data_1G6D # _entry.id 1G6D # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.385 _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 1G6D pdb_00001g6d 10.2210/pdb1g6d/pdb NDB UD0012 ? ? RCSB RCSB012289 ? ? WWPDB D_1000012289 ? ? # 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 2002-04-19 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2011-11-16 5 'Structure model' 1 4 2024-02-07 # _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' 'Atomic model' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' # 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 5 'Structure model' chem_comp_atom 2 5 'Structure model' chem_comp_bond 3 5 'Structure model' database_2 4 5 'Structure model' diffrn_source 5 5 'Structure model' pdbx_struct_conn_angle 6 5 'Structure model' struct_conn 7 5 '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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' 3 5 'Structure model' '_diffrn_source.pdbx_synchrotron_site' 4 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 5 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 15 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 16 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 17 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 18 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 19 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 20 5 'Structure model' '_pdbx_struct_conn_angle.value' 21 5 'Structure model' '_struct_conn.pdbx_dist_value' 22 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 23 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 24 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 25 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 26 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 27 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 28 5 'Structure model' '_struct_conn.ptnr1_symmetry' 29 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 30 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 31 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 32 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 33 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 34 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 35 5 'Structure model' '_struct_conn.ptnr2_symmetry' 36 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 37 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 38 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1G6D _pdbx_database_status.recvd_initial_deposition_date 2000-11-04 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _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 'Soler-Lopez, M.' 1 'Malinina, L.' 2 'Tereshko, V.' 3 'Zarytova, V.' 4 'Subirana, J.A.' 5 # _citation.id primary _citation.title 'Interaction of zinc ions with d(CGCAATTGCG) in a 2.9 A resolution X-ray structure.' _citation.journal_abbrev J.Biol.Inorg.Chem. _citation.journal_volume 7 _citation.page_first 533 _citation.page_last 538 _citation.year 2002 _citation.journal_id_ASTM JJBCFA _citation.country GW _citation.journal_id_ISSN 0949-8257 _citation.journal_id_CSD 2154 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 11941511 _citation.pdbx_database_id_DOI 10.1007/s00775-001-0333-z # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Soler-Lopez, M.' 1 ? primary 'Malinina, L.' 2 ? primary 'Tereshko, V.' 3 ? primary 'Zarytova, V.' 4 ? primary 'Subirana, J.A.' 5 ? # 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 'PEPTIDYL-D(CGCAATTGCG)' 3045.005 1 ? ? ? ? 2 non-polymer syn 'ZINC ION' 65.409 3 ? ? ? ? 