data_1K2L # _entry.id 1K2L # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.386 _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 1K2L pdb_00001k2l 10.2210/pdb1k2l/pdb NDB DD0045 ? ? RCSB RCSB014481 ? ? WWPDB D_1000014481 ? ? # 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 2002-10-16 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 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' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 '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 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' diffrn_source 5 4 'Structure model' pdbx_struct_conn_angle 6 4 'Structure model' struct_conn 7 4 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_diffrn_source.pdbx_synchrotron_site' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 15 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 16 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 17 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 18 4 'Structure model' '_pdbx_struct_conn_angle.value' 19 4 'Structure model' '_struct_conn.pdbx_dist_value' 20 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 21 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 22 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 23 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 24 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 25 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 26 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 27 4 'Structure model' '_struct_conn.ptnr1_symmetry' 28 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 29 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 30 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 31 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 32 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 33 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 34 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 35 4 'Structure model' '_struct_conn.ptnr2_symmetry' 36 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 37 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 38 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1K2L _pdbx_database_status.recvd_initial_deposition_date 2001-09-28 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # _pdbx_database_related.db_name NDB _pdbx_database_related.db_id DD0026 _pdbx_database_related.details 'CRYSTAL STRUCTURE ANALYSIS OF D(CG(5-BRU)ACG) COMPLEXES TO A PHENAZINE' _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Teixeira, S.C.M.' 1 'Thorpe, J.H.' 2 'Todd, A.K.' 3 'Powell, H.R.' 4 'Adams, A.' 5 'Wakelin, L.P.G.' 6 'Denny, W.A.' 7 'Cardin, C.J.' 8 # _citation.id primary _citation.title 'Structural Characterisation of Bisintercalation in Higher-order DNA at a Junction-like Quadruplex' _citation.journal_abbrev J.MOL.BIOL. _citation.journal_volume 323 _citation.page_first 167 _citation.page_last 171 _citation.year 2002 _citation.journal_id_ASTM JMOBAK _citation.country UK _citation.journal_id_ISSN 0022-2836 _citation.journal_id_CSD 0070 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 12381312 _citation.pdbx_database_id_DOI '10.1016/S0022-2836(02)00923-3' # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Teixeira, S.C.M.' 1 ? primary 'Thorpe, J.H.' 2 ? primary 'Todd, A.K.' 3 ? primary 'Powell, H.R.' 4 ? primary 'Adams, A.' 5 ? primary 'Wakelin, L.P.G.' 6 ? primary 'Denny, W.A.' 7 ? primary 'Cardin, C.J.' 8 ? # 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*TP*AP*CP*G)-3'" 1809.217 2 ? ? ? ? 2 non-polymer syn 'COBALT (II) ION' 58.933 2 ? ? ? ? 3 non-polymer syn 'BIS-(9-OCTYLAMINO(2-DIMETHYLAMINOETHYL)ACRIDINE-4-CARBOXAMIDE' 726.952 1 ? ? ? ? 4 water nat water 18.015 16 ? ? ? ? # _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)(DT)(DA)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGTACG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'COBALT (II) ION' CO 3 'BIS-(9-OCTYLAMINO(2-DIMETHYLAMINOETHYL)ACRIDINE-4-CARBOXAMIDE' BDC 4 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 DT n 1 4 DA n 1 5 DC 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 BDC non-polymer . 'BIS-(9-OCTYLAMINO(2-DIMETHYLAMINOETHYL)ACRIDINE-4-CARBOXAMIDE' BIS-DACA 'C44 H54 N8 O2' 726.952 CO non-polymer . 'COBALT (II) ION' ? 