data_1VTT # _entry.id 1VTT # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.383 _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 1VTT pdb_00001vtt 10.2210/pdb1vtt/pdb NDB ZDF013 ? ? RCSB RCSB003050 ? ? WWPDB D_1000003050 ? ? # 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 2011-07-13 2 'Structure model' 1 1 2023-12-27 # _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' 'Data collection' 2 2 'Structure model' 'Database references' # 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 2 'Structure model' chem_comp_atom 2 2 'Structure model' chem_comp_bond 3 2 'Structure model' database_2 # 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 2 'Structure model' '_database_2.pdbx_DOI' 2 2 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1VTT _pdbx_database_status.recvd_initial_deposition_date 1988-08-18 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Ho, P.S.' 1 'Frederick, C.A.' 2 'Quigley, G.J.' 3 'Van Der Marel, G.A.' 4 'Van Boom, J.H.' 5 'Wang, A.H.-J.' 6 'Rich, A.' 7 # _citation.id primary _citation.title 'GT Wobble Base-Pairing in Z-DNA at 1.0 Angstrom Atomic Resolution: The Crystal Structure of d(CGCGTG)' _citation.journal_abbrev 'Embo J.' _citation.journal_volume 4 _citation.page_first 3617 _citation.page_last 3623 _citation.year 1985 _citation.journal_id_ASTM EMJODG _citation.country UK _citation.journal_id_ISSN 0261-4189 _citation.journal_id_CSD 0897 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 4092690 _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ho, P.S.' 1 ? primary 'Frederick, C.A.' 2 ? primary 'Quigley, G.J.' 3 ? primary 'Van Der Marel, G.A.' 4 ? primary 'Van Boom, J.H.' 5 ? primary 'Wang, A.H.-J.' 6 ? primary 'Rich, A.' 7 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;DNA (5'-D(*CP*GP*CP*GP*TP*G)-3') ; _entity.formula_weight 1825.216 _entity.pdbx_number_of_molecules 2 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(DG)(DT)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGTG _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 DT n 1 6 DG n # 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 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 # 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 C A . n A 1 2 DG 2 2 2 DG G A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 DT 5 5 5 DT T A . n A 1 6 DG 6 6 6 DG G A . n B 1 1 DC 1 1 1 DC C B . n B 1 2 DG 2 2 2 DG G B . n B 1 3 DC 3 3 3 DC C B . n B 1 4 DG 4 4 4 DG G B . n B 1 5 DT 5 5 5 DT T B . n B 1 6 DG 6 6 6 DG G B . n # _cell.entry_id 1VTT _cell.length_a 17.450 _cell.length_b 31.630 _cell.length_c 45.560 _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 1VTT _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 ? # _exptl.entry_id 1VTT _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 28.58 _exptl_crystal.density_Matthews 1.72 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details 'ROOM TEMPERATURE' _exptl_crystal_grow.pH 7.00 _exptl_crystal_grow.pdbx_details 