data_1ICK # _entry.id 1ICK # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.376 _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 1ICK pdb_00001ick 10.2210/pdb1ick/pdb NDB ZD0005 ? ? RCSB RCSB013157 ? ? WWPDB D_1000013157 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 2DCG _pdbx_database_related.details 'refined isotropically' _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1ICK _pdbx_database_status.recvd_initial_deposition_date 2001-04-01 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Dauter, Z.' 1 'Adamiak, D.A.' 2 # _citation.id primary _citation.title 'Anomalous signal of phosphorus used for phasing DNA oligomer: importance of data redundancy.' _citation.journal_abbrev 'Acta Crystallogr.,Sect.D' _citation.journal_volume 57 _citation.page_first 990 _citation.page_last 995 _citation.year 2001 _citation.journal_id_ASTM ABCRE6 _citation.country DK _citation.journal_id_ISSN 0907-4449 _citation.journal_id_CSD 0766 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 11418767 _citation.pdbx_database_id_DOI 10.1107/S0907444901006382 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Dauter, Z.' 1 ? primary 'Adamiak, D.A.' 2 ? # _cell.entry_id 1ICK _cell.length_a 17.870 _cell.length_b 31.550 _cell.length_c 44.580 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1ICK _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 # 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(*CP*GP*CP*GP*CP*G)-3'" 1810.205 2 ? ? ? ? 2 non-polymer syn SPERMINE 202.340 1 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 4 water nat water 18.015 88 ? ? ? ? # _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)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGCG _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 DC n 1 6 DG n # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1ICK _struct_ref.pdbx_db_accession 1ICK _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # 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 1ICK A 1 ? 6 ? 1ICK 1 ? 6 ? 1 6 2 1 1ICK B 1 ? 6 ? 1ICK 11 ? 16 ? 11 16 # 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 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 SPM non-polymer . SPERMINE ? 'C10 H26 N4' 202.340 # _exptl.entry_id 1ICK _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.74 _exptl_crystal.density_percent_sol 29.13 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 293.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details '30 mM cacodylate buffer, 15 mM MgCl2, 10 mM spermine, 5% MPD, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K' _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 'cacodylate buffer' ? ? ? 1 2 1 MgCl2 ? ? ? 1 3 1 spermine ? ? ? 1 4 1 MPD ? ? ? 1 5 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 4' _diffrn_detector.pdbx_collection_date 2000-08-15 _diffrn_detector.details mirrors # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Si 111 CHANNEL CUT DOUBLE' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.98 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'NSLS BEAMLINE X8C' _diffrn_source.pdbx_synchrotron_site NSLS _diffrn_source.pdbx_synchrotron_beamline X8C _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.98 # _reflns.entry_id 1ICK _reflns.observed_criterion_sigma_I -3.0 _reflns.observed_criterion_sigma_F -3.0 _reflns.d_resolution_low 20.0 _reflns.d_resolution_high 0.95 _reflns.number_obs 16121 _reflns.number_all 16121 _reflns.percent_possible_obs 99.8 _reflns.pdbx_Rmerge_I_obs 0.038 _reflns.pdbx_Rsym_value 0.038 _reflns.pdbx_netI_over_sigmaI 58.7 _reflns.B_iso_Wilson_estimate 4.2 _reflns.pdbx_redundancy 12.0 _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 0.95 _reflns_shell.d_res_low 0.98 _reflns_shell.percent_possible_all 98.8 _reflns_shell.Rmerge_I_obs 0.129 _reflns_shell.pdbx_Rsym_value 0.129 _reflns_shell.meanI_over_sigI_obs 9.7 _reflns_shell.pdbx_redundancy 12.0 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 1550 _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1ICK _refine.ls_number_reflns_obs 15782 _refine.ls_number_reflns_all 16102 _refine.pdbx_ls_sigma_I -99.0 _refine.pdbx_ls_sigma_F -99.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_d_res_low 10.0 _refine.ls_d_res_high 0.95 _refine.ls_percent_reflns_obs 98.0 _refine.ls_R_factor_obs 0.0865 _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 'electron density maps' _refine.details ;Anisotropic model for all atoms. The average rms error from the inversion of the lsq matrix is 0.01 Angstrom. ; _refine.pdbx_starting_model '2DCG from PDB' _refine.pdbx_method_to_determine_struct '2DCG model from PDB' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'Parkinson et al.' _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.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_SU_ML ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _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 240 _refine_hist.pdbx_number_atoms_ligand 24 _refine_hist.number_atoms_solvent 83 _refine_hist.number_atoms_total 347 _refine_hist.d_res_high 0.95 _refine_hist.d_res_low 10.0 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function s_bond_d 0.018 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.036 ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol 0.052 ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes 0.157 ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps 0.081 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used ? _refine_ls_shell.d_res_high 0.95 _refine_ls_shell.d_res_low 10.0 _refine_ls_shell.number_reflns_R_work ? _refine_ls_shell.R_factor_R_work 0.016 _refine_ls_shell.percent_reflns_obs 98.0 _refine_ls_shell.R_factor_R_free ? _refine_ls_shell.R_factor_R_free_error 0 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 0 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # _struct.entry_id 1ICK _struct.title 'LEFT-HANDED Z-DNA HEXAMER DUPLEX D(CGCGCG)2' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1ICK _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'left-handed Z-DNA oligomer, DNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 3 ? E N N 4 ? F N N 4 ? # _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 metalc1 metalc ? ? A DG 6 N7 ? ? ? 1_555 D MG . MG A ? A DG 6 A MG 22 1_555 ? ? ? ? ? ? ? 2.267 ? ? metalc2 metalc ? ? D MG . MG A ? ? 1_555 E HOH . O A ? A MG 22 A HOH 184 1_555 ? ? ? ? ? ? ? 2.127 ? ? metalc3 metalc ? ? D MG . MG A ? ? 1_555 E HOH . O A ? A MG 22 A HOH 185 1_555 ? ? ? ? ? ? ? 2.050 ? ? metalc4 metalc ? ? D MG . MG A ? ? 1_555 E HOH . O A ? A MG 22 A HOH 186 1_555 ? ? ? ? ? ? ? 2.075 ? ? metalc5 metalc ? ? D MG . MG A ? ? 1_555 E HOH . O A ? A MG 22 A HOH 187 1_555 ? ? ? ? ? ? ? 2.194 ? ? metalc6 metalc ? ? D MG . MG A ? ? 1_555 E HOH . O A ? A MG 22 A HOH 188 1_555 ? ? ? ? ? ? ? 