'Co 2' 58.933 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 # 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 DT 3 3 3 DT T A . n A 1 4 DA 4 4 4 DA A 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 1 1 DC C B . n B 1 2 DG 2 2 2 DG G B . n B 1 3 DT 3 3 3 DT T B . n B 1 4 DA 4 4 4 DA A B . n B 1 5 DC 5 5 5 DC C B . n B 1 6 DG 6 6 6 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 CO 1 10 10 CO COB A . D 3 BDC 1 1000 1000 BDC DAC B . E 2 CO 1 100 100 CO CO5 B . F 4 HOH 1 2000 2000 HOH HOH A . F 4 HOH 2 2001 2001 HOH HOH A . F 4 HOH 3 2002 2002 HOH HOH A . F 4 HOH 4 2004 2004 HOH HOH A . F 4 HOH 5 2007 2007 HOH HOH A . F 4 HOH 6 2009 10 HOH COB A . F 4 HOH 7 2010 10 HOH COB A . G 4 HOH 1 2003 2003 HOH HOH B . G 4 HOH 2 2005 2005 HOH HOH B . G 4 HOH 3 2006 2006 HOH HOH B . G 4 HOH 4 2008 2008 HOH HOH B . G 4 HOH 5 2011 100 HOH CO5 B . G 4 HOH 6 2012 100 HOH CO5 B . G 4 HOH 7 2013 100 HOH CO5 B . G 4 HOH 8 2014 100 HOH CO5 B . G 4 HOH 9 2015 100 HOH CO5 B . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 B DC 1 ? "O5'" ? B DC 1 "O5'" 2 1 Y 1 B DC 1 ? "C5'" ? B DC 1 "C5'" 3 1 Y 1 B DC 1 ? "C4'" ? B DC 1 "C4'" 4 1 Y 1 B DC 1 ? "O4'" ? B DC 1 "O4'" 5 1 Y 1 B DC 1 ? "C3'" ? B DC 1 "C3'" 6 1 Y 1 B DC 1 ? "C2'" ? B DC 1 "C2'" 7 1 Y 1 B DC 1 ? "C1'" ? B DC 1 "C1'" 8 1 Y 1 B DC 1 ? N1 ? B DC 1 N1 9 1 Y 1 B DC 1 ? C2 ? B DC 1 C2 10 1 Y 1 B DC 1 ? O2 ? B DC 1 O2 11 1 Y 1 B DC 1 ? N3 ? B DC 1 N3 12 1 Y 1 B DC 1 ? C4 ? B DC 1 C4 13 1 Y 1 B DC 1 ? N4 ? B DC 1 N4 14 1 Y 1 B DC 1 ? C5 ? B DC 1 C5 15 1 Y 1 B DC 1 ? C6 ? B DC 1 C6 16 1 Y 1 B DC 5 ? OP1 ? B DC 5 OP1 17 1 N 1 B BDC 1000 ? CF4 ? D BDC 1 CF4 18 1 N 1 B BDC 1000 ? CF3 ? D BDC 1 CF3 19 1 N 1 B BDC 1000 ? CF2 ? D BDC 1 CF2 20 1 N 1 B BDC 1000 ? CF1 ? D BDC 1 CF1 21 1 N 1 B BDC 1000 ? "N9'" ? D BDC 1 "N9'" 22 1 N 1 B BDC 1000 ? "C5'" ? D BDC 1 "C5'" 23 1 N 1 B BDC 1000 ? "C6'" ? D BDC 1 "C6'" 24 1 N 1 B BDC 1000 ? "C7'" ? D BDC 1 "C7'" 25 1 N 1 B BDC 1000 ? "C8'" ? D BDC 1 "C8'" 26 1 N 1 B BDC 1000 ? "C9'" ? D BDC 1 "C9'" 27 1 N 1 B BDC 1000 ? "C1'" ? D BDC 1 "C1'" 28 1 N 1 B BDC 1000 ? "C2'" ? D BDC 1 "C2'" 29 1 N 1 B BDC 1000 ? "C3'" ? D BDC 1 "C3'" 30 1 N 1 B BDC 1000 ? "C4'" ? D BDC 1 "C4'" 31 1 N 1 B BDC 1000 ? "CE'" ? D BDC 1 "CE'" 32 1 N 1 B BDC 1000 ? "CD'" ? D BDC 1 "CD'" 33 1 N 1 B BDC 1000 ? "CB'" ? D BDC 1 "CB'" 34 1 N 1 B BDC 1000 ? "CC'" ? D BDC 1 "CC'" 35 1 N 1 B BDC 1000 ? "NA'" ? D BDC 1 "NA'" 36 1 N 1 B BDC 1000 ? CB1 ? D BDC 1 CB1 37 1 N 1 B BDC 1000 ? O1X ? D BDC 1 O1X 38 1 N 1 B BDC 1000 ? NB1 ? D BDC 1 NB1 39 1 N 1 B BDC 1000 ? CB2 ? D BDC 1 CB2 40 1 N 1 B BDC 1000 ? CB3 ? D BDC 1 CB3 41 1 N 1 B BDC 1000 ? NB2 ? D BDC 1 NB2 42 1 N 1 B BDC 1000 ? CB7 ? D BDC 1 CB7 43 1 N 1 B BDC 1000 ? CB8 ? D BDC 1 CB8 # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal DENZO 'data reduction' . ? 1 SCALEPACK 'data scaling' . ? 2 SHELXL refinement . ? 3 SHELXL-97 refinement . ? 4 # _cell.entry_id 1K2L _cell.length_a 29.507 _cell.length_b 53.738 _cell.length_c 40.061 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1K2L _symmetry.space_group_name_H-M 'C 2 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 21 _symmetry.space_group_name_Hall ? # _exptl.entry_id 1K2L _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.28 _exptl_crystal.density_percent_sol 41.47 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 285.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.pdbx_details ;Sodium cacodylate buffer, magnesium acetate, cobalt chloride, spermine, MPD, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 285.0K ; _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 'Sodium cacodylate buffer' ? ? ? 1 2 1 'magnesium acetate' ? ? ? 1 3 1 COCl2 ? ? ? 1 4 1 spermine ? ? ? 1 5 1 MPD ? ? ? 1 6 2 'magnesium acetate' ? ? ? 1 7 2 COCl2 ? ? ? 1 8 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _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 1996-11-15 _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 Mirrors _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.979 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'EMBL/DESY, HAMBURG BEAMLINE X31' _diffrn_source.pdbx_synchrotron_site 'EMBL/DESY, HAMBURG' _diffrn_source.pdbx_synchrotron_beamline X31 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.979 # _reflns.entry_id 1K2L _reflns.observed_criterion_sigma_I -3.0 _reflns.observed_criterion_sigma_F 2 _reflns.d_resolution_low 13.5 _reflns.d_resolution_high 2.28 _reflns.number_obs 2063 _reflns.number_all 2063 _reflns.percent_possible_obs 88.06 _reflns.pdbx_Rmerge_I_obs 0.071 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 11.57 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.28 _reflns_shell.d_res_low 2.36 _reflns_shell.percent_possible_all 93.8 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1K2L _refine.ls_number_reflns_obs 1217 _refine.ls_number_reflns_all 1971 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 4 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_d_res_low 9.00 _refine.ls_d_res_high 2.40 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.2452 _refine.ls_R_factor_all 0.3268 _refine.ls_R_factor_R_work 0.239 _refine.ls_R_factor_R_free 0.3091 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.7 _refine.ls_number_reflns_R_free 92 _refine.ls_number_parameters 848 _refine.ls_number_restraints 1140 _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 'FREE R' _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'ENGH AND HUBER' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.correlation_coeff_Fo_to_Fc ? _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.correlation_coeff_Fo_to_Fc_free ? _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_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 1K2L _refine_analyze.Luzzati_coordinate_error_obs ? _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues 0 _refine_analyze.occupancy_sum_hydrogen 0.00 _refine_analyze.occupancy_sum_non_hydrogen 264.00 _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 224 _refine_hist.pdbx_number_atoms_ligand 36 _refine_hist.number_atoms_solvent 9 _refine_hist.number_atoms_total 269 _refine_hist.d_res_high 2.40 _refine_hist.d_res_low 9.00 # 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 0.026 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.000 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist 0.016 ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes 0.0001 ? ? ? 'X-RAY DIFFRACTION' ? s_zero_chiral_vol 0.000 ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol 0.000 ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr 0.053 ? ? ? 'X-RAY DIFFRACTION' ? s_rigid_bond_adp_cmpnt 0.000 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_adp_cmpnt 0.009 ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps 0.000 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used ? _refine_ls_shell.d_res_high 2.40 _refine_ls_shell.d_res_low 2.48 _refine_ls_shell.number_reflns_R_work ? _refine_ls_shell.R_factor_R_work 0.322 _refine_ls_shell.percent_reflns_obs 95.38 _refine_ls_shell.R_factor_R_free ? _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free ? _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 ? # _pdbx_refine.entry_id 1K2L _pdbx_refine.R_factor_all_no_cutoff 0.2452 _pdbx_refine.R_factor_obs_no_cutoff 0.2388 _pdbx_refine.free_R_factor_no_cutoff 0.3268 _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 4.7 _pdbx_refine.free_R_val_test_set_ct_no_cutoff 92 _pdbx_refine.R_factor_all_4sig_cutoff 0.2274 _pdbx_refine.R_factor_obs_4sig_cutoff 0.2216 _pdbx_refine.free_R_factor_4sig_cutoff 0.2978 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 4.6 _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 78 _pdbx_refine.number_reflns_obs_4sig_cutoff 1701 _pdbx_refine.number_reflns_obs_no_cutoff ? _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.free_R_error_no_cutoff ? # _database_PDB_matrix.entry_id 1K2L _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.000000 _database_PDB_matrix.origx_vector[2] 0.000000 _database_PDB_matrix.origx_vector[3] 0.000000 # _struct.entry_id 1K2L _struct.title 'STRUCTURAL CHARACTERIZATION OF BISINTERCALATION IN HIGHER-ORDER DNA AT A JUNCTION-LIKE QUADRUPLEX' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1K2L _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'DNA Strand Exchange, quadruplex, bisintercalation, 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 2 ? F N N 4 ? G N N 4 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1K2L _struct_ref.pdbx_db_accession 1K2L _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 1K2L A 1 ? 6 ? 1K2L 1 ? 6 ? 1 6 2 1 1K2L B 1 ? 6 ? 1K2L 1 ? 6 ? 1 6 # _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,G # _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 metalc1 metalc ? ? A DG 6 N7 ? ? ? 1_555 C CO . CO ? ? A DG 6 A CO 10 1_555 ? ? ? ? ? ? ? 1.902 ? ? metalc2 metalc ? ? A DG 6 N7 ? ? ? 3_556 C CO . CO ? ? A DG 6 A CO 10 1_555 ? ? ? ? ? ? ? 1.901 ? ? metalc3 metalc ? ? C CO . CO ? ? ? 1_555 F HOH . O ? ? A CO 10 A HOH 2009 1_555 ? ? ? ? ? ? ? 1.937 ? ? metalc4 metalc ? ? C CO . CO ? ? ? 