'pH 7.00, VAPOR DIFFUSION' _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 WATER 1 2 3 1 2 1 MPD 4 5 6 1 3 1 'NA CACODYLATE' 7 8 9 1 4 1 MGCL2 10 11 12 1 5 2 WATER 13 14 15 1 6 2 MPD 16 17 18 # _diffrn.id 1 _diffrn.ambient_temp 288.00 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector DIFFRACTOMETER _diffrn_detector.type 'NICOLET P3' _diffrn_detector.pdbx_collection_date ? _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 ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source ? _diffrn_source.type ? _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1VTT _reflns.observed_criterion_sigma_I 1.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low ? _reflns.d_resolution_high ? _reflns.number_obs 10964 _reflns.number_all ? _reflns.percent_possible_obs 79.000 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? # _refine.entry_id 1VTT _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low ? _refine.ls_d_res_high 1.000 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.1950000 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _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_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_phase_error ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _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_ESU_R ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 242 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 242 _refine_hist.d_res_high 1.000 _refine_hist.d_res_low . # _database_PDB_matrix.entry_id 1VTT _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 # _struct.entry_id 1VTT _struct.title 'GT Wobble Base-Pairing in Z-DNA at 1.0 Angstrom Atomic Resolution: The Crystal Structure of d(CGCGTG)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1VTT _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Z-DNA, DOUBLE HELIX, MISMATCHED, 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 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 1VTT _struct_ref.pdbx_db_accession 1VTT _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code CGCGTG _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 1VTT A 1 ? 6 ? 1VTT 1 ? 6 ? 1 6 2 1 1VTT B 1 ? 6 ? 1VTT 1 ? 6 ? 1 6 # _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 # 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)' 640 ? 1 MORE -7 ? 1 'SSA (A^2)' 2340 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _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 # _struct_biol.id 1 _struct_biol.pdbx_parent_biol_id ? _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 6 N1 ? ? A DC 1 B DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 6 O6 ? ? A DC 1 B DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 6 N2 ? ? A DC 1 B DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DT 5 O2 ? ? A DG 2 B DT 5 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog5 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DT 5 N3 ? ? A DG 2 B DT 5 