data_2HC7 # _entry.id 2HC7 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.377 _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 2HC7 pdb_00002hc7 10.2210/pdb2hc7/pdb NDB AD0065 ? ? RCSB RCSB038185 ? ? WWPDB D_1000038185 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2HC7 _pdbx_database_status.recvd_initial_deposition_date 2006-06-15 _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.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Jiang, J.' 1 'Sheng, J.' 2 'Huang, Z.' 3 # _citation.id primary _citation.title ;Crystal Structure of 2'-Selenium modified T A-DNA G(TSe)GTACAC ; _citation.journal_abbrev 'TO BE PUBLISHED' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Jiang, J.' 1 ? primary 'Sheng, J.' 2 ? primary 'Huang, Z.' 3 ? # _cell.entry_id 2HC7 _cell.length_a 42.221 _cell.length_b 42.221 _cell.length_c 24.026 _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 2HC7 _symmetry.space_group_name_H-M 'P 43 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn "5'-D(*GP*(2ST)P*GP*TP*AP*CP*AP*C)-3'" 2519.604 1 ? ? ? ? 2 water nat water 18.015 43 ? ? ? ? # _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 '(DG)(2ST)(DG)(DT)(DA)(DC)(DA)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GTGTACAC _entity_poly.pdbx_strand_id A _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 DG n 1 2 2ST n 1 3 DG n 1 4 DT n 1 5 DA n 1 6 DC n 1 7 DA n 1 8 DC n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'SOLID PHASE SYNTHESIS VIA PHOSPHORAMIDITE' # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 2HC7 _struct_ref.pdbx_db_accession 2HC7 _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2HC7 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 8 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 2HC7 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 8 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 8 # 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 2ST 'DNA linking' n ;5-METHYL-2'-SE-METHYL-2'-SELENOURIDINE 5'-(DIHYDROGEN PHOSPHATE) ; ? 'C11 H17 N2 O8 P Se' 415.195 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 # _exptl.entry_id 2HC7 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.05 _exptl_crystal.density_percent_sol 39.91 _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 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_details ;10% MPD, 40 mM Na Cacodylate, 12 mM Sperimine tetra-HCI, 80 mM Sodium Chloride and 20 mM Magnesium Chloride, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K ; _exptl_crystal_grow.pdbx_pH_range . # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 MPD ? ? ? 1 2 1 'Na Cacodylate' ? ? ? 1 3 1 'Sperimine tetra-HCI' ? ? ? 1 4 1 'Sodium Chloride' ? ? ? 1 5 1 'Magnesium Chloride' ? ? ? 1 6 1 H2O ? ? ? 1 7 2 MPD ? ? ? 1 8 2 'Na Cacodylate' ? ? ? 1 9 2 'Sodium Chloride' ? ? ? 