3 water nat water 18.015 39 ? ? ? ? # _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)(DA)(DA)(DT)(DT)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCAATTGCG _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'ZINC ION' ZN 3 water HOH # 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 DA n 1 5 DA n 1 6 DT n 1 7 DT n 1 8 DG n 1 9 DC n 1 10 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 ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'phosphotriester method in solution' # 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 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 ZN non-polymer . 'ZINC ION' ? 'Zn 2' 65.409 # 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 DA 4 4 4 DA A A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DT 6 6 6 DT T A . n A 1 7 DT 7 7 7 DT T A . n A 1 8 DG 8 8 8 DG G A . n A 1 9 DC 9 9 9 DC C A . n A 1 10 DG 10 10 10 DG G 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 ZN 1 11 11 ZN ZN A . C 2 ZN 1 12 12 ZN ZN A . D 2 ZN 1 13 13 ZN ZN A . E 3 HOH 1 14 12 HOH HOH A . E 3 HOH 2 15 13 HOH HOH A . E 3 HOH 3 16 14 HOH HOH A . E 3 HOH 4 17 15 HOH HOH A . E 3 HOH 5 18 16 HOH HOH A . E 3 HOH 6 19 17 HOH HOH A . E 3 HOH 7 20 18 HOH HOH A . E 3 HOH 8 21 19 HOH HOH A . E 3 HOH 9 22 20 HOH HOH A . E 3 HOH 10 23 21 HOH HOH A . E 3 HOH 11 24 114 HOH HOH A . E 3 HOH 12 25 115 HOH HOH A . E 3 HOH 13 26 116 HOH HOH A . E 3 HOH 14 27 117 HOH HOH A . E 3 HOH 15 28 118 HOH HOH A . E 3 HOH 16 29 119 HOH HOH A . E 3 HOH 17 30 120 HOH HOH A . E 3 HOH 18 31 121 HOH HOH A . E 3 HOH 19 32 122 HOH HOH A . E 3 HOH 20 33 123 HOH HOH A . E 3 HOH 21 34 124 HOH HOH A . E 3 HOH 22 35 125 HOH HOH A . E 3 HOH 23 36 126 HOH HOH A . E 3 HOH 24 37 127 HOH HOH A . E 3 HOH 25 38 128 HOH HOH A . E 3 HOH 26 39 129 HOH HOH A . E 3 HOH 27 40 130 HOH HOH A . E 3 HOH 28 41 131 HOH HOH A . E 3 HOH 29 42 132 HOH HOH A . E 3 HOH 30 43 133 HOH HOH A . E 3 HOH 31 44 134 HOH HOH A . E 3 HOH 32 45 135 HOH HOH A . E 3 HOH 33 46 136 HOH HOH A . E 3 HOH 34 47 137 HOH HOH A . E 3 HOH 35 48 138 HOH HOH A . E 3 HOH 36 49 139 HOH HOH A . E 3 HOH 37 50 140 HOH HOH A . E 3 HOH 38 51 141 HOH HOH A . E 3 HOH 39 52 142 HOH HOH A . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal AMoRE phasing . ? 1 X-PLOR refinement 3.843 ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 # _cell.entry_id 1G6D _cell.length_a 27.92 _cell.length_b 44.09 _cell.length_c 53.22 _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1G6D _symmetry.space_group_name_H-M 'C 2 2 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 # _exptl.entry_id 1G6D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.58 _exptl_crystal.density_percent_sol 52.34 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7 _exptl_crystal_grow.pdbx_details '0.5 mM adduct, 10mM sodium cacodylate, 0.75 mM Zn acetate, 10% MPD, VAPOR DIFFUSION, HANGING DROP, temperature 293K' _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 adduct ? ? ? 1 2 1 'sodium cacodylate' ? ? ? 1 3 1 'Zn acetate' ? ? ? 1 4 1 MPD ? ? ? 1 5 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 110 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 1998-08-06 _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 1.1 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'EMBL/DESY, HAMBURG BEAMLINE X11' _diffrn_source.pdbx_synchrotron_site 'EMBL/DESY, HAMBURG' _diffrn_source.pdbx_synchrotron_beamline X11 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.1 # _reflns.entry_id 1G6D _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F 2.0 _reflns.d_resolution_low 20 _reflns.d_resolution_high 2.9 _reflns.number_obs 830 _reflns.number_all 7251 _reflns.percent_possible_obs 94.6 _reflns.pdbx_Rmerge_I_obs 0.1100000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 10.4 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 2.664 _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 1G6D _refine.ls_number_reflns_obs 770 _refine.ls_number_reflns_all 7251 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_d_res_low 