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog6 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 3 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 3 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 3 B DG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 4 B DC 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 4 B DC 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 4 B DC 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DT 5 N3 ? ? ? 1_555 B DG 2 O6 ? ? A DT 5 B DG 2 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog13 hydrog ? ? A DT 5 O2 ? ? ? 1_555 B DG 2 N1 ? ? A DT 5 B DG 2 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog14 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 6 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 6 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 6 B DC 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "C5'" A DC 1 ? ? "C4'" A DC 1 ? ? 1.607 1.512 0.095 0.007 N 2 1 "C4'" A DC 1 ? ? "C3'" A DC 1 ? ? 1.620 1.529 0.091 0.010 N 3 1 "C2'" A DC 1 ? ? "C1'" A DC 1 ? ? 1.621 1.519 0.102 0.010 N 4 1 N1 A DC 1 ? ? C2 A DC 1 ? ? 1.478 1.397 0.081 0.010 N 5 1 N1 A DC 1 ? ? C6 A DC 1 ? ? 1.328 1.367 -0.039 0.006 N 6 1 C4 A DC 1 ? ? C5 A DC 1 ? ? 1.490 1.425 0.065 0.008 N 7 1 P A DG 2 ? ? OP2 A DG 2 ? ? 1.365 1.485 -0.120 0.017 N 8 1 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? 1.635 1.529 0.106 0.010 N 9 1 "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 1.465 1.516 -0.051 0.008 N 10 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? 1.504 1.420 0.084 0.011 N 11 1 "O4'" A DG 2 ? ? "C4'" A DG 2 ? ? 1.352 1.446 -0.094 0.010 N 12 1 N1 A DG 2 ? ? C2 A DG 2 ? ? 1.315 1.373 -0.058 0.008 N 13 1 C2 A DG 2 ? ? N3 A DG 2 ? ? 1.383 1.323 0.060 0.008 N 14 1 C6 A DG 2 ? ? N1 A DG 2 ? ? 1.279 1.391 -0.112 0.007 N 15 1 N7 A DG 2 ? ? C8 A DG 2 ? ? 1.351 1.305 0.046 0.006 N 16 1 C8 A DG 2 ? ? N9 A DG 2 ? ? 1.321 1.374 -0.053 0.007 N 17 1 N9 A DG 2 ? ? C4 A DG 2 ? ? 1.457 1.375 0.082 0.008 N 18 1 C2 A DG 2 ? ? N2 A DG 2 ? ? 1.223 1.341 -0.118 0.010 N 19 1 "C5'" A DC 3 ? ? "C4'" A DC 3 ? ? 1.560 1.512 0.048 0.007 N 20 1 "C2'" A DC 3 ? ? "C1'" A DC 3 ? ? 1.694 1.519 0.175 0.010 N 21 1 N3 A DC 3 ? ? C4 A DC 3 ? ? 1.428 1.335 0.093 0.007 N 22 1 "C5'" A DG 4 ? ? "C4'" A DG 4 ? ? 1.413 1.509 -0.096 0.011 N 23 1 "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? 1.654 1.529 0.125 0.010 N 24 1 "C3'" A DG 4 ? ? "C2'" A DG 4 ? ? 1.433 1.516 -0.083 0.008 N 25 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? 1.494 1.420 0.074 0.011 N 26 1 N7 A DG 4 ? ? C8 A DG 4 ? ? 1.375 1.305 0.070 0.006 N 27 1 P A DT 5 ? ? OP2 A DT 5 ? ? 1.379 1.485 -0.106 0.017 N 28 1 "C4'" A DT 5 ? ? "C3'" A DT 5 ? ? 1.612 1.529 0.083 0.010 N 29 1 "C2'" A DT 5 ? ? "C1'" A DT 5 ? ? 1.619 1.519 0.100 0.010 N 30 1 C2 A DT 5 ? ? N3 A DT 5 ? ? 1.421 1.373 0.048 0.008 N 31 1 "C3'" A DG 6 ? ? "C2'" A DG 6 ? ? 1.435 1.516 -0.081 0.008 N 32 1 "O3'" A DG 6 ? ? "C3'" A DG 6 ? ? 