2.125 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 6 N1 ? ? A DC 1 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 6 O6 ? ? A DC 1 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 6 N2 ? ? A DC 1 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 2 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 2 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 2 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 3 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 3 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 3 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 4 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 4 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 4 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 5 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 5 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 5 B DG 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DG 6 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 6 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 6 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 6 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 6 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 6 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A SPM 21 ? 14 'BINDING SITE FOR RESIDUE SPM A 21' AC2 Software A MG 22 ? 6 'BINDING SITE FOR RESIDUE MG A 22' # 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 14 DG A 2 ? DG A 2 . ? 4_456 ? 2 AC1 14 DG A 4 ? DG A 4 . ? 1_555 ? 3 AC1 14 DG A 4 ? DG A 4 . ? 3_746 ? 4 AC1 14 DC A 5 ? DC A 5 . ? 1_555 ? 5 AC1 14 DG A 6 ? DG A 6 . ? 1_555 ? 6 AC1 14 HOH E . ? HOH A 103 . ? 1_555 ? 7 AC1 14 HOH E . ? HOH A 162 . ? 3_746 ? 8 AC1 14 HOH E . ? HOH A 163 . ? 3_646 ? 9 AC1 14 DC B 1 ? DC B 11 . ? 3_746 ? 10 AC1 14 DG B 2 ? DG B 12 . ? 3_746 ? 11 AC1 14 DC B 3 ? DC B 13 . ? 3_646 ? 12 AC1 14 HOH F . ? HOH B 106 . ? 3_646 ? 13 AC1 14 HOH F . ? HOH B 131 . ? 1_545 ? 14 AC1 14 HOH F . ? HOH B 148 . ? 3_646 ? 15 AC2 6 DG A 6 ? DG A 6 . ? 1_555 ? 16 AC2 6 HOH E . ? HOH A 184 . ? 1_555 ? 17 AC2 6 HOH E . ? HOH A 185 . ? 1_555 ? 18 AC2 6 HOH E . ? HOH A 186 . ? 1_555 ? 19 AC2 6 HOH E . ? HOH A 187 . ? 1_555 ? 20 AC2 6 HOH E . ? HOH A 188 . ? 1_555 ? # _database_PDB_matrix.entry_id 1ICK _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 1ICK _atom_sites.fract_transf_matrix[1][1] 0.055960 _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] 0.031696 _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] 0.022432 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C MG N O P # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DC 1 1 1 DC 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 DC 5 5 5 DC C A . n A 1 6 DG 6 6 6 DG G A . n B 1 1 DC 1 11 11 DC C B . n B 1 2 DG 2 12 12 DG G B . n B 1 3 DC 3 13 13 DC C B . n B 1 4 DG 4 14 14 DG G B . n B 1 5 DC 5 15 15 DC C B . n B 1 6 DG 6 16 16 DG G B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 SPM 1 21 21 SPM SPM A . D 3 MG 1 22 22 MG ION A . E 4 HOH 1 103 103 HOH HOH A . E 4 HOH 2 107 107 HOH HOH A . E 4 HOH 3 109 109 HOH HOH A . E 4 HOH 4 110 110 HOH HOH A . E 4 HOH 5 112 112 HOH HOH A . E 4 HOH 6 113 113 HOH HOH A . E 4 HOH 7 117 117 HOH HOH A . E 4 HOH 8 118 118 HOH HOH A . E 4 HOH 9 119 119 HOH HOH A . E 4 HOH 10 120 120 HOH HOH A . E 4 HOH 11 122 122 HOH HOH A . E 4 HOH 12 125 125 HOH HOH A . E 4 HOH 13 127 127 HOH HOH A . E 4 HOH 14 132 132 HOH HOH A . E 4 HOH 15 134 134 HOH HOH A . E 4 HOH 16 135 135 HOH HOH A . E 4 HOH 17 136 136 HOH HOH A . E 4 HOH 18 137 137 HOH HOH A . E 4 HOH 19 138 138 HOH HOH A . E 4 HOH 20 139 139 HOH HOH A . E 4 HOH 21 140 140 HOH HOH A . E 4 HOH 22 143 143 HOH HOH A . E 