1_555 F HOH . O ? ? A CO 10 A HOH 2009 3_556 ? ? ? ? ? ? ? 1.938 ? ? metalc5 metalc ? ? C CO . CO ? ? ? 1_555 F HOH . O ? ? A CO 10 A HOH 2010 1_555 ? ? ? ? ? ? ? 2.043 ? ? metalc6 metalc ? ? C CO . CO ? ? ? 1_555 F HOH . O ? ? A CO 10 A HOH 2010 3_556 ? ? ? ? ? ? ? 2.043 ? ? metalc7 metalc ? ? B DG 2 N7 ? ? ? 1_555 E CO . CO ? ? B DG 2 B CO 100 1_555 ? ? ? ? ? ? ? 1.916 ? ? metalc8 metalc ? ? E CO . CO ? ? ? 1_555 G HOH . O ? ? B CO 100 B HOH 2011 1_555 ? ? ? ? ? ? ? 1.989 ? ? metalc9 metalc ? ? E CO . CO ? ? ? 1_555 G HOH . O ? ? B CO 100 B HOH 2012 1_555 ? ? ? ? ? ? ? 1.943 ? ? metalc10 metalc ? ? E CO . CO ? ? ? 1_555 G HOH . O ? ? B CO 100 B HOH 2013 1_555 ? ? ? ? ? ? ? 2.061 ? ? metalc11 metalc ? ? E CO . CO ? ? ? 1_555 G HOH . O ? ? B CO 100 B HOH 2014 1_555 ? ? ? ? ? ? ? 2.044 ? ? metalc12 metalc ? ? E CO . CO ? ? ? 1_555 G HOH . O ? ? B CO 100 B HOH 2015 1_555 ? ? ? ? ? ? ? 2.107 ? ? hydrog1 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 2 B DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 2 B DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 2 B DC 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DT 3 N3 ? ? ? 1_555 B DA 4 N1 ? ? A DT 3 B DA 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DT 3 O4 ? ? ? 1_555 B DA 4 N6 ? ? A DT 3 B DA 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DA 4 N1 ? ? ? 1_555 B DT 3 N3 ? ? A DA 4 B DT 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DA 4 N6 ? ? ? 1_555 B DT 3 O4 ? ? A DA 4 B DT 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 5 B DG 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 5 B DG 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 5 B DG 2 1_555 ? ? ? ? ? ? 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 N7 ? A DG 6 ? A DG 6 ? 1_555 CO ? C CO . ? A CO 10 ? 1_555 N7 ? A DG 6 ? A DG 6 ? 3_556 175.0 ? 2 N7 ? A DG 6 ? A DG 6 ? 1_555 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2009 ? 1_555 84.6 ? 3 N7 ? A DG 6 ? A DG 6 ? 3_556 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2009 ? 1_555 92.0 ? 4 N7 ? A DG 6 ? A DG 6 ? 1_555 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2009 ? 3_556 92.0 ? 5 N7 ? A DG 6 ? A DG 6 ? 3_556 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2009 ? 3_556 84.6 ? 6 O ? F HOH . ? A HOH 2009 ? 1_555 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2009 ? 3_556 95.5 ? 7 N7 ? A DG 6 ? A DG 6 ? 1_555 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2010 ? 1_555 92.7 ? 8 N7 ? A DG 6 ? A DG 6 ? 3_556 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2010 ? 1_555 91.0 ? 9 O ? F HOH . ? A HOH 2009 ? 1_555 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2010 ? 1_555 89.2 ? 10 O ? F HOH . ? A HOH 2009 ? 3_556 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2010 ? 1_555 173.7 ? 11 N7 ? A DG 6 ? A DG 6 ? 1_555 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2010 ? 3_556 91.0 ? 12 N7 ? A DG 6 ? A DG 6 ? 3_556 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2010 ? 3_556 92.7 ? 13 O ? F HOH . ? A HOH 2009 ? 1_555 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2010 ? 3_556 173.7 ? 14 O ? F HOH . ? A HOH 2009 ? 3_556 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2010 ? 3_556 89.2 ? 15 O ? F HOH . ? A HOH 2010 ? 1_555 CO ? C CO . ? A CO 10 ? 1_555 O ? F HOH . ? A HOH 2010 ? 3_556 86.4 ? 16 N7 ? B DG 2 ? B DG 2 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2011 ? 1_555 97.6 ? 17 N7 ? B DG 2 ? B DG 2 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2012 ? 1_555 95.7 ? 18 O ? G HOH . ? B HOH 2011 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2012 ? 1_555 92.7 ? 19 N7 ? B DG 2 ? B DG 2 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2013 ? 1_555 94.9 ? 20 O ? G HOH . ? B HOH 2011 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2013 ? 1_555 87.9 ? 21 O ? G HOH . ? B HOH 2012 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2013 ? 1_555 169.3 ? 22 N7 ? B DG 2 ? B DG 2 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2014 ? 1_555 88.7 ? 23 O ? G HOH . ? B HOH 2011 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2014 ? 1_555 172.5 ? 24 O ? G HOH . ? B HOH 2012 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2014 ? 1_555 90.9 ? 25 O ? G HOH . ? B HOH 2013 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2014 ? 1_555 87.3 ? 26 N7 ? B DG 2 ? B DG 2 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2015 ? 1_555 174.0 ? 