20 _refine.ls_d_res_high 2.9 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2083000 _refine.ls_R_factor_R_free 0.2134000 _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 ;The sequence of the peptidyl-DNA is CH3C0-RRRR-NH-(CH2)6-NH-p-d(CGCAATTGCG). The peptidyl segment was disordered and not visible in the electron density. ; _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _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_B ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_ML ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.correlation_coeff_Fo_to_Fc ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _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_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 206 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.number_atoms_solvent 39 _refine_hist.number_atoms_total 248 _refine_hist.d_res_high 2.9 _refine_hist.d_res_low 20 # 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 x_bond_d 0.00597 ? ? ? 'X-RAY DIFFRACTION' ? x_angle_deg 1.14044 ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 1G6D _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 1G6D _struct.title 'STRUCTURE OF PEPTIDYL-D(CGCAATTGCG) IN THE PRESENCE OF ZINC IONS' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1G6D _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'DNA, peptidyl-DNA complex, Zn ions' # 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 ? C N N 2 ? D N N 2 ? E N N 3 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1G6D _struct_ref.pdbx_db_accession 1G6D _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 1G6D _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 10 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 1G6D _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 10 _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 10 # _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,C,D,E # 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' 4_565 x,-y+1,-z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 44.0900000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? A DC 1 OP1 ? ? ? 1_555 B ZN . ZN ? ? A DC 1 A ZN 11 1_555 ? ? ? ? ? ? ? 2.188 ? ? metalc2 metalc ? ? A DC 1 OP1 ? ? ? 3_655 B ZN . ZN ? ? A DC 1 A ZN 11 1_555 ? ? ? ? ? ? ? 2.184 ? ? metalc3 metalc ? ? A DG 2 N7 ? ? ? 1_555 D ZN . ZN ? ? A DG 2 A ZN 13 1_555 ? ? ? ? ? ? ? 2.168 ? ? metalc4 metalc ? ? A DG 10 OP1 ? ? ? 6_565 B ZN . ZN ? ? A DG 10 A ZN 11 1_555 ? ? ? ? ? ? ? 2.292 ? ? metalc5 metalc ? ? A DG 10 OP1 ? ? ? 8_565 B ZN . ZN ? ? A DG 10 A ZN 11 1_555 ? ? ? ? ? ? ? 2.292 ? ? metalc6 metalc ? ? A DG 10 N7 ? ? ? 1_555 C ZN . ZN ? ? A DG 10 A ZN 12 1_555 ? ? ? ? ? ? ? 2.191 ? ? metalc7 metalc ? ? B ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 11 A HOH 25 1_555 ? ? ? ? ? ? ? 2.103 ? ? metalc8 metalc ? ? B ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 11 A HOH 25 3_655 ? ? ? ? ? ? ? 2.100 ? ? metalc9 metalc ? ? C ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 12 A HOH 14 1_555 ? ? ? ? ? ? ? 2.102 ? ? metalc10 metalc ? ? C ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 12 A HOH 15 1_555 ? ? ? ? ? ? ? 2.098 ? ? metalc11 metalc ? ? C ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 12 A HOH 16 1_555 ? ? ? ? ? ? ? 2.101 ? ? metalc12 metalc ? ? C ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 12 A HOH 17 1_555 ? ? ? ? ? ? ? 2.101 ? ? metalc13 metalc ? ? C ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 12 A HOH 18 1_555 ? ? ? ? ? ? ? 2.097 ? ? metalc14 metalc ? ? D ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 13 A HOH 19 1_555 ? ? ? ? ? ? ? 2.101 ? ? metalc15 metalc ? ? D ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 13 A HOH 20 1_555 ? ? ? ? ? ? ? 