1.521 1.435 0.086 0.013 N 33 1 C2 A DG 6 ? ? N2 A DG 6 ? ? 1.274 1.341 -0.067 0.010 N 34 1 "C5'" B DC 1 ? ? "C4'" B DC 1 ? ? 1.565 1.512 0.053 0.007 N 35 1 "C4'" B DC 1 ? ? "C3'" B DC 1 ? ? 1.618 1.529 0.089 0.010 N 36 1 N1 B DC 1 ? ? C6 B DC 1 ? ? 1.408 1.367 0.041 0.006 N 37 1 N3 B DC 1 ? ? C4 B DC 1 ? ? 1.399 1.335 0.064 0.007 N 38 1 "C5'" B DG 2 ? ? "C4'" B DG 2 ? ? 1.438 1.509 -0.071 0.011 N 39 1 "C4'" B DG 2 ? ? "C3'" B DG 2 ? ? 1.618 1.529 0.089 0.010 N 40 1 N3 B DG 2 ? ? C4 B DG 2 ? ? 1.400 1.350 0.050 0.007 N 41 1 C4 B DG 2 ? ? C5 B DG 2 ? ? 1.334 1.379 -0.045 0.007 N 42 1 C6 B DG 2 ? ? N1 B DG 2 ? ? 1.339 1.391 -0.052 0.007 N 43 1 "O3'" B DG 2 ? ? P B DC 3 ? ? 1.517 1.607 -0.090 0.012 Y 44 1 "C5'" B DC 3 ? ? "C4'" B DC 3 ? ? 1.557 1.512 0.045 0.007 N 45 1 "C4'" B DC 3 ? ? "C3'" B DC 3 ? ? 1.589 1.529 0.060 0.010 N 46 1 "C2'" B DC 3 ? ? "C1'" B DC 3 ? ? 1.581 1.519 0.062 0.010 N 47 1 N1 B DC 3 ? ? C6 B DC 3 ? ? 1.406 1.367 0.039 0.006 N 48 1 C2 B DC 3 ? ? N3 B DC 3 ? ? 1.430 1.353 0.077 0.008 N 49 1 N3 B DC 3 ? ? C4 B DC 3 ? ? 1.387 1.335 0.052 0.007 N 50 1 P B DG 4 ? ? OP1 B DG 4 ? ? 1.338 1.485 -0.147 0.017 N 51 1 "C4'" B DG 4 ? ? "C3'" B DG 4 ? ? 1.611 1.529 0.082 0.010 N 52 1 "C3'" B DG 4 ? ? "C2'" B DG 4 ? ? 1.436 1.516 -0.080 0.008 N 53 1 "O4'" B DG 4 ? ? "C1'" B DG 4 ? ? 1.502 1.420 0.082 0.011 N 54 1 C6 B DG 4 ? ? N1 B DG 4 ? ? 1.336 1.391 -0.055 0.007 N 55 1 C5 B DG 4 ? ? N7 B DG 4 ? ? 1.346 1.388 -0.042 0.006 N 56 1 C8 B DG 4 ? ? N9 B DG 4 ? ? 1.327 1.374 -0.047 0.007 N 57 1 C2 B DG 4 ? ? N2 B DG 4 ? ? 1.267 1.341 -0.074 0.010 N 58 1 P B DT 5 ? ? "O5'" B DT 5 ? ? 1.523 1.593 -0.070 0.010 N 59 1 "C4'" B DT 5 ? ? "C3'" B DT 5 ? ? 1.625 1.529 0.096 0.010 N 60 1 "C2'" B DT 5 ? ? "C1'" B DT 5 ? ? 1.635 1.519 0.116 0.010 N 61 1 "O4'" B DT 5 ? ? "C4'" B DT 5 ? ? 1.527 1.449 0.078 0.009 N 62 1 "O3'" B DT 5 ? ? "C3'" B DT 5 ? ? 1.536 1.435 0.101 0.013 N 63 1 N1 B DT 5 ? ? C2 B DT 5 ? ? 1.443 1.376 0.067 0.008 N 64 1 P B DG 6 ? ? OP1 B DG 6 ? ? 1.377 1.485 -0.108 0.017 N 65 1 P B DG 6 ? ? "O5'" B DG 6 ? ? 1.657 1.593 0.064 0.010 N 66 1 "C4'" B DG 6 ? ? "C3'" B DG 6 ? ? 1.639 1.529 0.110 0.010 N 67 1 "C3'" B DG 6 ? ? "C2'" B DG 6 ? ? 1.452 1.516 -0.064 0.008 N 68 1 "O3'" B DG 6 ? ? "C3'" B DG 6 ? ? 1.516 1.435 0.081 0.013 N 69 1 N1 B DG 6 ? ? C2 B DG 6 ? ? 1.301 1.373 -0.072 0.008 N 70 1 C2 B DG 6 ? ? N3 B DG 6 ? ? 1.395 1.323 0.072 0.008 N 71 1 C6 B DG 6 ? ? N1 B DG 6 ? ? 1.325 1.391 -0.066 0.007 N 72 1 C8 B DG 6 ? ? N9 B DG 6 ? ? 1.328 1.374 -0.046 0.007 N 73 1 N9 B DG 6 ? ? C4 B DG 6 ? ? 1.470 1.375 0.095 0.008 N 74 1 C2 B DG 6 ? ? N2 B DG 6 ? ? 1.223 1.341 -0.118 0.010 N # 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 "C3'" A DC 1 ? ? "C2'" A DC 1 ? ? "C1'" A DC 1 ? ? 97.34 102.40 -5.06 0.80 N 2 1 N1 A DC 1 ? ? C2 A DC 1 ? ? N3 A DC 1 ? ? 114.89 119.20 -4.31 0.70 N 3 1 C2 A DC 1 ? ? N3 A DC 1 ? ? C4 A DC 1 ? ? 126.82 119.90 6.92 0.50 N 4 1 N3 A DC 1 ? ? C4 A DC 1 ? ? C5 A DC 1 ? ? 