27 O ? G HOH . ? B HOH 2011 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2015 ? 1_555 87.7 ? 28 O ? G HOH . ? B HOH 2012 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2015 ? 1_555 87.0 ? 29 O ? G HOH . ? B HOH 2013 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2015 ? 1_555 82.4 ? 30 O ? G HOH . ? B HOH 2014 ? 1_555 CO ? E CO . ? B CO 100 ? 1_555 O ? G HOH . ? B HOH 2015 ? 1_555 85.9 ? # 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 B BDC 1000 ? 5 'BINDING SITE FOR RESIDUE BDC B 1000' AC2 Software A CO 10 ? 6 'BINDING SITE FOR RESIDUE CO A 10' AC3 Software B CO 100 ? 6 'BINDING SITE FOR RESIDUE CO B 100' 1 ? ? ? ? ? ? ? # 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 5 DC A 1 ? DC A 1 . ? 3_455 ? 2 AC1 5 DG A 2 ? DG A 2 . ? 2_475 ? 3 AC1 5 DG A 2 ? DG A 2 . ? 1_555 ? 4 AC1 5 DC B 5 ? DC B 5 . ? 1_555 ? 5 AC1 5 DG B 6 ? DG B 6 . ? 1_555 ? 6 AC2 6 DG A 6 ? DG A 6 . ? 1_555 ? 7 AC2 6 DG A 6 ? DG A 6 . ? 3_556 ? 8 AC2 6 HOH F . ? HOH A 2009 . ? 3_556 ? 9 AC2 6 HOH F . ? HOH A 2009 . ? 1_555 ? 10 AC2 6 HOH F . ? HOH A 2010 . ? 3_556 ? 11 AC2 6 HOH F . ? HOH A 2010 . ? 1_555 ? 12 AC3 6 DG B 2 ? DG B 2 . ? 1_555 ? 13 AC3 6 HOH G . ? HOH B 2011 . ? 1_555 ? 14 AC3 6 HOH G . ? HOH B 2012 . ? 1_555 ? 15 AC3 6 HOH G . ? HOH B 2013 . ? 1_555 ? 16 AC3 6 HOH G . ? HOH B 2014 . ? 1_555 ? 17 AC3 6 HOH G . ? HOH B 2015 . ? 1_555 ? # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 CE4 _pdbx_validate_symm_contact.auth_asym_id_1 B _pdbx_validate_symm_contact.auth_comp_id_1 BDC _pdbx_validate_symm_contact.auth_seq_id_1 1000 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 CE4 _pdbx_validate_symm_contact.auth_asym_id_2 B _pdbx_validate_symm_contact.auth_comp_id_2 BDC _pdbx_validate_symm_contact.auth_seq_id_2 1000 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 2_475 _pdbx_validate_symm_contact.dist 1.52 # 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 DG 2 ? ? "C4'" A DG 2 ? ? 1.557 1.512 0.045 0.007 N 2 1 "C1'" A DG 2 ? ? N9 A DG 2 ? ? 1.583 1.488 0.095 0.013 N 3 1 "O4'" A DT 3 ? ? "C1'" A DT 3 ? ? 1.497 1.420 0.077 0.011 N 4 1 "C1'" A DG 6 ? ? N9 A DG 6 ? ? 1.594 1.488 0.106 0.013 N 5 1 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? 1.502 1.420 0.082 0.011 N 6 1 "C1'" B DG 2 ? ? N9 B DG 2 ? ? 1.585 1.488 0.097 0.013 N 7 1 "O4'" B DA 4 ? ? "C1'" B DA 4 ? ? 1.487 1.420 0.067 0.011 N 8 1 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? 1.493 1.420 0.073 0.011 N 9 1 "C1'" B DG 6 ? ? N9 B DG 6 ? ? 1.580 1.488 0.092 0.013 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 N1 A DC 1 ? ? "C1'" A DC 1 ? ? "C2'" A DC 1 ? ? 138.33 114.30 24.03 1.40 N 2 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 101.97 108.00 -6.03 0.70 N 3 1 "C3'" A DC 1 ? ? "O3'" A DC 1 ? ? P A DG 2 ? ? 127.96 119.70 8.26 1.20 Y 4 1 "O5'" A DG 2 ? ? "C5'" A DG 2 ? ? "C4'" A DG 2 ? ? 104.44 109.40 -4.96 0.80 N 5 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? N9 A DG 2 ? ? 100.01 108.00 -7.99 0.70 N 6 1 "O4'" A DA 4 ? ? "C1'" A DA 4 ? ? N9 A DA 4 ? ? 102.55 108.00 -5.45 0.70 N 7 1 OP1 A DC 5 ? ? P A DC 5 ? ? OP2 A DC 5 ? ? 128.73 119.60 9.13 1.50 N 8 1 N1 A DC 5 ? ? "C1'" A DC 5 ? ? "C2'" A DC 5 ? ? 132.64 114.30 18.34 1.40 N 9 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? N1 A DC 5 ? ? 103.08 108.00 -4.92 0.70 N 10 1 P A DG 6 ? ? "O5'" A DG 6 ? ? "C5'" A DG 6 ? ? 131.23 120.90 10.33 1.60 N 11 1 "O4'" A DG 6 ? ? "C1'" A DG 6 ? ? N9 A DG 6 ? ? 98.03 108.00 -9.97 0.70 N 12 1 "C5'" B DG 2 ? ? "C4'" B DG 2 ? ? "C3'" B DG 2 ? ? 100.64 114.10 -13.46 1.80 N 13 1 "C4'" B DG 2 ? ? "C3'" B DG 2 ? ? "C2'" B DG 2 ? ? 109.89 103.10 6.79 0.90 N 14 1 N9 B DG 2 ? ? "C1'" B DG 2 ? ? "C2'" B DG 2 ? ? 123.48 114.30 9.18 1.40 N 15 1 "O4'" B DG 2 ? ? "C1'" B DG 2 ? ? N9 B DG 2 ? ? 96.37 108.00 -11.63 0.70 N 16 1 "C3'" B DG 2 ? ? "O3'" B DG 2 ? ? P B DT 3 ? ? 129.40 119.70 9.70 1.20 Y 17 1 "O3'" B DG 2 ? ? P B DT 3 ? ? "O5'" B DT 3 ? ? 89.56 104.00 -14.44 1.90 Y 18 1 "O3'" B DG 2 ? ? P B DT 3 ? ? OP2 B DT 3 ? ? 126.34 110.50 15.84 1.10 Y 19 1 P B DT 3 ? ? "O5'" B DT 3 ? ? "C5'" B DT 3 ? ? 133.14 120.90 12.24 1.60 N 20 1 "C5'" B DT 3 ? ? "C4'" B DT 3 ? ? "O4'" B DT 3 ? ? 122.17 109.80 12.37 1.10 N 21 1 N1 B DT 3 ? ? "C1'" B DT 3 ? ? "C2'" B DT 3 ? ? 128.69 114.30 14.39 1.40 N 22 1 "O4'" B DT 3 ? ? "C1'" B DT 3 ? ? N1 B DT 3 ? ? 103.09 108.00 -4.91 0.70 N 23 1 "O5'" B DA 4 ? ? "C5'" B DA 4 ? ? "C4'" B DA 4 ? ? 101.42 109.40 -7.98 0.80 N 24 1 N9 B DA 4 ? ? "C1'" B DA 4 ? ? "C2'" B DA 4 ? ? 