2.101 ? ? metalc16 metalc ? ? D ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 13 A HOH 21 1_555 ? ? ? ? ? ? ? 2.102 ? ? metalc17 metalc ? ? D ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 13 A HOH 22 1_555 ? ? ? ? ? ? ? 2.098 ? ? metalc18 metalc ? ? D ZN . ZN ? ? ? 1_555 E HOH . O ? ? A ZN 13 A HOH 23 1_555 ? ? ? ? ? ? ? 2.101 ? ? hydrog1 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DC 9 N3 ? ? A DG 2 A DC 9 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DC 9 O2 ? ? A DG 2 A DC 9 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DC 9 N4 ? ? A DG 2 A DC 9 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 3 N3 ? ? ? 1_555 A DG 8 N1 ? ? A DC 3 A DG 8 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 3 N4 ? ? ? 1_555 A DG 8 O6 ? ? A DC 3 A DG 8 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 3 O2 ? ? ? 1_555 A DG 8 N2 ? ? A DC 3 A DG 8 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DA 4 N1 ? ? ? 1_555 A DT 7 N3 ? ? A DA 4 A DT 7 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DA 4 N6 ? ? ? 1_555 A DT 7 O4 ? ? A DA 4 A DT 7 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DA 5 N1 ? ? ? 1_555 A DT 6 N3 ? ? A DA 5 A DT 6 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 5 N6 ? ? ? 1_555 A DT 6 O4 ? ? A DA 5 A DT 6 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DT 6 N3 ? ? ? 1_555 A DA 5 N1 ? ? A DT 6 A DA 5 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DT 6 O4 ? ? ? 1_555 A DA 5 N6 ? ? A DT 6 A DA 5 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DT 7 N3 ? ? ? 1_555 A DA 4 N1 ? ? A DT 7 A DA 4 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DT 7 O4 ? ? ? 1_555 A DA 4 N6 ? ? A DT 7 A DA 4 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 8 N1 ? ? ? 1_555 A DC 3 N3 ? ? A DG 8 A DC 3 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 8 N2 ? ? ? 1_555 A DC 3 O2 ? ? A DG 8 A DC 3 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 8 O6 ? ? ? 1_555 A DC 3 N4 ? ? A DG 8 A DC 3 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 9 N3 ? ? ? 1_555 A DG 2 N1 ? ? A DC 9 A DG 2 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 9 N4 ? ? ? 1_555 A DG 2 O6 ? ? A DC 9 A DG 2 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 9 O2 ? ? ? 1_555 A DG 2 N2 ? ? A DC 9 A DG 2 4_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # 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 OP1 ? A DC 1 ? A DC 1 ? 1_555 ZN ? B ZN . ? A ZN 11 ? 1_555 OP1 ? A DC 1 ? A DC 1 ? 3_655 121.4 ? 2 OP1 ? A DC 1 ? A DC 1 ? 1_555 ZN ? B ZN . ? A ZN 11 ? 1_555 OP1 ? A DG 10 ? A DG 10 ? 6_565 127.9 ? 3 OP1 ? A DC 1 ? A DC 1 ? 3_655 ZN ? B ZN . ? A ZN 11 ? 1_555 OP1 ? A DG 10 ? A DG 10 ? 6_565 98.3 ? 4 OP1 ? A DC 1 ? A DC 1 ? 1_555 ZN ? B ZN . ? A ZN 11 ? 1_555 OP1 ? A DG 10 ? A DG 10 ? 8_565 98.2 ? 5 OP1 ? A DC 1 ? A DC 1 ? 3_655 ZN ? B ZN . ? A ZN 11 ? 1_555 OP1 ? A DG 10 ? A DG 10 ? 8_565 128.1 ? 6 OP1 ? A DG 10 ? A DG 10 ? 6_565 ZN ? B ZN . ? A ZN 11 ? 1_555 OP1 ? A DG 10 ? A DG 10 ? 8_565 78.3 ? 7 OP1 ? A DC 1 ? A DC 1 ? 1_555 ZN ? B ZN . ? A ZN 11 ? 1_555 O ? E HOH . ? A HOH 25 ? 1_555 70.3 ? 8 OP1 ? A DC 1 ? A DC 1 ? 3_655 ZN ? B ZN . ? A ZN 11 ? 1_555 O ? E HOH . ? A HOH 25 ? 1_555 109.1 ? 9 OP1 ? A DG 10 ? A DG 10 ? 6_565 ZN ? B ZN . ? A ZN 11 ? 1_555 O ? E HOH . ? A HOH 25 ? 1_555 65.3 ? 10 OP1 ? A DG 10 ? A DG 10 ? 8_565 ZN ? B ZN . ? A ZN 11 ? 1_555 O ? E HOH . ? A HOH 25 ? 1_555 115.6 ? 11 OP1 ? A DC 1 ? A DC 1 ? 1_555 ZN ? B ZN . ? A ZN 11 ? 1_555 O ? E HOH . ? A HOH 25 ? 3_655 109.0 ? 12 OP1 ? A DC 1 ? A DC 1 ? 3_655 ZN ? B ZN . ? A ZN 11 ? 1_555 O ? E HOH . ? A HOH 25 ? 3_655 70.5 ? 13 OP1 ? A DG 10 ? A DG 10 ? 6_565 ZN ? B ZN . ? A ZN 11 ? 1_555 O ? E HOH . ? A HOH 25 ? 3_655 115.7 ? 14 OP1 ? A DG 10 ? A DG 10 ? 8_565 ZN ? B ZN . ? A ZN 11 ? 1_555 O ? E HOH . ? A HOH 25 ? 