1 10 2 'Magnesium Chloride' ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 210' _diffrn_detector.pdbx_collection_date 2006-06-01 _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 Si _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.1 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'NSLS BEAMLINE X12C' _diffrn_source.pdbx_synchrotron_site NSLS _diffrn_source.pdbx_synchrotron_beamline X12C _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.1 # _reflns.entry_id 2HC7 _reflns.observed_criterion_sigma_I 1 _reflns.observed_criterion_sigma_F 1 _reflns.d_resolution_low 40 _reflns.d_resolution_high 1.4 _reflns.number_obs 4577 _reflns.number_all 4577 _reflns.percent_possible_obs 98.8 _reflns.pdbx_Rmerge_I_obs 0.036 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 13.1 _reflns.B_iso_Wilson_estimate 16.1 _reflns.pdbx_redundancy 12.7 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.40 _reflns_shell.d_res_low 1.45 _reflns_shell.percent_possible_all 92.3 _reflns_shell.Rmerge_I_obs 0.343 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.1 _reflns_shell.pdbx_redundancy 10.0 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 2HC7 _refine.ls_number_reflns_obs 4252 _refine.ls_number_reflns_all 4252 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.5 _refine.pdbx_data_cutoff_high_absF 711051.17 _refine.pdbx_data_cutoff_low_absF 0.000000 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 18.72 _refine.ls_d_res_high 1.40 _refine.ls_percent_reflns_obs 92.8 _refine.ls_R_factor_obs 0.17 _refine.ls_R_factor_all 0.172 _refine.ls_R_factor_R_work 0.17 _refine.ls_R_factor_R_free 0.187 _refine.ls_R_factor_R_free_error 0.009 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 10.2 _refine.ls_number_reflns_R_free 435 _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 18.5 _refine.aniso_B[1][1] -0.86 _refine.aniso_B[2][2] -0.86 _refine.aniso_B[3][3] 1.71 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'FLAT MODEL' _refine.solvent_model_param_ksol 0.34 _refine.solvent_model_param_bsol 45.0525 _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model 'pdb entry 1Z7I' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model RESTRAINED _refine.pdbx_stereochemistry_target_values DNA-RNA _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 2HC7 _refine_analyze.Luzzati_coordinate_error_obs 0.13 _refine_analyze.Luzzati_sigma_a_obs 0.08 _refine_analyze.Luzzati_d_res_low_obs 5.00 _refine_analyze.Luzzati_coordinate_error_free 0.15 _refine_analyze.Luzzati_sigma_a_free 0.08 _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 163 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 43 _refine_hist.number_atoms_total 206 _refine_hist.d_res_high 1.40 _refine_hist.d_res_low 18.72 # 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 0.015 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.9 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 