123.01 114.30 8.71 1.40 N 25 1 "O4'" B DA 4 ? ? "C1'" B DA 4 ? ? N9 B DA 4 ? ? 100.18 108.00 -7.82 0.70 N 26 1 N1 B DC 5 ? ? "C1'" B DC 5 ? ? "C2'" B DC 5 ? ? 123.70 114.30 9.40 1.40 N 27 1 C6 B DC 5 ? ? N1 B DC 5 ? ? C2 B DC 5 ? ? 123.04 120.30 2.74 0.40 N 28 1 P B DG 6 ? ? "O5'" B DG 6 ? ? "C5'" B DG 6 ? ? 136.19 120.90 15.29 1.60 N 29 1 N9 B DG 6 ? ? "C1'" B DG 6 ? ? "C2'" B DG 6 ? ? 125.19 114.30 10.89 1.40 N 30 1 "O4'" B DG 6 ? ? "C1'" B DG 6 ? ? N9 B DG 6 ? ? 101.27 108.00 -6.73 0.70 N # _struct_site_keywords.site_id 1 _struct_site_keywords.text BIS-INTERCALATION # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id CO _pdbx_struct_special_symmetry.auth_seq_id 10 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id C _pdbx_struct_special_symmetry.label_comp_id CO _pdbx_struct_special_symmetry.label_seq_id . # 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 BDC C5 C Y N 1 BDC C6 C Y N 2 BDC C7 C Y N 3 BDC C8 C Y N 4 BDC C9 C Y N 5 BDC C1 C Y N 6 BDC C2 C Y N 7 BDC C3 C Y N 8 BDC C4 C Y N 9 BDC C14 C Y N 10 BDC C13 C Y N 11 BDC C11 C Y N 12 BDC C12 C Y N 13 BDC N10 N Y N 14 BDC N9 N N N 15 BDC CD1 C N N 16 BDC OD1 O N N 17 BDC CE1 C N N 18 BDC CE3 C N N 19 BDC CE2 C N N 20 BDC CE4 C N N 21 BDC ND1 N N N 22 BDC CD2 C N N 23 BDC CD3 C N N 24 BDC ND2 N N N 25 BDC CD7 C N N 26 BDC CD8 C N N 27 BDC CF4 C N N 28 BDC CF3 C N N 29 BDC CF2 C N N 30 BDC CF1 C N N 31 BDC "N9'" N N N 32 BDC "C5'" C Y N 33 BDC "C6'" C Y N 34 BDC "C7'" C Y N 35 BDC "C8'" C Y N 36 BDC "C9'" C Y N 37 BDC "C1'" C Y N 38 BDC "C2'" C Y N 39 BDC "C3'" C Y N 40 BDC "C4'" C Y N 41 BDC "CE'" C Y N 42 BDC "CD'" C Y N 43 BDC "CB'" C Y N 44 BDC "CC'" C Y N 45 BDC "NA'" N Y N 46 BDC CB1 C N N 47 BDC O1X O N N 48 BDC NB1 N N N 49 BDC CB2 C N N 50 BDC CB3 C N N 51 BDC NB2 N N N 52 BDC CB7 C N N 53 BDC CB8 C N N 54 BDC H5 H N N 55 BDC H6 H N N 56 BDC H7 H N N 57 BDC H8 H N N 58 BDC H1 H N N 59 BDC H2 H N N 60 BDC H3 H N N 61 BDC H9 H N N 62 BDC HE11 H N N 63 BDC HE12 H N N 64 BDC HE31 H N N 65 BDC HE32 H N N 66 BDC HE21 H N N 67 BDC HE22 H N N 68 BDC HE41 H N N 69 BDC HE42 H N N 70 BDC HD1 H N N 71 BDC HD21 H N N 72 BDC HD22 H N N 73 BDC HD31 H N N 74 BDC HD32 H N N 75 BDC HD71 H N N 76 BDC HD72 H N N 77 BDC HD73 H N N 78 BDC HD81 H N N 79 BDC HD82 H N N 80 BDC HD83 H N N 81 BDC "H4'1" H N N 82 BDC "H4'2" H N N 83 BDC "H3'1" H N N 84 BDC "H3'2" H N N 85 BDC "H2'1" H N N 86 BDC "H2'2" H N N 87 BDC "H1'1" H N N 88 BDC "H1'2" H N N 89 BDC "H9'" H N N 90 BDC "H5'" H N N 91 BDC "H6'" H N N 92 BDC "H7'" H N N 93 BDC "H8'" H N N 94 BDC "H1'" H N N 95 BDC "H2'" H N N 96 BDC "H3'" H N N 97 BDC "HD1'" H N N 98 BDC "H'21" H N N 99 BDC "H'22" H N N 100 BDC "H'31" H N N 101 BDC "H'32" H N N 102 BDC "H'71" H N N 103 BDC "H'72" H N N 104 BDC "H'73" H N N 105 BDC "H'81" H N N 106 BDC "H'82" H N N 107 BDC "H'83" H N N 108 CO CO CO N N 109 DA OP3 O N N 110 DA P P N N 111 DA OP1 O N N 112 DA OP2 O N N 113 DA "O5'" O N N 114 DA "C5'" C N N 115 DA "C4'" C N R 116 DA "O4'" O N N 117 DA "C3'" C N S 118 DA "O3'" O N N 119 DA "C2'" C N N 120 DA "C1'" C N R 121 DA N9 N Y N 122 DA C8 C Y N 123 DA N7 N Y N 124 DA C5 C Y N 125 DA C6 C Y N 126 DA N6 N N N 127 DA N1 N Y N 128 DA C2 C Y N 129 DA N3 N Y N 130 DA C4 C Y N 131 DA HOP3 H N N 132 DA HOP2 H N N 133 DA "H5'" H N N 134 DA "H5''" H N N 135 DA "H4'" H N N 136 DA "H3'" H N N 137 DA "HO3'" H N N 138 DA "H2'" H N N 139 DA "H2''" H N N 140 DA "H1'" H N N 141 DA H8 H N N 142 DA H61 H N N 143 DA H62 H N N 144 DA H2 H N N 145 DC OP3 O N N 146 DC P P N N 147 DC OP1 O N N 148 DC OP2 O N N 149 DC "O5'" O N N 150 DC "C5'" C N N 151 DC "C4'" C N R 152 DC "O4'" O N N 153 DC "C3'" C N S 154 DC "O3'" O N N 155 DC "C2'" C N N 156 DC "C1'" C N R 157 DC N1 N N N 158 DC C2 C N N 159 DC O2 O N N 160 DC N3 N N N 161 DC C4 C N N 162 DC N4 N N N 163 DC C5 C N N 164 DC C6 C N N 165 DC HOP3 H N N 166 DC HOP2 H N N 167 DC "H5'" H N N 168 DC "H5''" H N N 169 DC "H4'" H N N 170 DC "H3'" H N N 171 DC "HO3'" H N N 172 DC "H2'" H N N 173 DC "H2''" H N N 174 DC "H1'" H N N 175 DC H41 H N N 176 DC H42 H N N 177 DC H5 H N N 178 DC H6 H N N 179 DG OP3 O N N 180 DG P P N N 181 DG OP1 O N N 182 DG OP2 O N N 183 DG "O5'" O N N 184 DG "C5'" C N N 185 DG "C4'" C N R 186 DG "O4'" O N N 187 DG "C3'" C N S 188 DG "O3'" O N N 189 DG "C2'" C N N 190 DG "C1'" C N R 191 DG N9 N Y N 192 DG C8 C Y N 193 DG N7 N Y N 194 DG C5 C Y N 195 DG C6 C N N 196 DG O6 O N N 197 DG N1 N N N 198 DG C2 C N N 199 DG N2 N N N 200 DG N3 N N N 201 DG C4 C Y N 202 DG HOP3 H N