3_655 65.3 ? 15 O ? E HOH . ? A HOH 25 ? 1_555 ZN ? B ZN . ? A ZN 11 ? 1_555 O ? E HOH . ? A HOH 25 ? 3_655 178.9 ? 16 N7 ? A DG 2 ? A DG 2 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 19 ? 1_555 92.3 ? 17 N7 ? A DG 2 ? A DG 2 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 20 ? 1_555 87.8 ? 18 O ? E HOH . ? A HOH 19 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 20 ? 1_555 179.9 ? 19 N7 ? A DG 2 ? A DG 2 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 21 ? 1_555 175.8 ? 20 O ? E HOH . ? A HOH 19 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 21 ? 1_555 89.9 ? 21 O ? E HOH . ? A HOH 20 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 21 ? 1_555 90.0 ? 22 N7 ? A DG 2 ? A DG 2 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 22 ? 1_555 93.5 ? 23 O ? E HOH . ? A HOH 19 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 22 ? 1_555 90.0 ? 24 O ? E HOH . ? A HOH 20 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 22 ? 1_555 90.0 ? 25 O ? E HOH . ? A HOH 21 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 22 ? 1_555 90.0 ? 26 N7 ? A DG 2 ? A DG 2 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 23 ? 1_555 86.5 ? 27 O ? E HOH . ? A HOH 19 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 23 ? 1_555 90.0 ? 28 O ? E HOH . ? A HOH 20 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 23 ? 1_555 90.0 ? 29 O ? E HOH . ? A HOH 21 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 23 ? 1_555 89.9 ? 30 O ? E HOH . ? A HOH 22 ? 1_555 ZN ? D ZN . ? A ZN 13 ? 1_555 O ? E HOH . ? A HOH 23 ? 1_555 179.9 ? 31 N7 ? A DG 10 ? A DG 10 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 14 ? 1_555 92.1 ? 32 N7 ? A DG 10 ? A DG 10 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 15 ? 1_555 88.1 ? 33 O ? E HOH . ? A HOH 14 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 15 ? 1_555 179.8 ? 34 N7 ? A DG 10 ? A DG 10 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 16 ? 1_555 176.8 ? 35 O ? E HOH . ? A HOH 14 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 16 ? 1_555 89.8 ? 36 O ? E HOH . ? A HOH 15 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 16 ? 1_555 90.0 ? 37 N7 ? A DG 10 ? A DG 10 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 17 ? 1_555 92.6 ? 38 O ? E HOH . ? A HOH 14 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 17 ? 1_555 90.0 ? 39 O ? E HOH . ? A HOH 15 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 17 ? 1_555 89.9 ? 40 O ? E HOH . ? A HOH 16 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 17 ? 1_555 89.9 ? 41 N7 ? A DG 10 ? A DG 10 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 18 ? 1_555 87.5 ? 42 O ? E HOH . ? A HOH 14 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 18 ? 1_555 90.0 ? 43 O ? E HOH . ? A HOH 15 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 18 ? 1_555 90.1 ? 44 O ? E HOH . ? A HOH 16 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 18 ? 1_555 90.0 ? 45 O ? E HOH . ? A HOH 17 ? 1_555 ZN ? C ZN . ? A ZN 12 ? 1_555 O ? E HOH . ? A HOH 18 ? 1_555 179.9 ? # 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 ZN 11 ? 6 'BINDING SITE FOR RESIDUE ZN A 11' AC2 Software A ZN 12 ? 6 'BINDING SITE FOR RESIDUE ZN A 12' AC3 Software A ZN 13 ? 6 'BINDING SITE FOR RESIDUE ZN A 13' # 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 DC A 1 ? DC A 1 . ? 1_555 ? 2 AC1 6 DC A 1 ? DC A 1 . ? 3_655 ? 3 AC1 6 DG A 10 ? DG A 10 . ? 8_565 ? 4 AC1 6 DG A 10 ? DG A 10 . ? 6_565 ? 5 AC1 6 HOH E . ? HOH A 25 . ? 3_655 ? 6 AC1 6 HOH E . ? HOH A 25 . ? 1_555 ? 7 AC2 6 DG A 10 ? DG A 10 . ? 1_555 ? 8 AC2 6 HOH E . ? HOH A 14 . ? 1_555 ? 9 AC2 6 HOH E . ? HOH A 15 . ? 1_555 ? 10 AC2 6 HOH E . ? HOH A 16 . ? 1_555 ? 11 AC2 6 HOH E . ? HOH A 17 . ? 1_555 ? 12 AC2 6 HOH E . ? HOH A 18 . ? 1_555 ? 