34.3 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 2.04 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 6 _refine_ls_shell.d_res_high 1.40 _refine_ls_shell.d_res_low 1.49 _refine_ls_shell.number_reflns_R_work 492 _refine_ls_shell.R_factor_R_work 0.221 _refine_ls_shell.percent_reflns_obs 73.7 _refine_ls_shell.R_factor_R_free 0.244 _refine_ls_shell.R_factor_R_free_error 0.034 _refine_ls_shell.percent_reflns_R_free 9.6 _refine_ls_shell.number_reflns_R_free 52 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs 492 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 protein_rep.param protein.top 'X-RAY DIFFRACTION' 2 water_rep.param dna-rna.top 'X-RAY DIFFRACTION' 3 ion.param water.top 'X-RAY DIFFRACTION' 4 dna-rna_ums.par ion.top 'X-RAY DIFFRACTION' 5 cac.par ums.top 'X-RAY DIFFRACTION' # _struct.entry_id 2HC7 _struct.title ;2'-selenium-T A-DNA [G(TSe)GTACAC] ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2HC7 _struct_keywords.pdbx_keywords DNA _struct_keywords.text ;SE-DNA, 2'-SE-T-DNA, 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 2 ? # 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 DG 1 "O3'" ? ? ? 1_555 A 2ST 2 P ? ? A DG 1 A 2ST 2 1_555 ? ? ? ? ? ? ? 1.611 ? ? covale2 covale both ? A 2ST 2 "O3'" ? ? ? 1_555 A DG 3 P ? ? A 2ST 2 A DG 3 1_555 ? ? ? ? ? ? ? 1.619 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 A DC 8 N3 ? ? A DG 1 A DC 8 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 A DC 8 O2 ? ? A DG 1 A DC 8 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 A DC 8 N4 ? ? A DG 1 A DC 8 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A 2ST 2 N3 ? ? ? 1_555 A DA 7 N1 ? ? A 2ST 2 A DA 7 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A 2ST 2 O4 ? ? ? 1_555 A DA 7 N6 ? ? A 2ST 2 A DA 7 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DC 6 N3 ? ? A DG 3 A DC 6 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DC 6 O2 ? ? A DG 3 A DC 6 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DC 6 N4 ? ? A DG 3 A DC 6 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DT 4 N3 ? ? ? 1_555 A DA 5 N1 ? ? A DT 4 A DA 5 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DT 4 O4 ? ? ? 1_555 A DA 5 N6 ? ? A DT 4 A DA 5 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 5 N1 ? ? ? 1_555 A DT 4 N3 ? ? A DA 5 A DT 4 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 5 N6 ? ? ? 1_555 A DT 4 O4 ? ? A DA 5 A DT 4 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 6 N3 ? ? ? 1_555 A DG 3 N1 ? ? A DC 6 A DG 3 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 6 N4 ? ? ? 1_555 A DG 3 O6 ? ? A DC 6 A DG 3 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 6 O2 ? ? ? 1_555 A DG 3 N2 ? ? A DC 6 A DG 3 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 7 N1 ? ? ? 1_555 A 2ST 2 N3 ? ? A DA 7 A 2ST 2 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DA 7 N6 ? ? ? 