N 203 DG HOP2 H N N 204 DG "H5'" H N N 205 DG "H5''" H N N 206 DG "H4'" H N N 207 DG "H3'" H N N 208 DG "HO3'" H N N 209 DG "H2'" H N N 210 DG "H2''" H N N 211 DG "H1'" H N N 212 DG H8 H N N 213 DG H1 H N N 214 DG H21 H N N 215 DG H22 H N N 216 DT OP3 O N N 217 DT P P N N 218 DT OP1 O N N 219 DT OP2 O N N 220 DT "O5'" O N N 221 DT "C5'" C N N 222 DT "C4'" C N R 223 DT "O4'" O N N 224 DT "C3'" C N S 225 DT "O3'" O N N 226 DT "C2'" C N N 227 DT "C1'" C N R 228 DT N1 N N N 229 DT C2 C N N 230 DT O2 O N N 231 DT N3 N N N 232 DT C4 C N N 233 DT O4 O N N 234 DT C5 C N N 235 DT C7 C N N 236 DT C6 C N N 237 DT HOP3 H N N 238 DT HOP2 H N N 239 DT "H5'" H N N 240 DT "H5''" H N N 241 DT "H4'" H N N 242 DT "H3'" H N N 243 DT "HO3'" H N N 244 DT "H2'" H N N 245 DT "H2''" H N N 246 DT "H1'" H N N 247 DT H3 H N N 248 DT H71 H N N 249 DT H72 H N N 250 DT H73 H N N 251 DT H6 H N N 252 HOH O O N N 253 HOH H1 H N N 254 HOH H2 H N N 255 # 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 BDC C5 C6 doub Y N 1 BDC C5 C14 sing Y N 2 BDC C5 H5 sing N N 3 BDC C6 C7 sing Y N 4 BDC C6 H6 sing N N 5 BDC C7 C8 doub Y N 6 BDC C7 H7 sing N N 7 BDC C8 C13 sing Y N 8 BDC C8 H8 sing N N 9 BDC C9 C13 doub Y N 10 BDC C9 C11 sing Y N 11 BDC C9 N9 sing N N 12 BDC C1 C2 doub Y N 13 BDC C1 C11 sing Y N 14 BDC C1 H1 sing N N 15 BDC C2 C3 sing Y N 16 BDC C2 H2 sing N N 17 BDC C3 C4 doub Y N 18 BDC C3 H3 sing N N 19 BDC C4 C12 sing Y N 20 BDC C4 CD1 sing N N 21 BDC C14 C13 sing Y N 22 BDC C14 N10 doub Y N 23 BDC C11 C12 doub Y N 24 BDC C12 N10 sing Y N 25 BDC N9 CE1 sing N N 26 BDC N9 H9 sing N N 27 BDC CD1 OD1 doub N N 28 BDC CD1 ND1 sing N N 29 BDC CE1 CE2 sing N N 30 BDC CE1 HE11 sing N N 31 BDC CE1 HE12 sing N N 32 BDC CE3 CE2 sing N N 33 BDC CE3 CE4 sing N N 34 BDC CE3 HE31 sing N N 35 BDC CE3 HE32 sing N N 36 BDC CE2 HE21 sing N N 37 BDC CE2 HE22 sing N N 38 BDC CE4 CF4 sing N N 39 BDC CE4 HE41 sing N N 40 BDC CE4 HE42 sing N N 41 BDC ND1 CD2 sing N N 42 BDC ND1 HD1 sing N N 43 BDC CD2 CD3 sing N N 44 BDC CD2 HD21 sing N N 45 BDC CD2 HD22 sing N N 46 BDC CD3 ND2 sing N N 47 BDC CD3 HD31 sing N N 48 BDC CD3 HD32 sing N N 49 BDC ND2 CD7 sing N N 50 BDC ND2 CD8 sing N N 51 BDC CD7 HD71 sing N N 52 BDC CD7 HD72 sing N N 53 BDC CD7 HD73 sing N N 54 BDC CD8 HD81 sing N N 55 BDC CD8 HD82 sing N N 56 BDC CD8 HD83 sing N N 57 BDC CF4 CF3 sing N N 58 BDC CF4 "H4'1" sing N N 59 BDC CF4 "H4'2" sing N N 60 BDC CF3 CF2 sing N N 61 BDC CF3 "H3'1" sing N N 62 BDC CF3 "H3'2" sing N N 63 BDC CF2 CF1 sing N N 64 BDC CF2 "H2'1" sing N N 65 BDC CF2 "H2'2" sing N N 66 BDC CF1 "N9'" sing N N 67 BDC CF1 "H1'1" sing N N 68 BDC CF1 "H1'2" sing N N 69 BDC "N9'" "C9'" sing N N 70 BDC "N9'" "H9'" sing N N 71 BDC "C5'" "C6'" doub Y N 72 BDC "C5'" "CE'" sing Y N 73 BDC "C5'" "H5'" sing N N 74 BDC "C6'" "C7'" sing Y N 75 BDC "C6'" "H6'" sing N N 76 BDC "C7'" "C8'" doub Y N 77 BDC "C7'" "H7'" sing N N 78 BDC "C8'" "CD'" sing Y N 79 BDC "C8'" "H8'" sing N N 80 BDC "C9'" "CD'" doub Y N 81 BDC "C9'" "CB'" sing Y N 82 BDC "C1'" "C2'" doub Y N 83 BDC "C1'" "CB'" sing Y N 84 BDC "C1'" "H1'" sing N N 85 BDC "C2'" "C3'" sing Y N 86 BDC "C2'" "H2'" sing N N 87 BDC "C3'" "C4'" doub Y N 88 BDC "C3'" "H3'" sing N N 89 BDC "C4'" "CC'" sing Y N 90 BDC "C4'" CB1 sing N N 91 BDC "CE'" "CD'" sing Y N 92 BDC "CE'" "NA'" doub Y N 93 BDC "CB'" "CC'" doub Y N 94 BDC "CC'" "NA'" sing Y N 95 BDC CB1 O1X doub N N 96 BDC CB1 NB1 sing N N 97 BDC NB1 CB2 sing N N 98 BDC NB1 "HD1'" sing N N 99 BDC CB2 CB3 sing N N 100 BDC CB2 "H'21" sing N N 101 BDC CB2 "H'22" sing N N 102 BDC CB3 NB2 sing N N 103 BDC CB3 "H'31" sing N N 104 BDC CB3 "H'32" sing N N 105 BDC NB2 CB7 sing N N 106 BDC NB2 CB8 sing N N 107 BDC CB7 "H'71" sing N N 108 BDC CB7 "H'72" sing N N 109 BDC CB7 "H'73" sing N N 110 BDC CB8 "H'81" sing N N 111 BDC CB8 "H'82" sing N N 112 BDC CB8 "H'83" sing N N 113 DA OP3 P sing N N 114 DA OP3 HOP3 sing N N 115 DA P OP1 doub N N 116 DA P OP2 sing N N 117 DA P "O5'" sing N N 118 DA OP2 HOP2 sing N N 119 DA "O5'" "C5'" sing N N 120 DA "C5'" "C4'" sing N N 121 DA "C5'" "H5'" sing N N 122 DA "C5'" "H5''" sing N N 123 DA "C4'" "O4'" sing N N 124 DA "C4'" "C3'" sing N N 125 DA "C4'" "H4'" sing N N 126 DA "O4'" "C1'" sing N N 127 DA "C3'" "O3'" sing N N 128 DA "C3'" "C2'" sing N N 129 DA "C3'" "H3'" sing N N 130 DA "O3'" "HO3'" sing N N 131 DA "C2'" "C1'" sing N N 132 DA "C2'" "H2'" sing N N 133 DA "C2'" "H2''" sing N N 134 DA "C1'" N9 sing N N 135 DA "C1'" "H1'" sing N N 136 DA N9 