4 HOH 23 144 144 HOH HOH A . E 4 HOH 24 145 145 HOH HOH A . E 4 HOH 25 146 146 HOH HOH A . E 4 HOH 26 147 147 HOH HOH A . E 4 HOH 27 149 149 HOH HOH A . E 4 HOH 28 156 156 HOH HOH A . E 4 HOH 29 157 157 HOH HOH A . E 4 HOH 30 158 158 HOH HOH A . E 4 HOH 31 160 160 HOH HOH A . E 4 HOH 32 161 161 HOH HOH A . E 4 HOH 33 162 162 HOH HOH A . E 4 HOH 34 163 163 HOH HOH A . E 4 HOH 35 165 165 HOH HOH A . E 4 HOH 36 166 166 HOH HOH A . E 4 HOH 37 167 167 HOH HOH A . E 4 HOH 38 168 168 HOH HOH A . E 4 HOH 39 169 169 HOH HOH A . E 4 HOH 40 176 176 HOH HOH A . E 4 HOH 41 177 177 HOH HOH A . E 4 HOH 42 179 179 HOH HOH A . E 4 HOH 43 180 180 HOH HOH A . E 4 HOH 44 183 183 HOH HOH A . E 4 HOH 45 184 22 HOH ION A . E 4 HOH 46 185 22 HOH ION A . E 4 HOH 47 186 22 HOH ION A . E 4 HOH 48 187 22 HOH ION A . E 4 HOH 49 188 22 HOH ION A . F 4 HOH 1 101 101 HOH HOH B . F 4 HOH 2 102 102 HOH HOH B . F 4 HOH 3 104 104 HOH HOH B . F 4 HOH 4 105 105 HOH HOH B . F 4 HOH 5 106 106 HOH HOH B . F 4 HOH 6 108 108 HOH HOH B . F 4 HOH 7 111 111 HOH HOH B . F 4 HOH 8 114 114 HOH HOH B . F 4 HOH 9 115 115 HOH HOH B . F 4 HOH 10 116 116 HOH HOH B . F 4 HOH 11 121 121 HOH HOH B . F 4 HOH 12 123 123 HOH HOH B . F 4 HOH 13 124 124 HOH HOH B . F 4 HOH 14 126 126 HOH HOH B . F 4 HOH 15 128 128 HOH HOH B . F 4 HOH 16 129 129 HOH HOH B . F 4 HOH 17 130 130 HOH HOH B . F 4 HOH 18 131 131 HOH HOH B . F 4 HOH 19 133 133 HOH HOH B . F 4 HOH 20 141 141 HOH HOH B . F 4 HOH 21 142 142 HOH HOH B . F 4 HOH 22 148 148 HOH HOH B . F 4 HOH 23 150 150 HOH HOH B . F 4 HOH 24 151 151 HOH HOH B . F 4 HOH 25 152 152 HOH HOH B . F 4 HOH 26 153 153 HOH HOH B . F 4 HOH 27 154 154 HOH HOH B . F 4 HOH 28 155 155 HOH HOH B . F 4 HOH 29 159 159 HOH HOH B . F 4 HOH 30 164 164 HOH HOH B . F 4 HOH 31 170 170 HOH HOH B . F 4 HOH 32 171 171 HOH HOH B . F 4 HOH 33 172 172 HOH HOH B . F 4 HOH 34 173 173 HOH HOH B . F 4 HOH 35 174 174 HOH HOH B . F 4 HOH 36 175 175 HOH HOH B . F 4 HOH 37 178 178 HOH HOH B . F 4 HOH 38 181 181 HOH HOH B . F 4 HOH 39 182 182 HOH HOH B . # _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 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 N7 ? A DG 6 ? A DG 6 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 184 ? 1_555 176.3 ? 2 N7 ? A DG 6 ? A DG 6 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 185 ? 1_555 90.7 ? 3 O A E HOH . ? A HOH 184 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 185 ? 1_555 89.2 ? 4 N7 ? A DG 6 ? A DG 6 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 186 ? 1_555 93.4 ? 5 O A E HOH . ? A HOH 184 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 186 ? 1_555 86.3 ? 6 O A E HOH . ? A HOH 185 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 186 ? 1_555 171.4 ? 7 N7 ? A DG 6 ? A DG 6 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 187 ? 1_555 93.2 ? 8 O A E HOH . ? A HOH 184 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 187 ? 1_555 90.5 ? 9 O A E HOH . ? A HOH 185 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 187 ? 1_555 98.9 ? 10 O A E HOH . ? A HOH 186 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 187 ? 1_555 88.5 ? 11 N7 ? A DG 6 ? A DG 6 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 188 ? 1_555 85.0 ? 12 O A E HOH . ? A HOH 184 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 188 ? 1_555 91.3 ? 13 O A E HOH . ? A HOH 185 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 188 ? 1_555 81.9 ? 14 O A E HOH . ? A HOH 186 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 188 ? 