116.81 121.90 -5.09 0.40 N 5 1 C5 A DC 1 ? ? C6 A DC 1 ? ? N1 A DC 1 ? ? 125.10 121.00 4.10 0.50 N 6 1 N3 A DC 1 ? ? C2 A DC 1 ? ? O2 A DC 1 ? ? 127.37 121.90 5.47 0.70 N 7 1 N3 A DC 1 ? ? C4 A DC 1 ? ? N4 A DC 1 ? ? 124.02 118.00 6.02 0.70 N 8 1 "C3'" A DC 1 ? ? "O3'" A DC 1 ? ? P A DG 2 ? ? 127.26 119.70 7.56 1.20 Y 9 1 "O4'" A DG 2 ? ? "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? 101.33 104.50 -3.17 0.40 N 10 1 "C4'" A DG 2 ? ? "C3'" A DG 2 ? ? "C2'" A DG 2 ? ? 110.54 103.10 7.44 0.90 N 11 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? "C2'" A DG 2 ? ? 111.70 106.80 4.90 0.50 N 12 1 N1 A DG 2 ? ? C2 A DG 2 ? ? N3 A DG 2 ? ? 120.03 123.90 -3.87 0.60 N 13 1 C4 A DG 2 ? ? C5 A DG 2 ? ? C6 A DG 2 ? ? 114.17 118.80 -4.63 0.60 N 14 1 C5 A DG 2 ? ? C6 A DG 2 ? ? N1 A DG 2 ? ? 115.73 111.50 4.23 0.50 N 15 1 N1 A DG 2 ? ? C2 A DG 2 ? ? N2 A DG 2 ? ? 127.99 116.20 11.79 0.90 N 16 1 N3 A DG 2 ? ? C2 A DG 2 ? ? N2 A DG 2 ? ? 111.90 119.90 -8.00 0.70 N 17 1 N1 A DG 2 ? ? C6 A DG 2 ? ? O6 A DG 2 ? ? 124.90 119.90 5.00 0.60 N 18 1 C5 A DG 2 ? ? C6 A DG 2 ? ? O6 A DG 2 ? ? 119.00 128.60 -9.60 0.60 N 19 1 "C3'" A DG 2 ? ? "O3'" A DG 2 ? ? P A DC 3 ? ? 127.45 119.70 7.75 1.20 Y 20 1 "C3'" A DC 3 ? ? "C2'" A DC 3 ? ? "C1'" A DC 3 ? ? 94.12 102.40 -8.28 0.80 N 21 1 N3 A DC 3 ? ? C4 A DC 3 ? ? C5 A DC 3 ? ? 118.58 121.90 -3.32 0.40 N 22 1 C5 A DC 3 ? ? C4 A DC 3 ? ? N4 A DC 3 ? ? 124.98 120.20 4.78 0.70 N 23 1 "C3'" A DC 3 ? ? "O3'" A DC 3 ? ? P A DG 4 ? ? 128.90 119.70 9.20 1.20 Y 24 1 "O4'" A DG 4 ? ? "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? 98.68 104.50 -5.82 0.40 N 25 1 "C4'" A DG 4 ? ? "C3'" A DG 4 ? ? "C2'" A DG 4 ? ? 109.35 103.10 6.25 0.90 N 26 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? "C2'" A DG 4 ? ? 112.48 106.80 5.68 0.50 N 27 1 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? N9 A DG 4 ? ? 102.84 108.00 -5.16 0.70 N 28 1 C6 A DG 4 ? ? N1 A DG 4 ? ? C2 A DG 4 ? ? 119.53 125.10 -5.57 0.60 N 29 1 C5 A DG 4 ? ? C6 A DG 4 ? ? N1 A DG 4 ? ? 117.13 111.50 5.63 0.50 N 30 1 C4 A DG 4 ? ? C5 A DG 4 ? ? N7 A DG 4 ? ? 114.02 110.80 3.22 0.40 N 31 1 C5 A DG 4 ? ? N7 A DG 4 ? ? C8 A DG 4 ? ? 100.99 104.30 -3.31 0.50 N 32 1 C5 A DG 4 ? ? C6 A DG 4 ? ? O6 A DG 4 ? ? 124.03 128.60 -4.57 0.60 N 33 1 "C3'" A DT 5 ? ? "C2'" A DT 5 ? ? "C1'" A DT 5 ? ? 96.62 102.40 -5.78 0.80 N 34 1 C2 A DT 5 ? ? N3 A DT 5 ? ? C4 A DT 5 ? ? 123.39 127.20 -3.81 0.60 N 35 1 N3 A DT 5 ? ? C4 A DT 5 ? ? C5 A DT 5 ? ? 118.85 115.20 3.65 0.60 N 36 1 N3 A DT 5 ? ? C4 A DT 5 ? ? O4 A DT 5 ? ? 115.56 119.90 -4.34 0.60 N 37 1 C2 A DG 6 ? ? N3 A DG 6 ? ? C4 A DG 6 ? ? 116.95 111.90 5.05 0.50 N 38 1 N1 A DG 6 ? ? C6 A DG 6 ? ? O6 A DG 6 ? ? 124.20 119.90 4.30 0.60 N 39 1 C5 A DG 6 ? ? C6 A DG 6 ? ? O6 A DG 6 ? ? 121.26 128.60 -7.34 0.60 N 40 1 "O5'" B DC 1 ? ? "C5'" B DC 1 ? ? "C4'" B DC 1 ? ? 103.94 109.40 -5.46 0.80 N 41 1 "O4'" B DC 1 ? ? "C1'" B DC 1 ? ? "C2'" B DC 1 ? ? 