13 AC3 6 DG A 2 ? DG A 2 . ? 1_555 ? 14 AC3 6 HOH E . ? HOH A 19 . ? 1_555 ? 15 AC3 6 HOH E . ? HOH A 20 . ? 1_555 ? 16 AC3 6 HOH E . ? HOH A 21 . ? 1_555 ? 17 AC3 6 HOH E . ? HOH A 22 . ? 1_555 ? 18 AC3 6 HOH E . ? HOH A 23 . ? 1_555 ? # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 P _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 DC _pdbx_validate_rmsd_bond.auth_seq_id_1 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 OP3 _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 DC _pdbx_validate_rmsd_bond.auth_seq_id_2 1 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.527 _pdbx_validate_rmsd_bond.bond_target_value 1.607 _pdbx_validate_rmsd_bond.bond_deviation -0.080 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.012 _pdbx_validate_rmsd_bond.linker_flag N # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DG A 2 ? ? 0.066 'SIDE CHAIN' 2 1 DG A 10 ? ? 0.061 'SIDE CHAIN' # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A ZN 11 ? B ZN . 2 1 A HOH 27 ? E HOH . 3 1 A HOH 28 ? E HOH . # 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 DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 HOH O O N N 144 HOH H1 H N N 145 HOH H2 H N N 146 ZN ZN ZN N N 147 # 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 DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 # _ndb_struct_conf_na.entry_id 1G6D _ndb_struct_conf_na.feature 'b-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 2 1_555 A DC 9 4_565 -0.584 -0.397 0.853 0.258 -0.174 4.027 1 A_DG2:DC9_A A 2 ? A 9 ? 19 1 1 A DC 3 1_555 A DG 8 4_565 0.526 -0.506 0.075 8.014 -0.075 -0.929 2 A_DC3:DG8_A A 3 ? A 8 ? 19 1 1 A DA 4 1_555 A DT 7 4_565 -0.129 -0.158 0.246 7.898 -18.479 -0.709 3 A_DA4:DT7_A A 4 ? A 7 ? 20 1 1 A DA 5 1_555 A DT 6 4_565 0.192 -0.156 0.121 5.621 -10.335 -2.840 4 A_DA5:DT6_A A 5 ? A 6 ? 20 1 1 A DT 6 1_555 A DA 5 4_565 -0.192 -0.156 0.121 -5.621 -10.335 -2.840 5 A_DT6:DA5_A A 6 ? A 5 ? 20 1 1 A DT 7 1_555 A DA 4 4_565 0.129 -0.158 0.246 -7.898 -18.479 -0.709 6 A_DT7:DA4_A A 7 ? A 4 ? 20 1 1 A DG 8 1_555 A DC 3 4_565 -0.526 -0.506 0.075 -8.014 -0.075 -0.929 7 A_DG8:DC3_A A 8 ? A 3 ? 19 1 1 A DC 9 1_555 A DG 2 4_565 0.584 -0.397 0.853 -0.258 -0.174 4.027 8 A_DC9:DG2_A A 9 ? A 2 ? 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 2 1_555 A DC 9 4_565 A DC 3 1_555 A DG 8 4_565 0.267 0.847 3.287 7.452 2.389 39.043 0.961 0.490 3.325 3.532 -11.016 39.790 1 AA_DG2DC3:DG8DC9_AA A 2 ? A 9 ? A 3 ? A 8 ? 1 A DC 3 1_555 A DG 8 4_565 A DA 4 1_555 A DT 7 4_565 -0.550 0.373 3.232 -2.619 1.523 31.737 0.403 0.526 3.279 2.777 4.775 31.877 2 AA_DC3DA4:DT7DG8_AA A 3 ? A 8 ? A 4 ? A 7 ? 1 A DA 4 1_555 A DT 7 4_565 A DA 5 1_555 A DT 6 4_565 -0.150 -0.004 3.462 0.247 -2.786 43.273 0.282 0.228 3.455 -3.773 -0.334 43.359 3 AA_DA4DA5:DT6DT7_AA A 4 ? A 7 ? A 5 ? A 6 ? 1 A DA 5 1_555 A DT 6 4_565 A DT 6 1_555 A DA 5 4_565 0.000 -1.289 3.401 0.000 -1.907 29.635 -2.094 0.000 3.475 -3.723 0.000 29.695 4 AA_DA5DT6:DA5DT6_AA A 5 ? A 6 ? A 6 ? A 5 ? 1 A DT 6 1_555 A DA 5 4_565 A DT 7 1_555 A DA 4 4_565 0.150 -0.004 3.462 -0.247 -2.786 43.273 0.282 -0.228 3.455 -3.773 0.334 43.359 5 AA_DT6DT7:DA4DA5_AA A 6 ? A 5 ? A 7 ? A 4 ? 1 A DT 7 1_555 A DA 4 4_565 A DG 8 1_555 A DC 3 4_565 0.550 0.373 3.232 2.619 1.523 31.737 0.403 -0.526 3.279 2.777 -4.775 31.877 6 AA_DT7DG8:DC3DA4_AA A 7 ? A 4 ? A 8 ? A 3 ? 1 A DG 8 1_555 A DC 3 4_565 A DC 9 1_555 A DG 2 4_565 -0.267 0.847 3.287 -7.452 2.389 39.043 0.961 -0.490 3.325 3.532 11.016 39.790 7 AA_DG8DC9:DG2DC3_AA A 8 ? A 3 ? A 9 ? A 2 ? # _atom_sites.entry_id 1G6D _atom_sites.fract_transf_matrix[1][1] 0.035817 _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] 0.022681 _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] 0.018790 _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 ZN # loop_