1_555 90.9 ? 15 O A E HOH . ? A HOH 187 ? 1_555 MG A D MG . ? A MG 22 ? 1_555 O A E HOH . ? A HOH 188 ? 1_555 178.0 ? # 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 2001-04-12 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-04 5 'Structure model' 1 4 2023-08-09 # _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' 'Refinement description' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' 7 5 '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' software 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 5 5 'Structure model' pdbx_initial_refinement_model 6 5 'Structure model' pdbx_struct_conn_angle 7 5 'Structure model' struct_conn 8 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' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 4 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 5 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_alt_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.ptnr3_auth_comp_id' 11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_alt_id' 13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 15 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 16 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 17 5 'Structure model' '_pdbx_struct_conn_angle.value' 18 5 'Structure model' '_struct_conn.pdbx_dist_value' 19 5 'Structure model' '_struct_conn.pdbx_ptnr1_label_alt_id' 20 5 'Structure model' '_struct_conn.pdbx_ptnr2_label_alt_id' 21 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 22 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 23 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 24 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 25 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 26 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 27 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 28 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 29 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 30 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 31 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 32 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 33 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 34 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 35 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal SHELXL-97 refinement . ? 1 HKL-2000 'data reduction' . ? 2 HKL-2000 'data scaling' . ? 3 # 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 "O4'" A DG 4 ? ? "C1'" A DG 4 ? ? 1.493 1.420 0.073 0.011 N 2 1 N7 A DG 6 ? ? C8 A DG 6 ? ? 1.268 1.305 -0.037 0.006 N # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 "O4'" _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 DG _pdbx_validate_rmsd_angle.auth_seq_id_1 2 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 "C1'" _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 DG _pdbx_validate_rmsd_angle.auth_seq_id_2 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 N9 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 DG _pdbx_validate_rmsd_angle.auth_seq_id_3 2 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 103.66 _pdbx_validate_rmsd_angle.angle_target_value 108.00 _pdbx_validate_rmsd_angle.angle_deviation -4.34 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.70 _pdbx_validate_rmsd_angle.linker_flag 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 HOH O O N N 72 HOH H1 H N N 73 HOH H2 H N N 74 MG MG MG N N 75 SPM N1 N N N 76 SPM C2 C N N 77 SPM C3 C N N 78 SPM C4 C N N 79 SPM N5 N N N 80 