112.03 106.80 5.23 0.50 N 42 1 C2 B DC 1 ? ? N3 B DC 1 ? ? C4 B DC 1 ? ? 124.75 119.90 4.85 0.50 N 43 1 N3 B DC 1 ? ? C4 B DC 1 ? ? C5 B DC 1 ? ? 118.00 121.90 -3.90 0.40 N 44 1 C5 B DC 1 ? ? C6 B DC 1 ? ? N1 B DC 1 ? ? 125.64 121.00 4.64 0.50 N 45 1 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? "C2'" B DG 2 ? ? 109.81 106.80 3.01 0.50 N 46 1 N3 B DG 2 ? ? C4 B DG 2 ? ? C5 B DG 2 ? ? 124.61 128.60 -3.99 0.50 N 47 1 C5 B DG 2 ? ? C6 B DG 2 ? ? N1 B DG 2 ? ? 115.55 111.50 4.05 0.50 N 48 1 N9 B DG 2 ? ? C4 B DG 2 ? ? C5 B DG 2 ? ? 109.98 105.40 4.58 0.40 N 49 1 N3 B DC 3 ? ? C4 B DC 3 ? ? C5 B DC 3 ? ? 124.44 121.90 2.54 0.40 N 50 1 N1 B DC 3 ? ? C2 B DC 3 ? ? O2 B DC 3 ? ? 123.94 118.90 5.04 0.60 N 51 1 N3 B DC 3 ? ? C4 B DC 3 ? ? N4 B DC 3 ? ? 113.20 118.00 -4.80 0.70 N 52 1 "C5'" B DG 4 ? ? "C4'" B DG 4 ? ? "O4'" B DG 4 ? ? 117.63 109.80 7.83 1.10 N 53 1 N1 B DG 4 ? ? C2 B DG 4 ? ? N3 B DG 4 ? ? 119.38 123.90 -4.52 0.60 N 54 1 C2 B DG 4 ? ? N3 B DG 4 ? ? C4 B DG 4 ? ? 119.21 111.90 7.31 0.50 N 55 1 N3 B DG 4 ? ? C4 B DG 4 ? ? C5 B DG 4 ? ? 125.10 128.60 -3.50 0.50 N 56 1 C4 B DG 4 ? ? C5 B DG 4 ? ? C6 B DG 4 ? ? 114.70 118.80 -4.10 0.60 N 57 1 C5 B DG 4 ? ? C6 B DG 4 ? ? N1 B DG 4 ? ? 117.92 111.50 6.42 0.50 N 58 1 N9 B DG 4 ? ? C4 B DG 4 ? ? C5 B DG 4 ? ? 102.94 105.40 -2.46 0.40 N 59 1 N3 B DG 4 ? ? C4 B DG 4 ? ? N9 B DG 4 ? ? 131.96 126.00 5.96 0.60 N 60 1 C5 B DG 4 ? ? C6 B DG 4 ? ? O6 B DG 4 ? ? 119.52 128.60 -9.08 0.60 N 61 1 "O4'" B DT 5 ? ? "C4'" B DT 5 ? ? "C3'" B DT 5 ? ? 100.82 104.50 -3.68 0.40 N 62 1 "C3'" B DT 5 ? ? "C2'" B DT 5 ? ? "C1'" B DT 5 ? ? 97.50 102.40 -4.90 0.80 N 63 1 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? "C2'" B DG 6 ? ? 115.71 106.80 8.91 0.50 N 64 1 C6 B DG 6 ? ? N1 B DG 6 ? ? C2 B DG 6 ? ? 130.43 125.10 5.33 0.60 N 65 1 N1 B DG 6 ? ? C2 B DG 6 ? ? N3 B DG 6 ? ? 120.10 123.90 -3.80 0.60 N 66 1 C4 B DG 6 ? ? C5 B DG 6 ? ? N7 B DG 6 ? ? 114.49 110.80 3.69 0.40 N 67 1 C5 B DG 6 ? ? N7 B DG 6 ? ? C8 B DG 6 ? ? 100.94 104.30 -3.36 0.50 N 68 1 N7 B DG 6 ? ? C8 B DG 6 ? ? N9 B DG 6 ? ? 118.18 113.10 5.08 0.50 N 69 1 C8 B DG 6 ? ? N9 B DG 6 ? ? C4 B DG 6 ? ? 103.05 106.40 -3.35 0.40 N 70 1 N1 B DG 6 ? ? C2 B DG 6 ? ? N2 B DG 6 ? ? 125.94 116.20 9.74 0.90 N 71 1 N3 B DG 6 ? ? C2 B DG 6 ? ? N2 B DG 6 ? ? 113.78 119.90 -6.12 0.70 N 72 1 N1 B DG 6 ? ? C6 B DG 6 ? ? O6 B DG 6 ? ? 124.81 119.90 4.91 0.60 N 73 1 C5 B DG 6 ? ? C6 B DG 6 ? ? O6 B DG 6 ? ? 123.20 128.60 -5.40 0.60 N # 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 DC OP3 O N N 1 DC P P N N 2 DC OP1 O N N 3 DC OP2 O N N 4 DC "O5'" O N N 5 DC "C5'" C N N 6 DC "C4'" C N R 7 DC "O4'" O N N 8 DC "C3'" C N S 9 DC "O3'" O N N 10 DC "C2'" C N N 11 DC "C1'" C N R 12 DC N1 N N N 13 DC C2 C N N 14 DC O2 O N N 15 DC N3 N N N 16 DC C4 C N N 17 DC N4 N N N 18 DC C5 C N N 19 DC C6 C N N 20 DC HOP3 H N N 21 DC HOP2 H N N 22 DC "H5'" H N N 23 DC "H5''" H N N 24 DC "H4'" H N N 25 DC "H3'" H N N 26 DC "HO3'" H N N 27 DC "H2'" H N N 28 DC "H2''" H N N 