1_555 A 2ST 2 O4 ? ? A DA 7 A 2ST 2 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 8 N3 ? ? ? 1_555 A DG 1 N1 ? ? A DC 8 A DG 1 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 8 N4 ? ? ? 1_555 A DG 1 O6 ? ? A DC 8 A DG 1 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 O2 ? ? ? 1_555 A DG 1 N2 ? ? A DC 8 A DG 1 8_665 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _database_PDB_matrix.entry_id 2HC7 _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 2HC7 _atom_sites.fract_transf_matrix[1][1] 0.023685 _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] 0.023685 _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] 0.041622 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P SE # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DG 1 1 1 DG GUA A . n A 1 2 2ST 2 2 2 2ST SET A . n A 1 3 DG 3 3 3 DG GUA A . n A 1 4 DT 4 4 4 DT THY A . n A 1 5 DA 5 5 5 DA ADE A . n A 1 6 DC 6 6 6 DC CYT A . n A 1 7 DA 7 7 7 DA ADE A . n A 1 8 DC 8 8 8 DC CYT A . 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 B 2 HOH 1 9 1 HOH HOH A . B 2 HOH 2 10 2 HOH HOH A . B 2 HOH 3 11 3 HOH HOH A . B 2 HOH 4 12 4 HOH HOH A . B 2 HOH 5 13 5 HOH HOH A . B 2 HOH 6 14 6 HOH HOH A . B 2 HOH 7 15 7 HOH HOH A . B 2 HOH 8 16 8 HOH HOH A . B 2 HOH 9 17 9 HOH HOH A . B 2 HOH 10 18 10 HOH HOH A . B 2 HOH 11 19 11 HOH HOH A . B 2 HOH 12 20 12 HOH HOH A . B 2 HOH 13 21 13 HOH HOH A . B 2 HOH 14 22 14 HOH HOH A . B 2 HOH 15 23 15 HOH HOH A . B 2 HOH 16 24 16 HOH HOH A . B 2 HOH 17 25 17 HOH HOH A . B 2 HOH 18 26 18 HOH HOH A . B 2 HOH 19 27 19 HOH HOH A . B 2 HOH 20 28 20 HOH HOH A . B 2 HOH 21 29 21 HOH HOH A . B 2 HOH 22 30 22 HOH HOH A . B 2 HOH 23 31 23 HOH HOH A . B 2 HOH 24 32 24 HOH HOH A . B 2 HOH 25 33 25 HOH HOH A . B 2 HOH 26 34 26 HOH HOH A . B 2 HOH 27 35 27 HOH HOH A . B 2 HOH 28 36 28 HOH HOH A . B 2 HOH 29 37 29 HOH HOH A . B 2 HOH 30 38 30 HOH HOH A . B 2 HOH 31 39 31 HOH HOH A . B 2 HOH 32 40 32 HOH HOH A . B 2 HOH 33 41 33 HOH HOH A . B 2 HOH 34 42 34 HOH HOH A . B 2 HOH 35 43 35 HOH HOH A . B 2 HOH 36 44 36 HOH HOH A . B 2 HOH 37 45 37 HOH HOH A . B 2 HOH 38 46 38 HOH HOH A . B 2 HOH 39 47 39 HOH HOH A . B 2 HOH 40 48 40 HOH HOH A . B 2 HOH 41 49 41 HOH HOH A . B 2 HOH 42 50 42 HOH HOH A . B 2 HOH 43 51 43 HOH HOH A . # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id 2ST _pdbx_struct_mod_residue.label_seq_id 2 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id 2ST _pdbx_struct_mod_residue.auth_seq_id 2 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DT _pdbx_struct_mod_residue.details ? # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 8_665 -y+1,-x+1,-z+1/2 0.0000000000 -1.0000000000 0.0000000000 42.2210000000 -1.0000000000 0.0000000000 0.0000000000 42.2210000000 0.0000000000 0.0000000000 -1.0000000000 12.0130000000 # 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 2006-07-04 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2023-08-30 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 4 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' pdbx_initial_refinement_model 5 4 'Structure model' struct_conn # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CNS refinement 1.1 ? 