H N N 68 DA "H2''" H N N 69 DA "H1'" H N N 70 DA H8 H N N 71 DA H61 H N N 72 DA H62 H N N 73 DA H2 H N N 74 DC OP3 O N N 75 DC P P N N 76 DC OP1 O N N 77 DC OP2 O N N 78 DC "O5'" O N N 79 DC "C5'" C N N 80 DC "C4'" C N R 81 DC "O4'" O N N 82 DC "C3'" C N S 83 DC "O3'" O N N 84 DC "C2'" C N N 85 DC "C1'" C N R 86 DC N1 N N N 87 DC C2 C N N 88 DC O2 O N N 89 DC N3 N N N 90 DC C4 C N N 91 DC N4 N N N 92 DC C5 C N N 93 DC C6 C N N 94 DC HOP3 H N N 95 DC HOP2 H N N 96 DC "H5'" H N N 97 DC "H5''" H N N 98 DC "H4'" H N N 99 DC "H3'" H N N 100 DC "HO3'" H N N 101 DC "H2'" H N N 102 DC "H2''" H N N 103 DC "H1'" H N N 104 DC H41 H N N 105 DC H42 H N N 106 DC H5 H N N 107 DC H6 H N N 108 DG OP3 O N N 109 DG P P N N 110 DG OP1 O N N 111 DG OP2 O N N 112 DG "O5'" O N N 113 DG "C5'" C N N 114 DG "C4'" C N R 115 DG "O4'" O N N 116 DG "C3'" C N S 117 DG "O3'" O N N 118 DG "C2'" C N N 119 DG "C1'" C N R 120 DG N9 N Y N 121 DG C8 C Y N 122 DG N7 N Y N 123 DG C5 C Y N 124 DG C6 C N N 125 DG O6 O N N 126 DG N1 N N N 127 DG C2 C N N 128 DG N2 N N N 129 DG N3 N N N 130 DG C4 C Y N 131 DG HOP3 H N N 132 DG HOP2 H N N 133 DG "H5'" H N N 134 DG "H5''" H N N 135 DG "H4'" H N N 136 DG "H3'" H N N 137 DG "HO3'" H N N 138 DG "H2'" H N N 139 DG "H2''" H N N 140 DG "H1'" H N N 141 DG H8 H N N 142 DG H1 H N N 143 DG H21 H N N 144 DG H22 H N N 145 DT OP3 O N N 146 DT P P N N 147 DT OP1 O N N 148 DT OP2 O N N 149 DT "O5'" O N N 150 DT "C5'" C N N 151 DT "C4'" C N R 152 DT "O4'" O N N 153 DT "C3'" C N S 154 DT "O3'" O N N 155 DT "C2'" C N N 156 DT "C1'" C N R 157 DT N1 N N N 158 DT C2 C N N 159 DT O2 O N N 160 DT N3 N N N 161 DT C4 C N N 162 DT O4 O N N 163 DT C5 C N N 164 DT C7 C N N 165 DT C6 C N N 166 DT HOP3 H N N 167 DT HOP2 H N N 168 DT "H5'" H N N 169 DT "H5''" H N N 170 DT "H4'" H N N 171 DT "H3'" H N N 172 DT "HO3'" H N N 173 DT "H2'" H N N 174 DT "H2''" H N N 175 DT "H1'" H N N 176 DT H3 H N N 177 DT H71 H N N 178 DT H72 H N N 179 DT H73 H N N 180 DT H6 H N N 181 HOH O O N N 182 HOH H1 H N N 183 HOH H2 H N N 184 K K K N N 185 # 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 5HC "O4'" "C4'" sing N N 1 5HC "O4'" "C1'" sing N N 2 5HC "C4'" "C5'" sing N N 3 5HC "C4'" "C3'" sing N N 4 5HC O2 C2 doub N N 5 5HC "C1'" N1 sing N N 6 5HC "C1'" "C2'" sing N N 7 5HC "C5'" "O5'" sing N N 8 5HC C2 N1 sing N N 9 5HC C2 N3 sing N N 10 5HC N1 C6 sing N N 11 5HC N3 C4 doub N N 12 5HC "O5'" P sing N N 13 5HC "C2'" "C3'" sing N N 14 5HC C6 C5 doub N N 15 5HC "C3'" "O3'" sing N N 16 5HC P OP1 doub N N 17 5HC P OP2 sing N N 18 5HC C4 C5 sing N N 19 5HC C4 N4 sing N N 20 5HC C5 C5M sing N N 21 5HC C5M O5 sing N N 22 5HC P OP3 sing N N 23 5HC OP2 HOP2 sing N N 24 5HC "C5'" "H5'" sing N N 25 5HC "C5'" "H5''" sing N N 26 5HC "C4'" H4 sing N N 27 5HC "C3'" "H3'" sing N N 28 5HC "O3'" "HO3'" sing N N 29 5HC "C2'" "H2'" sing N N 30 5HC "C2'" "H2''" sing N N 31 5HC "C1'" "H1'" sing N N 32 5HC N4 HN41 sing N N 33 5HC N4 HN42 sing N N 34 5HC C5M H5M2 sing N N 35 5HC C5M H5M1 sing N N 36 5HC O5 HO5 sing N N 37 5HC C6 H6 sing N N 38 5HC OP3 HOP3 sing N N 39 DA OP3 P sing N N 40 DA OP3 HOP3 sing N N 41 DA P OP1 doub N N 42 DA P OP2 sing N N 43 DA P "O5'" sing N N 44 DA OP2 HOP2 sing N N 45 DA "O5'" "C5'" sing N N 46 DA "C5'" "C4'" sing N N 47 DA "C5'" "H5'" sing N N 48 DA "C5'" "H5''" sing N N 49 DA "C4'" "O4'" sing N N 50 DA "C4'" "C3'" sing N N 51 DA "C4'" "H4'" sing N N 52 DA "O4'" "C1'" sing N N 53 DA "C3'" "O3'" sing N N 54 DA "C3'" "C2'" sing N N 55 DA "C3'" "H3'" sing N N 56 DA "O3'" "HO3'" sing N N 57 DA "C2'" "C1'" sing N N 58 DA "C2'" "H2'" sing N N 59 DA "C2'" "H2''" sing N N 60 DA "C1'" N9 sing N N 61 DA "C1'" "H1'" sing N N 62 DA N9 C8 sing Y N 63 DA N9 C4 sing Y N 64 DA C8 N7 doub Y N 65 DA C8 H8 sing N N 66 DA N7 C5 sing Y N 67 DA C5 C6 sing Y N 68 DA C5 C4 doub Y N 69 DA C6 N6 sing N N 70 DA C6 N1 doub Y N 71 DA N6 H61 sing N N 72 DA N6 H62 sing N N 73 DA N1 C2 sing Y N 74 DA C2 N3 doub Y N 75 DA C2 H2 sing N N 76 DA N3 C4 sing Y N 77 DC OP3 P sing N N 78 DC OP3 HOP3 sing N N 79 DC P OP1 doub N N 80 DC P OP2 sing N N 81 DC P "O5'" sing N N 82 DC OP2 HOP2 sing N N 83 DC "O5'" "C5'" sing N N 84 DC "C5'" "C4'" sing N N 85 DC "C5'" "H5'" sing N N 86 DC "C5'" "H5''" sing N N 87 DC "C4'" "O4'" sing N N 88 DC "C4'" "C3'" sing N N 89 DC "C4'" "H4'" sing N N 90 DC "O4'" "C1'" sing N N 91 DC "C3'" "O3'" sing N N 92 DC "C3'" "C2'" sing N N 93 DC "C3'" "H3'" sing N N 94 DC "O3'" "HO3'" sing N N 95 DC "C2'" "C1'" sing N N 96 DC "C2'" "H2'" sing N N 97 DC "C2'" "H2''" sing N N 98 DC "C1'" N1 sing N N 99 DC "C1'" "H1'" sing N N 100 DC N1 C2 sing N N 101 DC N1 C6 sing N N 102 DC C2 O2 doub N N 103 DC C2 N3 sing N N 104 DC N3 C4 doub N N 105 DC C4 N4 sing N N 106 DC C4 C5 sing N N 107 DC N4 H41 sing N N 108 DC N4 H42 sing N N 109 DC C5 C6 doub N N 110 DC C5 H5 sing N N 111 DC C6 H6 sing N N 112 DG OP3 P sing N N 113 DG OP3 HOP3 sing N N 114 DG P OP1 doub N N 115 DG P OP2 sing N N 116 DG P "O5'" sing N N 117 DG OP2 HOP2 sing N N 118 DG "O5'" "C5'" sing N N 119 DG "C5'" "C4'" sing N N 120 DG "C5'" "H5'" sing N N 121 DG "C5'" "H5''" sing N N 122 DG "C4'" "O4'" sing N N 123 DG "C4'" "C3'" sing N N 124 DG "C4'" "H4'" sing N N 125 DG "O4'" "C1'" sing N N 126 DG "C3'" "O3'" sing N N 127 DG "C3'" "C2'" sing N N 128 DG "C3'" "H3'" sing N N 129 DG "O3'" "HO3'" sing N N 130 DG "C2'" "C1'" sing N N 131 DG "C2'" "H2'" sing N N 132 DG "C2'" "H2''" sing N N 133 DG "C1'" N9 sing N N 134 DG "C1'" "H1'" sing N N 135 DG N9 C8 sing Y N 136 DG N9 C4 sing Y N 137 DG C8 N7 doub Y N 138 DG C8 H8 sing N N 139 DG N7 C5 sing Y N 140 DG C5 C6 sing N N 141 DG C5 C4 doub Y N 142 DG C6 O6 doub N N 143 DG C6 N1 sing N N 144 DG N1 C2 sing N N 145 DG N1 H1 sing N N 146 DG C2 N2 sing N N 147 DG C2 N3 doub N N 148 DG N2 H21 sing N N 149 DG N2 H22 sing N N 150 DG N3 C4 sing N N 151 DT OP3 P sing N N 152 DT OP3 HOP3 sing N N 153 DT P OP1 doub N N 154 DT P OP2 sing N N 155 DT P "O5'" sing N N 156 DT OP2 HOP2 sing N N 157 DT "O5'" "C5'" sing N N 158 DT "C5'" "C4'" sing N N 159 DT "C5'" "H5'" sing N N 160 DT "C5'" "H5''" sing N N 161 DT "C4'" "O4'" sing N N 162 DT "C4'" "C3'" sing N N 163 DT "C4'" "H4'" sing N N 164 DT "O4'" "C1'" sing N N 165 DT "C3'" "O3'" sing N N 166 DT "C3'" "C2'" sing N N 167 DT "C3'" "H3'" sing N N 168 DT "O3'" "HO3'" sing N N 169 DT "C2'" "C1'" sing N N 170 DT "C2'" "H2'" sing N N 171 DT "C2'" "H2''" sing N N 172 DT "C1'" N1 sing N N 173 DT "C1'" "H1'" sing N N 174 DT N1 C2 sing N N 175 DT N1 C6 sing N N 176 DT C2 O2 doub N N 177 DT C2 N3 sing N N 178 DT N3 C4 sing N N 179 DT N3 H3 sing N N 180 DT C4 O4 doub N N 181 DT C4 C5 sing N N 182 DT C5 C7 sing N N 183 DT C5 C6 doub N N 184 DT C7 H71 sing N N 185 DT C7 H72 sing N N 186 DT C7 H73 sing N N 187 DT C6 H6 sing N N 188 HOH O H1 sing N N 189 HOH O H2 sing N N 190 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 4GLH 'double helix' 4GLH 'b-form double helix' 4GLH '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 DC 1 1_555 B DG 12 1_555 0.303 -0.208 0.296 -1.203 -0.678 -0.237 1 A_DC1:DG12_B A 1 ? B 12 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.192 -0.297 0.587 6.391 -15.892 -5.353 2 A_DG2:DC11_B A 2 ? B 11 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.148 -0.119 0.063 -1.757 0.879 -1.532 3 A_DC3:DG10_B A 3 ? B 10 ? 19 1 1 A DA 5 1_555 B DT 8 1_555 0.079 -0.146 0.014 7.986 -19.396 4.257 4 A_DA5:DT8_B A 5 ? B 8 ? 