29 DC "H1'" H N N 30 DC H41 H N N 31 DC H42 H N N 32 DC H5 H N N 33 DC H6 H N N 34 DG OP3 O N N 35 DG P P N N 36 DG OP1 O N N 37 DG OP2 O N N 38 DG "O5'" O N N 39 DG "C5'" C N N 40 DG "C4'" C N R 41 DG "O4'" O N N 42 DG "C3'" C N S 43 DG "O3'" O N N 44 DG "C2'" C N N 45 DG "C1'" C N R 46 DG N9 N Y N 47 DG C8 C Y N 48 DG N7 N Y N 49 DG C5 C Y N 50 DG C6 C N N 51 DG O6 O N N 52 DG N1 N N N 53 DG C2 C N N 54 DG N2 N N N 55 DG N3 N N N 56 DG C4 C Y N 57 DG HOP3 H N N 58 DG HOP2 H N N 59 DG "H5'" H N N 60 DG "H5''" H N N 61 DG "H4'" H N N 62 DG "H3'" H N N 63 DG "HO3'" H N N 64 DG "H2'" H N N 65 DG "H2''" H N N 66 DG "H1'" H N N 67 DG H8 H N N 68 DG H1 H N N 69 DG H21 H N N 70 DG H22 H N N 71 DT OP3 O N N 72 DT P P N N 73 DT OP1 O N N 74 DT OP2 O N N 75 DT "O5'" O N N 76 DT "C5'" C N N 77 DT "C4'" C N R 78 DT "O4'" O N N 79 DT "C3'" C N S 80 DT "O3'" O N N 81 DT "C2'" C N N 82 DT "C1'" C N R 83 DT N1 N N N 84 DT C2 C N N 85 DT O2 O N N 86 DT N3 N N N 87 DT C4 C N N 88 DT O4 O N N 89 DT C5 C N N 90 DT C7 C N N 91 DT C6 C N N 92 DT HOP3 H N N 93 DT HOP2 H N N 94 DT "H5'" H N N 95 DT "H5''" H N N 96 DT "H4'" H N N 97 DT "H3'" H N N 98 DT "HO3'" H N N 99 DT "H2'" H N N 100 DT "H2''" H N N 101 DT "H1'" H N N 102 DT H3 H N N 103 DT H71 H N N 104 DT H72 H N N 105 DT H73 H N N 106 DT H6 H N N 107 # 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 DC OP3 P sing N N 1 DC OP3 HOP3 sing N N 2 DC P OP1 doub N N 3 DC P OP2 sing N N 4 DC P "O5'" sing N N 5 DC OP2 HOP2 sing N N 6 DC "O5'" "C5'" sing N N 7 DC "C5'" "C4'" sing N N 8 DC "C5'" "H5'" sing N N 9 DC "C5'" "H5''" sing N N 10 DC "C4'" "O4'" sing N N 11 DC "C4'" "C3'" sing N N 12 DC "C4'" "H4'" sing N N 13 DC "O4'" "C1'" sing N N 14 DC "C3'" "O3'" sing N N 15 DC "C3'" "C2'" sing N N 16 DC "C3'" "H3'" sing N N 17 DC "O3'" "HO3'" sing N N 18 DC "C2'" "C1'" sing N N 19 DC "C2'" "H2'" sing N N 20 DC "C2'" "H2''" sing N N 21 DC "C1'" N1 sing N N 22 DC "C1'" "H1'" sing N N 23 DC N1 C2 sing N N 24 DC N1 C6 sing N N 25 DC C2 O2 doub N N 26 DC C2 N3 sing N N 27 DC N3 C4 doub N N 28 DC C4 N4 sing N N 29 DC C4 C5 sing N N 30 DC N4 H41 sing N N 31 DC N4 H42 sing N N 32 DC C5 C6 doub N N 33 DC C5 H5 sing N N 34 DC C6 H6 sing N N 35 DG OP3 P sing N N 36 DG OP3 HOP3 sing N N 37 DG P OP1 doub N N 38 DG P OP2 sing N N 39 DG P "O5'" sing N N 40 DG OP2 HOP2 sing N N 41 DG "O5'" "C5'" sing N N 42 DG "C5'" "C4'" sing N N 43 DG "C5'" "H5'" sing N N 44 DG "C5'" "H5''" sing N N 45 DG "C4'" "O4'" sing N N 46 DG "C4'" "C3'" sing N N 47 DG "C4'" "H4'" sing N N 48 DG "O4'" "C1'" sing N N 49 DG "C3'" "O3'" sing N N 50 DG "C3'" "C2'" sing N N 51 DG "C3'" "H3'" sing N N 52 DG "O3'" "HO3'" sing N N 53 DG "C2'" "C1'" sing N N 54 DG "C2'" "H2'" sing N N 55 DG "C2'" "H2''" sing N N 56 DG "C1'" N9 sing N N 57 DG "C1'" "H1'" sing N N 58 DG N9 C8 sing Y N 59 DG N9 C4 sing Y N 60 DG C8 N7 doub Y N 61 DG C8 H8 sing N N 62 DG N7 C5 sing Y N 63 DG C5 C6 sing N N 64 DG C5 C4 doub Y N 65 DG C6 O6 doub N N 66 DG C6 