1 CBASS 'data collection' . ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 CNS phasing . ? 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 DG 1 ? ? "C1'" A DG 1 ? ? N9 A DG 1 ? ? 101.97 108.00 -6.03 0.70 N 2 1 "O4'" A DG 3 ? ? "C1'" A DG 3 ? ? N9 A DG 3 ? ? 102.46 108.00 -5.54 0.70 N 3 1 "O4'" A DT 4 ? ? "C1'" A DT 4 ? ? N1 A DT 4 ? ? 101.66 108.00 -6.34 0.70 N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DC _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 8 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.076 _pdbx_validate_planes.type 'SIDE CHAIN' # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal 2ST OP3 O N N 1 2ST P P N N 2 2ST OP1 O N N 3 2ST OP2 O N N 4 2ST "O5'" O N N 5 2ST N1 N N N 6 2ST C6 C N N 7 2ST C2 C N N 8 2ST O2 O N N 9 2ST N3 N N N 10 2ST C4 C N N 11 2ST O4 O N N 12 2ST C5 C N N 13 2ST C5A C N N 14 2ST "C2'" C N R 15 2ST "C5'" C N N 16 2ST "C4'" C N R 17 2ST "O4'" O N N 18 2ST "C1'" C N R 19 2ST "C3'" C N R 20 2ST SE SE N N 21 2ST "CA'" C N N 22 2ST "O3'" O N N 23 2ST HOP3 H N N 24 2ST HOP2 H N N 25 2ST H6 H N N 26 2ST HN3 H N N 27 2ST H5A1 H N N 28 2ST H5A2 H N N 29 2ST H5A3 H N N 30 2ST "H2'" H N N 31 2ST "H5'" H N N 32 2ST "H5''" H N N 33 2ST "H4'" H N N 34 2ST "H1'" H N N 35 2ST "H3'" H N N 36 2ST "HA'1" H N N 37 2ST "HA'2" H N N 38 2ST "HA'3" H N N 39 2ST "HO3'" H N N 40 DA OP3 O N N 41 DA P P N N 42 DA OP1 O N N 43 DA OP2 O N N 44 DA "O5'" O N N 45 DA "C5'" C N N 46 DA "C4'" C N R 47 DA "O4'" O N N 48 DA "C3'" C N S 49 DA "O3'" O N N 50 DA "C2'" C N N 51 DA "C1'" C N R 52 DA N9 N Y N 53 DA C8 C Y N 54 DA N7 N Y N 55 DA C5 C Y N 56 DA C6 C Y N 57 DA N6 N N N 58 DA N1 N Y N 59 DA C2 C Y N 60 DA N3 N Y N 61 DA C4 C Y N 62 DA HOP3 H N N 63 DA HOP2 H N N 64 DA "H5'" H N N 65 DA "H5''" H N N 66 DA "H4'" H N N 67 DA "H3'" H N N 68 DA "HO3'" H N N 69 DA "H2'" H N N 70 DA "H2''" H N N 71 DA "H1'" H N N 72 DA H8 H N N 73 DA H61 H N N 74 DA H62 H N N 75 DA H2 H N N 76 DC OP3 O N N 77 DC P P N N 78 DC OP1 O N N 79 DC OP2 O N N 80 DC "O5'" O N N 81 DC "C5'" C N N 82 DC "C4'" C N R 83 DC "O4'" O N N 84 DC "C3'" C N S 85 DC "O3'" O N N 86 DC "C2'" C N N 87 DC "C1'" C N R 88 DC N1 N N N 89 DC C2 C N N 90 DC O2 O N N 91 DC N3 N N N 92 DC C4 C N N 93 DC N4 N N N 94 DC C5 C N N 95 DC C6 C N N 96 DC HOP3 H N N 97 DC HOP2 H N N 98 DC "H5'" H N N 99 DC "H5''" H N N 100 DC "H4'" H N N 101 DC "H3'" H N N 102 DC "HO3'" H N N 103 DC "H2'" H N N 104 DC "H2''" H N N 105 DC "H1'" H N N 106 DC H41 H N N 107 DC H42 H N N 