20 1 1 A DA 6 1_555 B DT 7 1_555 0.049 -0.129 0.158 1.165 -19.548 4.064 5 A_DA6:DT7_B A 6 ? B 7 ? 20 1 1 A DT 7 1_555 B DA 6 1_555 -0.038 -0.088 0.217 -1.362 -17.917 4.136 6 A_DT7:DA6_B A 7 ? B 6 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 -0.106 -0.186 0.175 -5.056 -12.885 4.360 7 A_DT8:DA5_B A 8 ? B 5 ? 20 1 1 A DG 10 1_555 B DC 3 1_555 -0.201 -0.098 0.457 11.672 -3.475 1.246 8 A_DG10:DC3_B A 10 ? B 3 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.179 -0.184 0.293 4.298 -20.035 -1.543 9 A_DC11:DG2_B A 11 ? B 2 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.218 -0.217 0.178 5.442 -3.562 -5.068 10 A_DG12:DC1_B A 12 ? 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 DC 1 1_555 B DG 12 1_555 A DG 2 1_555 B DC 11 1_555 -0.870 0.166 3.167 -4.708 -4.343 37.566 0.795 0.747 3.210 -6.684 7.246 38.089 1 AA_DC1DG2:DC11DG12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.887 0.122 3.612 5.150 -7.438 39.602 1.104 -0.637 3.615 -10.807 -7.483 40.582 2 AA_DG2DC3:DG10DC11_BB A 2 ? B 11 ? A 3 ? B 10 ? 1 A DC 3 1_555 B DG 10 1_555 A DA 5 1_555 B DT 8 1_555 -0.508 -0.041 6.504 -0.159 3.327 63.902 -0.324 0.466 6.496 3.141 0.150 63.980 3 AA_DC3DA5:DT8DG10_BB A 3 ? B 10 ? A 5 ? B 8 ? 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B DT 7 1_555 0.067 -0.214 3.332 -2.274 0.111 38.719 -0.336 -0.384 3.322 0.167 3.426 38.783 4 AA_DA5DA6:DT7DT8_BB A 5 ? B 8 ? A 6 ? B 7 ? 1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 0.079 -0.574 3.247 -0.032 -1.832 31.882 -0.711 -0.149 3.274 -3.333 0.058 31.933 5 AA_DA6DT7:DA6DT7_BB A 6 ? B 7 ? A 7 ? B 6 ? 1 A DT 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 0.002 -0.420 3.252 0.761 -2.557 36.116 -0.317 0.104 3.272 -4.118 -1.226 36.211 6 AA_DT7DT8:DA5DA6_BB A 7 ? B 6 ? A 8 ? B 5 ? 1 A DT 8 1_555 B DA 5 1_555 A DG 10 1_555 B DC 3 1_555 0.030 0.229 6.251 -1.913 -3.568 67.603 0.465 -0.166 6.231 -3.203 1.717 67.710 7 AA_DT8DG10:DC3DA5_BB A 8 ? B 5 ? A 10 ? B 3 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -1.326 0.516 3.589 -0.722 -9.705 42.684 1.699 1.705 3.419 -13.130 0.977 43.728 8 AA_DG10DC11:DG2DC3_BB A 10 ? B 3 ? A 11 ? B 2 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 0.598 0.514 3.336 1.299 2.294 34.902 0.500 -0.793 3.382 3.818 -2.162 34.999 9 AA_DC11DG12:DC1DG2_BB A 11 ? B 2 ? A 12 ? B 1 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'POTASSIUM ION' K 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 1DPN _pdbx_initial_refinement_model.details 'PDB ENTRY 1DPN' #