SPM C6 C N N 81 SPM C7 C N N 82 SPM C8 C N N 83 SPM C9 C N N 84 SPM N10 N N N 85 SPM C11 C N N 86 SPM C12 C N N 87 SPM C13 C N N 88 SPM N14 N N N 89 SPM HN11 H N N 90 SPM HN12 H N N 91 SPM H21 H N N 92 SPM H22 H N N 93 SPM H31 H N N 94 SPM H32 H N N 95 SPM H41 H N N 96 SPM H42 H N N 97 SPM HN5 H N N 98 SPM H61 H N N 99 SPM H62 H N N 100 SPM H71 H N N 101 SPM H72 H N N 102 SPM H81 H N N 103 SPM H82 H N N 104 SPM H91 H N N 105 SPM H92 H N N 106 SPM HN0 H N N 107 SPM H111 H N N 108 SPM H112 H N N 109 SPM H121 H N N 110 SPM H122 H N N 111 SPM H131 H N N 112 SPM H132 H N N 113 SPM HN41 H N N 114 SPM HN42 H N N 115 # 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 HOH O H1 sing N N 75 HOH O H2 sing N N 76 SPM N1 C2 sing N N 77 SPM N1 HN11 sing N N 78 SPM N1 HN12 sing N N 79 SPM C2 C3 sing N N 80 SPM C2 H21 sing N N 81 SPM C2 H22 sing N N 82 SPM C3 C4 sing N N 83 SPM C3 H31 sing N N 84 SPM C3 H32 sing N N 85 SPM C4 N5 sing N N 86 SPM C4 H41 sing N N 87 SPM C4 H42 sing N N 88 SPM N5 C6 sing N N 89 SPM N5 HN5 sing N N 90 SPM C6 C7 sing N N 91 SPM C6 H61 sing N N 92 SPM C6 H62 sing N N 93 SPM C7 C8 sing N N 94 SPM C7 H71 sing N N 95 SPM C7 H72 sing N N 96 SPM C8 C9 sing N N 97 SPM C8 H81 sing N N 98 SPM C8 H82 sing N N 99 SPM C9 N10 sing N N 100 SPM C9 H91 sing N N 101 SPM C9 H92 sing N N 102 SPM N10 C11 sing N N 103 SPM N10 HN0 sing N N 104 SPM C11 C12 sing N N 105 SPM C11 H111 sing N N 106 SPM C11 H112 sing N N 107 SPM C12 C13 sing N N 108 SPM C12 H121 sing N N 109 SPM C12 H122 sing N N 110 SPM C13 N14 sing N N 111 SPM C13 H131 sing N N 112 SPM C13 H132 sing N N 113 SPM N14 HN41 sing N N 114 SPM N14 HN42 sing N N 115 # _ndb_struct_conf_na.entry_id 1ICK _ndb_struct_conf_na.feature 'z-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 DC 1 1_555 B DG 6 1_555 -0.271 -0.110 0.128 1.854 0.295 0.892 1 A_DC1:DG16_B A 1 ? B 16 ? 19 1 1 A DG 2 1_555 B DC 5 1_555 0.284 -0.124 -0.093 -6.625 -2.484 1.648 2 A_DG2:DC15_B A 2 ? B 15 ? 19 1 1 A DC 3 1_555 B DG 4 1_555 -0.245 -0.121 -0.052 4.643 -3.397 1.655 3 A_DC3:DG14_B A 3 ? B 14 ? 19 1 1 A DG 4 1_555 B DC 3 1_555 0.175 -0.117 0.067 -6.809 -0.960 2.799 4 A_DG4:DC13_B A 4 ? B 13 ? 19 1 1 A DC 5 1_555 B DG 2 1_555 -0.139 -0.097 -0.013 1.142 0.071 2.839 5 A_DC5:DG12_B A 5 ? B 12 ? 19 1 1 A DG 6 1_555 B DC 1 1_555 0.335 -0.147 0.188 5.657 5.498 2.573 6 A_DG6:DC11_B A 6 ? B 11 ? 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 DC 5 1_555 0.071 5.349 3.671 0.751 -3.250 -6.108 -24.861 5.023 5.711 27.924 6.454 -6.959 1 AA_DC1DG2:DC15DG16_BB A 1 ? B 16 ? A 2 ? B 15 ? 1 A DG 2 1_555 B DC 5 1_555 A DC 3 1_555 B DG 4 1_555 -0.073 -1.049 3.260 -0.084 -6.034 -51.882 1.584 -0.088 3.128 6.871 -0.096 -52.207 2 AA_DG2DC3:DG14DC15_BB A 2 ? B 15 ? A 3 ? B 14 ? 1 A DC 3 1_555 B DG 4 1_555 A DG 4 1_555 B DC 3 1_555 -0.034 5.475 3.791 -0.714 -3.440 -5.813 -23.654 -4.973 6.013 30.514 -6.336 -6.792 3 AA_DC3DG4:DC13DG14_BB A 3 ? B 14 ? A 4 ? B 13 ? 1 A DG 4 1_555 B DC 3 1_555 A DC 5 1_555 B DG 2 1_555 -0.183 -0.910 3.331 0.665 -2.065 -53.548 1.141 -0.160 3.298 2.291 0.738 -53.588 4 AA_DG4DC5:DG12DC13_BB A 4 ? B 13 ? A 5 ? B 12 ? 1 A DC 5 1_555 B DG 2 1_555 A DG 6 1_555 B DC 1 1_555 0.115 5.124 3.414 1.911 -0.918 -6.905 -36.913 8.738 3.884 7.394 15.398 -7.223 5 AA_DC5DG6:DC11DG12_BB A 5 ? B 12 ? A 6 ? B 11 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 SPERMINE SPM 3 'MAGNESIUM ION' MG 4 water HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 2DCG _pdbx_initial_refinement_model.details '2DCG from PDB' #