108 DC H5 H N N 109 DC H6 H N N 110 DG OP3 O N N 111 DG P P N N 112 DG OP1 O N N 113 DG OP2 O N N 114 DG "O5'" O N N 115 DG "C5'" C N N 116 DG "C4'" C N R 117 DG "O4'" O N N 118 DG "C3'" C N S 119 DG "O3'" O N N 120 DG "C2'" C N N 121 DG "C1'" C N R 122 DG N9 N Y N 123 DG C8 C Y N 124 DG N7 N Y N 125 DG C5 C Y N 126 DG C6 C N N 127 DG O6 O N N 128 DG N1 N N N 129 DG C2 C N N 130 DG N2 N N N 131 DG N3 N N N 132 DG C4 C Y N 133 DG HOP3 H N N 134 DG HOP2 H N N 135 DG "H5'" H N N 136 DG "H5''" H N N 137 DG "H4'" H N N 138 DG "H3'" H N N 139 DG "HO3'" H N N 140 DG "H2'" H N N 141 DG "H2''" H N N 142 DG "H1'" H N N 143 DG H8 H N N 144 DG H1 H N N 145 DG H21 H N N 146 DG H22 H N N 147 DT OP3 O N N 148 DT P P N N 149 DT OP1 O N N 150 DT OP2 O N N 151 DT "O5'" O N N 152 DT "C5'" C N N 153 DT "C4'" C N R 154 DT "O4'" O N N 155 DT "C3'" C N S 156 DT "O3'" O N N 157 DT "C2'" C N N 158 DT "C1'" C N R 159 DT N1 N N N 160 DT C2 C N N 161 DT O2 O N N 162 DT N3 N N N 163 DT C4 C N N 164 DT O4 O N N 165 DT C5 C N N 166 DT C7 C N N 167 DT C6 C N N 168 DT HOP3 H N N 169 DT HOP2 H N N 170 DT "H5'" H N N 171 DT "H5''" H N N 172 DT "H4'" H N N 173 DT "H3'" H N N 174 DT "HO3'" H N N 175 DT "H2'" H N N 176 DT "H2''" H N N 177 DT "H1'" H N N 178 DT H3 H N N 179 DT H71 H N N 180 DT H72 H N N 181 DT H73 H N N 182 DT H6 H N N 183 HOH O O N N 184 HOH H1 H N N 185 HOH H2 H N N 186 # 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 2ST OP3 P sing N N 1 2ST OP3 HOP3 sing N N 2 2ST P OP1 doub N N 3 2ST P OP2 sing N N 4 2ST P "O5'" sing N N 5 2ST OP2 HOP2 sing N N 6 2ST "O5'" "C5'" sing N N 7 2ST N1 C6 sing N N 8 2ST N1 C2 sing N N 9 2ST N1 "C1'" sing N N 10 2ST C6 C5 doub N N 11 2ST C6 H6 sing N N 12 2ST C2 O2 doub N N 13 2ST C2 N3 sing N N 14 2ST N3 C4 sing N N 15 2ST N3 HN3 sing N N 16 2ST C4 O4 doub N N 17 2ST C4 C5 sing N N 18 2ST C5 C5A sing N N 19 2ST C5A H5A1 sing N N 20 2ST C5A H5A2 sing N N 21 2ST C5A H5A3 sing N N 22 2ST "C2'" "C1'" sing N N 23 2ST "C2'" "C3'" sing N N 24 2ST "C2'" SE sing N N 25 2ST "C2'" "H2'" sing N N 26 2ST "C5'" "C4'" sing N N 27 2ST "C5'" "H5'" sing N N 28 2ST "C5'" "H5''" sing N N 29 2ST "C4'" "O4'" sing N N 30 2ST "C4'" "C3'" sing N N 31 2ST "C4'" "H4'" sing N N 32 2ST "O4'" "C1'" sing N N 33 2ST "C1'" "H1'" sing N N 34 2ST "C3'" "O3'" sing N N 35 2ST "C3'" "H3'" sing N N 36 2ST SE "CA'" sing N N 37 2ST "CA'" "HA'1" sing N N 38 2ST "CA'" "HA'2" sing N N 39 2ST "CA'" "HA'3" sing N N 40 2ST "O3'" "HO3'" sing N N 41 DA OP3 P sing N N 42 DA OP3 HOP3 sing N N 43 DA P OP1 doub N N 44 DA P OP2 sing N N 45 DA P "O5'" sing N N 46 DA OP2 HOP2 sing N N 47 DA "O5'" "C5'" sing N N 48 DA "C5'" "C4'" sing N N 49 DA "C5'" "H5'" sing N N 50 DA "C5'" "H5''" sing N N 51 DA "C4'" "O4'" sing N N 52 DA "C4'" "C3'" sing N N 53 DA "C4'" "H4'" sing N N 54 DA "O4'" "C1'" sing N N 55 DA "C3'" "O3'" sing N N 56 DA "C3'" "C2'" sing N