N1 sing N N 67 DG N1 C2 sing N N 68 DG N1 H1 sing N N 69 DG C2 N2 sing N N 70 DG C2 N3 doub N N 71 DG N2 H21 sing N N 72 DG N2 H22 sing N N 73 DG N3 C4 sing N N 74 DT OP3 P sing N N 75 DT OP3 HOP3 sing N N 76 DT P OP1 doub N N 77 DT P OP2 sing N N 78 DT P "O5'" sing N N 79 DT OP2 HOP2 sing N N 80 DT "O5'" "C5'" sing N N 81 DT "C5'" "C4'" sing N N 82 DT "C5'" "H5'" sing N N 83 DT "C5'" "H5''" sing N N 84 DT "C4'" "O4'" sing N N 85 DT "C4'" "C3'" sing N N 86 DT "C4'" "H4'" sing N N 87 DT "O4'" "C1'" sing N N 88 DT "C3'" "O3'" sing N N 89 DT "C3'" "C2'" sing N N 90 DT "C3'" "H3'" sing N N 91 DT "O3'" "HO3'" sing N N 92 DT "C2'" "C1'" sing N N 93 DT "C2'" "H2'" sing N N 94 DT "C2'" "H2''" sing N N 95 DT "C1'" N1 sing N N 96 DT "C1'" "H1'" sing N N 97 DT N1 C2 sing N N 98 DT N1 C6 sing N N 99 DT C2 O2 doub N N 100 DT C2 N3 sing N N 101 DT N3 C4 sing N N 102 DT N3 H3 sing N N 103 DT C4 O4 doub N N 104 DT C4 C5 sing N N 105 DT C5 C7 sing N N 106 DT C5 C6 doub N N 107 DT C7 H71 sing N N 108 DT C7 H72 sing N N 109 DT C7 H73 sing N N 110 DT C6 H6 sing N N 111 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1VTT 'z-form double helix' 1VTT '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 6 1_555 -0.263 -0.201 0.087 6.163 1.418 0.730 1 A_DC1:DG6_B A 1 ? B 6 ? 19 1 1 A DG 2 1_555 B DT 5 1_555 2.242 -0.527 0.119 -6.685 2.999 5.804 2 A_DG2:DT5_B A 2 ? B 5 ? 28 1 1 A DC 3 1_555 B DG 4 1_555 -0.294 -0.087 0.025 2.832 -1.499 1.747 3 A_DC3:DG4_B A 3 ? B 4 ? 19 1 1 A DG 4 1_555 B DC 3 1_555 0.216 -0.043 -0.010 -7.027 1.655 1.838 4 A_DG4:DC3_B A 4 ? B 3 ? 19 1 1 A DT 5 1_555 B DG 2 1_555 -2.297 -0.527 0.099 3.922 7.336 2.907 5 A_DT5:DG2_B A 5 ? B 2 ? 28 1 1 A DG 6 1_555 B DC 1 1_555 0.257 -0.114 0.195 -6.762 -4.053 0.969 6 A_DG6:DC1_B A 6 ? 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 6 1_555 A DG 2 1_555 B DT 5 1_555 0.079 5.060 3.782 2.296 0.423 -0.057 -136.650 69.767 -0.901 -16.044 87.135 -2.335 1 AA_DC1DG2:DT5DG6_BB A 1 ? B 6 ? A 2 ? B 5 ? 1 A DG 2 1_555 B DT 5 1_555 A DC 3 1_555 B DG 4 1_555 0.017 -0.410 3.269 -1.924 -8.875 -57.177 0.895 -0.084 3.178 9.209 -1.996 -57.833 2 AA_DG2DC3:DG4DT5_BB A 2 ? B 5 ? A 3 ? B 4 ? 1 A DC 3 1_555 B DG 4 1_555 A DG 4 1_555 B DC 3 1_555 -0.036 5.400 3.758 0.823 -4.538 -8.185 -17.801 2.528 5.884 28.963 5.249 -9.393 3 AA_DC3DG4:DC3DG4_BB A 3 ? B 4 ? A 4 ? B 3 ? 1 A DG 4 1_555 B DC 3 1_555 A DT 5 1_555 B DG 2 1_555 -0.039 -0.291 3.252 2.140 -5.600 -59.315 0.571 0.067 3.215 5.643 2.157 -59.590 4 AA_DG4DT5:DG2DC3_BB A 4 ? B 3 ? A 5 ? B 2 ? 1 A DT 5 1_555 B DG 2 1_555 A DG 6 1_555 B DC 1 1_555 -0.103 5.038 3.785 -5.999 -0.625 0.127 51.197 -30.905 -0.339 -9.196 88.322 6.032 5 AA_DT5DG6:DC1DG2_BB A 5 ? B 2 ? A 6 ? B 1 ? # _atom_sites.entry_id 1VTT _atom_sites.fract_transf_matrix[1][1] 0.057307 _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] 0.031616 _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] 0.021949 _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 # loop_