C8 sing Y N 137 DA N9 C4 sing Y N 138 DA C8 N7 doub Y N 139 DA C8 H8 sing N N 140 DA N7 C5 sing Y N 141 DA C5 C6 sing Y N 142 DA C5 C4 doub Y N 143 DA C6 N6 sing N N 144 DA C6 N1 doub Y N 145 DA N6 H61 sing N N 146 DA N6 H62 sing N N 147 DA N1 C2 sing Y N 148 DA C2 N3 doub Y N 149 DA C2 H2 sing N N 150 DA N3 C4 sing Y N 151 DC OP3 P sing N N 152 DC OP3 HOP3 sing N N 153 DC P OP1 doub N N 154 DC P OP2 sing N N 155 DC P "O5'" sing N N 156 DC OP2 HOP2 sing N N 157 DC "O5'" "C5'" sing N N 158 DC "C5'" "C4'" sing N N 159 DC "C5'" "H5'" sing N N 160 DC "C5'" "H5''" sing N N 161 DC "C4'" "O4'" sing N N 162 DC "C4'" "C3'" sing N N 163 DC "C4'" "H4'" sing N N 164 DC "O4'" "C1'" sing N N 165 DC "C3'" "O3'" sing N N 166 DC "C3'" "C2'" sing N N 167 DC "C3'" "H3'" sing N N 168 DC "O3'" "HO3'" sing N N 169 DC "C2'" "C1'" sing N N 170 DC "C2'" "H2'" sing N N 171 DC "C2'" "H2''" sing N N 172 DC "C1'" N1 sing N N 173 DC "C1'" "H1'" sing N N 174 DC N1 C2 sing N N 175 DC N1 C6 sing N N 176 DC C2 O2 doub N N 177 DC C2 N3 sing N N 178 DC N3 C4 doub N N 179 DC C4 N4 sing N N 180 DC C4 C5 sing N N 181 DC N4 H41 sing N N 182 DC N4 H42 sing N N 183 DC C5 C6 doub N N 184 DC C5 H5 sing N N 185 DC C6 H6 sing N N 186 DG OP3 P sing N N 187 DG OP3 HOP3 sing N N 188 DG P OP1 doub N N 189 DG P OP2 sing N N 190 DG P "O5'" sing N N 191 DG OP2 HOP2 sing N N 192 DG "O5'" "C5'" sing N N 193 DG "C5'" "C4'" sing N N 194 DG "C5'" "H5'" sing N N 195 DG "C5'" "H5''" sing N N 196 DG "C4'" "O4'" sing N N 197 DG "C4'" "C3'" sing N N 198 DG "C4'" "H4'" sing N N 199 DG "O4'" "C1'" sing N N 200 DG "C3'" "O3'" sing N N 201 DG "C3'" "C2'" sing N N 202 DG "C3'" "H3'" sing N N 203 DG "O3'" "HO3'" sing N N 204 DG "C2'" "C1'" sing N N 205 DG "C2'" "H2'" sing N N 206 DG "C2'" "H2''" sing N N 207 DG "C1'" N9 sing N N 208 DG "C1'" "H1'" sing N N 209 DG N9 C8 sing Y N 210 DG N9 C4 sing Y N 211 DG C8 N7 doub Y N 212 DG C8 H8 sing N N 213 DG N7 C5 sing Y N 214 DG C5 C6 sing N N 215 DG C5 C4 doub Y N 216 DG C6 O6 doub N N 217 DG C6 N1 sing N N 218 DG N1 C2 sing N N 219 DG N1 H1 sing N N 220 DG C2 N2 sing N N 221 DG C2 N3 doub N N 222 DG N2 H21 sing N N 223 DG N2 H22 sing N N 224 DG N3 C4 sing N N 225 DT OP3 P sing N N 226 DT OP3 HOP3 sing N N 227 DT P OP1 doub N N 228 DT P OP2 sing N N 229 DT P "O5'" sing N N 230 DT OP2 HOP2 sing N N 231 DT "O5'" "C5'" sing N N 232 DT "C5'" "C4'" sing N N 233 DT "C5'" "H5'" sing N N 234 DT "C5'" "H5''" sing N N 235 DT "C4'" "O4'" sing N N 236 DT "C4'" "C3'" sing N N 237 DT "C4'" "H4'" sing N N 238 DT "O4'" "C1'" sing N N 239 DT "C3'" "O3'" sing N N 240 DT "C3'" "C2'" sing N N 241 DT "C3'" "H3'" sing N N 242 DT "O3'" "HO3'" sing N N 243 DT "C2'" "C1'" sing N N 244 DT "C2'" "H2'" sing N N 245 DT "C2'" "H2''" sing N N 246 DT "C1'" N1 sing N N 247 DT "C1'" "H1'" sing N N 248 DT N1 C2 sing N N 249 DT N1 C6 sing N N 250 DT C2 O2 doub N N 251 DT C2 N3 sing N N 252 DT N3 C4 sing N N 253 DT N3 H3 sing N N 254 DT C4 O4 doub N N 255 DT C4 C5 sing N N 256 DT C5 C7 sing N N 257 DT C5 C6 doub N N 258 DT C7 H71 sing N N 259 DT C7 H72 sing N N 260 DT C7 H73 sing N N 261 DT C6 H6 sing N N 262 HOH O H1 sing N N 263 HOH O H2 sing N N 264 # _ndb_struct_conf_na.entry_id 1K2L _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 B DC 5 1_555 -0.111 -0.184 -0.730 -25.477 -1.731 -7.410 1 A_DG2:DC5_B A 2 ? B 5 ? 19 1 1 A DT 3 1_555 B DA 4 1_555 -0.631 -0.056 -0.519 4.634 -2.969 -5.287 2 A_DT3:DA4_B A 3 ? B 4 ? 20 1 1 A DA 4 1_555 B DT 3 1_555 -0.058 0.071 -0.047 -3.028 4.782 -0.139 3 A_DA4:DT3_B A 4 ? B 3 ? 20 1 1 A DC 5 1_555 B DG 2 1_555 0.358 -0.143 -0.159 11.249 6.819 0.509 4 A_DC5:DG2_B A 5 ? B 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 B DC 5 1_555 A DT 3 1_555 B DA 4 1_555 -0.880 -0.289 2.537 -2.156 2.179 23.554 -1.266 1.582 2.569 5.308 5.252 23.750 1 AA_DG2DT3:DA4DC5_BB A 2 ? B 5 ? A 3 ? B 4 ? 1 A DT 3 1_555 B DA 4 1_555 A DA 4 1_555 B DT 3 1_555 0.239 -0.499 3.510 -3.572 4.063 39.591 -1.227 -0.787 3.411 5.965 5.243 39.944 2 AA_DT3DA4:DT3DA4_BB A 3 ? B 4 ? A 4 ? B 3 ? 1 A DA 4 1_555 B DT 3 1_555 A DC 5 1_555 B DG 2 1_555 0.209 -0.372 3.041 1.554 6.866 25.834 -2.438 -0.082 2.855 15.005 -3.397 26.760 3 AA_DA4DC5:DG2DT3_BB A 4 ? B 3 ? A 5 ? B 2 ? # _atom_sites.entry_id 1K2L _atom_sites.fract_transf_matrix[1][1] 0.033890 _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] 0.018609 _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] 0.024962 _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 CO N O P # loop_