N 57 DA "C3'" "H3'" sing N N 58 DA "O3'" "HO3'" sing N N 59 DA "C2'" "C1'" sing N N 60 DA "C2'" "H2'" sing N N 61 DA "C2'" "H2''" sing N N 62 DA "C1'" N9 sing N N 63 DA "C1'" "H1'" sing N N 64 DA N9 C8 sing Y N 65 DA N9 C4 sing Y N 66 DA C8 N7 doub Y N 67 DA C8 H8 sing N N 68 DA N7 C5 sing Y N 69 DA C5 C6 sing Y N 70 DA C5 C4 doub Y N 71 DA C6 N6 sing N N 72 DA C6 N1 doub Y N 73 DA N6 H61 sing N N 74 DA N6 H62 sing N N 75 DA N1 C2 sing Y N 76 DA C2 N3 doub Y N 77 DA C2 H2 sing N N 78 DA N3 C4 sing Y N 79 DC OP3 P sing N N 80 DC OP3 HOP3 sing N N 81 DC P OP1 doub N N 82 DC P OP2 sing N N 83 DC P "O5'" sing N N 84 DC OP2 HOP2 sing N N 85 DC "O5'" "C5'" sing N N 86 DC "C5'" "C4'" sing N N 87 DC "C5'" "H5'" sing N N 88 DC "C5'" "H5''" sing N N 89 DC "C4'" "O4'" sing N N 90 DC "C4'" "C3'" sing N N 91 DC "C4'" "H4'" sing N N 92 DC "O4'" "C1'" sing N N 93 DC "C3'" "O3'" sing N N 94 DC "C3'" "C2'" sing N N 95 DC "C3'" "H3'" sing N N 96 DC "O3'" "HO3'" sing N N 97 DC "C2'" "C1'" sing N N 98 DC "C2'" "H2'" sing N N 99 DC "C2'" "H2''" sing N N 100 DC "C1'" N1 sing N N 101 DC "C1'" "H1'" sing N N 102 DC N1 C2 sing N N 103 DC N1 C6 sing N N 104 DC C2 O2 doub N N 105 DC C2 N3 sing N N 106 DC N3 C4 doub N N 107 DC C4 N4 sing N N 108 DC C4 C5 sing N N 109 DC N4 H41 sing N N 110 DC N4 H42 sing N N 111 DC C5 C6 doub N N 112 DC C5 H5 sing N N 113 DC C6 H6 sing N N 114 DG OP3 P sing N N 115 DG OP3 HOP3 sing N N 116 DG P OP1 doub N N 117 DG P OP2 sing N N 118 DG P "O5'" sing N N 119 DG OP2 HOP2 sing N N 120 DG "O5'" "C5'" sing N N 121 DG "C5'" "C4'" sing N N 122 DG "C5'" "H5'" sing N N 123 DG "C5'" "H5''" sing N N 124 DG "C4'" "O4'" sing N N 125 DG "C4'" "C3'" sing N N 126 DG "C4'" "H4'" sing N N 127 DG "O4'" "C1'" sing N N 128 DG "C3'" "O3'" sing N N 129 DG "C3'" "C2'" sing N N 130 DG "C3'" "H3'" sing N N 131 DG "O3'" "HO3'" sing N N 132 DG "C2'" "C1'" sing N N 133 DG "C2'" "H2'" sing N N 134 DG "C2'" "H2''" sing N N 135 DG "C1'" N9 sing N N 136 DG "C1'" "H1'" sing N N 137 DG N9 C8 sing Y N 138 DG N9 C4 sing Y N 139 DG C8 N7 doub Y N 140 DG C8 H8 sing N N 141 DG N7 C5 sing Y N 142 DG C5 C6 sing N N 143 DG C5 C4 doub Y N 144 DG C6 O6 doub N N 145 DG C6 N1 sing N N 146 DG N1 C2 sing N N 147 DG N1 H1 sing N N 148 DG C2 N2 sing N N 149 DG C2 N3 doub N N 150 DG N2 H21 sing N N 151 DG N2 H22 sing N N 152 DG N3 C4 sing N N 153 DT OP3 P sing N N 154 DT OP3 HOP3 sing N N 155 DT P OP1 doub N N 156 DT P OP2 sing N N 157 DT P "O5'" sing N N 158 DT OP2 HOP2 sing N N 159 DT "O5'" "C5'" sing N N 160 DT "C5'" "C4'" sing N N 161 DT "C5'" "H5'" sing N N 162 DT "C5'" "H5''" sing N N 163 DT "C4'" "O4'" sing N N 164 DT "C4'" "C3'" sing N N 165 DT "C4'" "H4'" sing N N 166 DT "O4'" "C1'" sing N N 167 DT "C3'" "O3'" sing N N 168 DT "C3'" "C2'" sing N N 169 DT "C3'" "H3'" sing N N 170 DT "O3'" "HO3'" sing N N 171 DT "C2'" "C1'" sing N N 172 DT "C2'" "H2'" sing N N 173 DT "C2'" "H2''" sing N N 174 DT "C1'" N1 sing N N 175 DT "C1'" "H1'" sing N N 176 DT N1 C2 sing N N 177 DT N1 C6 sing N N 178 DT C2 O2 doub N N 179 DT C2 N3 sing N N 180 DT N3 C4 sing N N 181 DT N3 H3 sing N N 182 DT C4 O4 doub N N 183 DT C4 C5 sing N N 184 DT C5 C7 sing N N 185 DT C5 C6 doub N N 186 DT C7 H71 sing N N 187 DT C7 H72 sing N N 188 DT C7 H73 sing N N 189 DT C6 H6 sing N N 190 HOH O H1 sing N N 191 HOH O H2 sing N N 192 # _ndb_struct_conf_na.entry_id 2HC7 _ndb_struct_conf_na.feature 'a-form double helix' # 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 DG 1 1_555 A DC 8 8_665 -0.244 -0.062 -0.187 -17.656 -9.728 -1.263 1 A_DG1:DC8_A A 1 ? A 8 ? 19 1 1 A 2ST 2 1_555 A DA 7 8_665 -0.060 -0.103 0.099 -8.319 -11.841 1.492 2 A_2ST2:DA7_A A 2 ? A 7 ? 20 1 1 A DG 3 1_555 A DC 6 8_665 -0.191 -0.130 0.209 -5.605 -14.191 1.655 3 A_DG3:DC6_A A 3 ? A 6 ? 19 1 1 A DT 4 1_555 A DA 5 8_665 -0.109 -0.107 0.272 -3.940 -11.596 -5.069 4 A_DT4:DA5_A A 4 ? A 5 ? 20 1 1 A DA 5 1_555 A DT 4 8_665 0.109 -0.107 0.272 3.940 -11.596 -5.069 5 A_DA5:DT4_A A 5 ? A 4 ? 20 1 1 A DC 6 1_555 A DG 3 8_665 0.191 -0.130 0.209 5.605 -14.191 1.655 6 A_DC6:DG3_A A 6 ? A 3 ? 19 1 1 A DA 7 1_555 A 2ST 2 8_665 0.060 -0.103 0.099 8.319 -11.841 1.492 7 A_DA7:2ST2_A A 7 ? A 2 ? 20 1 1 A DC 8 1_555 A DG 1 8_665 0.244 -0.062 -0.187 17.656 -9.728 -1.263 8 A_DC8:DG1_A A 8 ? A 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 DG 1 1_555 A DC 8 8_665 A 2ST 2 1_555 A DA 7 8_665 0.304 -1.005 3.181 -0.247 11.919 30.236 -3.720 -0.583 2.606 21.813 0.452 32.451 1 AA_DG12ST2:DA7DC8_AA A 1 ? A 8 ? A 2 ? A 7 ? 1 A 2ST 2 1_555 A DA 7 8_665 A DG 3 1_555 A DC 6 8_665 0.722 -1.433 3.071 0.774 12.826 29.396 -4.576 -1.189 2.280 23.888 -1.442 32.025 2 AA_2ST2DG3:DC6DA7_AA A 2 ? A 7 ? A 3 ? A 6 ? 1 A DG 3 1_555 A DC 6 8_665 A DT 4 1_555 A DA 5 8_665 -0.423 -1.511 3.211 0.425 1.895 35.463 -2.746 0.754 3.123 3.108 -0.696 35.514 3 AA_DG3DT4:DA5DC6_AA A 3 ? A 6 ? A 4 ? A 5 ? 1 A DT 4 1_555 A DA 5 8_665 A DA 5 1_555 A DT 4 8_665 0.000 -1.457 2.966 0.000 6.419 30.140 -3.823 0.000 2.608 12.171 0.000 30.801 4 AA_DT4DA5:DT4DA5_AA A 4 ? A 5 ? A 5 ? A 4 ? 1 A DA 5 1_555 A DT 4 8_665 A DC 6 1_555 A DG 3 8_665 0.423 -1.511 3.211 -0.425 1.895 35.463 -2.746 -0.754 3.123 3.108 0.696 35.514 5 AA_DA5DC6:DG3DT4_AA A 5 ? A 4 ? A 6 ? A 3 ? 1 A DC 6 1_555 A DG 3 8_665 A DA 7 1_555 A 2ST 2 8_665 -0.722 -1.433 3.071 -0.774 12.826 29.396 -4.576 1.189 2.280 23.888 1.442 32.025 6 AA_DC6DA7:2ST2DG3_AA A 6 ? A 3 ? A 7 ? A 2 ? 1 A DA 7 1_555 A 2ST 2 8_665 A DC 8 1_555 A DG 1 8_665 -0.304 -1.005 3.181 0.247 11.919 30.236 -3.720 0.583 2.606 21.813 -0.452 32.451 7 AA_DA7DC8:DG12ST2_AA A 7 ? A 2 ? A 8 ? A 1 ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id 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 1Z7I _pdbx_initial_refinement_model.details 'pdb entry 1Z7I' #