data_1EKI # _entry.id 1EKI # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.391 _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 1EKI pdb_00001eki 10.2210/pdb1eki/pdb RCSB RCSB010675 ? ? WWPDB D_1000010675 ? ? # 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 2000-03-20 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2011-12-28 5 'Structure model' 2 0 2020-07-29 6 'Structure model' 2 1 2024-05-01 # loop_ _pdbx_audit_revision_details.ordinal _pdbx_audit_revision_details.revision_ordinal _pdbx_audit_revision_details.data_content_type _pdbx_audit_revision_details.provider _pdbx_audit_revision_details.type _pdbx_audit_revision_details.description _pdbx_audit_revision_details.details 1 1 'Structure model' repository 'Initial release' ? ? 2 5 'Structure model' repository Remediation 'Carbohydrate remediation' ? # 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' Advisory 4 5 'Structure model' Advisory 5 5 'Structure model' 'Atomic model' 6 5 'Structure model' 'Data collection' 7 5 'Structure model' 'Derived calculations' 8 5 'Structure model' 'Structure summary' 9 6 'Structure model' 'Data collection' 10 6 'Structure model' 'Database references' 11 6 'Structure model' 'Structure summary' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 5 'Structure model' atom_site 2 5 'Structure model' chem_comp 3 5 'Structure model' database_PDB_caveat 4 5 'Structure model' entity 5 5 'Structure model' pdbx_branch_scheme 6 5 'Structure model' pdbx_chem_comp_identifier 7 5 'Structure model' pdbx_entity_branch 8 5 'Structure model' pdbx_entity_branch_descriptor 9 5 'Structure model' pdbx_entity_branch_link 10 5 'Structure model' pdbx_entity_branch_list 11 5 'Structure model' pdbx_entity_nonpoly 12 5 'Structure model' pdbx_nmr_software 13 5 'Structure model' pdbx_nonpoly_scheme 14 5 'Structure model' pdbx_struct_assembly_gen 15 5 'Structure model' pdbx_struct_conn_angle 16 5 'Structure model' pdbx_unobs_or_zero_occ_atoms 17 5 'Structure model' pdbx_validate_close_contact 18 5 'Structure model' struct_asym 19 5 'Structure model' struct_conn 20 5 'Structure model' struct_site 21 5 'Structure model' struct_site_gen 22 6 'Structure model' chem_comp 23 6 'Structure model' chem_comp_atom 24 6 'Structure model' chem_comp_bond 25 6 'Structure model' database_2 # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 5 'Structure model' '_atom_site.B_iso_or_equiv' 2 5 'Structure model' '_atom_site.Cartn_x' 3 5 'Structure model' '_atom_site.Cartn_y' 4 5 'Structure model' '_atom_site.Cartn_z' 5 5 'Structure model' '_atom_site.auth_asym_id' 6 5 'Structure model' '_atom_site.auth_atom_id' 7 5 'Structure model' '_atom_site.auth_comp_id' 8 5 'Structure model' '_atom_site.auth_seq_id' 9 5 'Structure model' '_atom_site.label_asym_id' 10 5 'Structure model' '_atom_site.label_atom_id' 11 5 'Structure model' '_atom_site.label_comp_id' 12 5 'Structure model' '_atom_site.label_entity_id' 13 5 'Structure model' '_atom_site.type_symbol' 14 5 'Structure model' '_chem_comp.mon_nstd_flag' 15 5 'Structure model' '_chem_comp.name' 16 5 'Structure model' '_chem_comp.type' 17 5 'Structure model' '_pdbx_nmr_software.name' 18 5 'Structure model' '_pdbx_struct_assembly_gen.asym_id_list' 19 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 20 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 21 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 22 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 23 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 24 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 25 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 26 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 27 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 28 5 'Structure model' '_pdbx_struct_conn_angle.value' 29 5 'Structure model' '_pdbx_validate_close_contact.auth_asym_id_1' 30 5 'Structure model' '_pdbx_validate_close_contact.auth_asym_id_2' 31 5 'Structure model' '_pdbx_validate_close_contact.auth_atom_id_1' 32 5 'Structure model' '_pdbx_validate_close_contact.auth_atom_id_2' 33 5 'Structure model' '_pdbx_validate_close_contact.auth_comp_id_1' 34 5 'Structure model' '_pdbx_validate_close_contact.auth_comp_id_2' 35 5 'Structure model' '_pdbx_validate_close_contact.auth_seq_id_1' 36 5 'Structure model' '_pdbx_validate_close_contact.auth_seq_id_2' 37 6 'Structure model' '_chem_comp.pdbx_synonyms' 38 6 'Structure model' '_database_2.pdbx_DOI' 39 6 'Structure model' '_database_2.pdbx_database_accession' # loop_ _database_PDB_caveat.id _database_PDB_caveat.text 1 ;DA A 8 HAS WRONG CHIRALITY AT ATOM C3' ; 2 ;DA B 18 HAS WRONG CHIRALITY AT ATOM C3' ; 3 ;CPH A 33 HAS WRONG CHIRALITY AT ATOM C1' ; # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1EKI _pdbx_database_status.recvd_initial_deposition_date 2000-03-08 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1ekh 'Family of 6 structures' unspecified PDB 1d83 . unspecified # _audit_author.name 'Gochin, M.' _audit_author.pdbx_ordinal 1 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary 'A high-resolution structure of a DNA-chromomycin-Co(II) complex determined from pseudocontact shifts in nuclear magnetic resonance.' 'Structure Fold.Des.' 8 441 452 2000 FODEFH UK 0969-2126 1263 ? 10801486 '10.1016/S0969-2126(00)00124-6' 1 'Structure determination by restrained molecular dynamics using NMR pseudocontact shifts as experimentally determined constraints' J.Am.Chem.Soc. 121 9276 9285 1999 JACSAT US 0002-7863 0004 ? ? 10.1021/ja9904540 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Gochin, M.' 1 ? 1 'Tu, K.' 2 ? 1 'Gochin, M.' 3 ? # 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 ;DNA (5'-D(*TP*TP*GP*GP*CP*CP*AP*A)-3') ; 2426.617 2 ? ? ? 'TWO MOLECULES OF THE DRUG CHROMOMYCIN A3 (1GL-2GL-DXB-DDA-DDA-1AR, CHAINS C, AND D) ARE BOUND IN THE MINOR GROOVE' 2 branched man '2,6-dideoxy-4-O-methyl-alpha-D-galactopyranose-(1-3)-4-O-acetyl-2,6-dideoxy-beta-D-galactopyranose' 334.363 2 ? ? ? ? 3 branched man '3-C-methyl-4-O-acetyl-alpha-L-Olivopyranose-(1-3)-beta-D-Olivopyranose-(1-3)-beta-D-Olivopyranose' 464.504 2 ? ? ? ? 4 non-polymer syn 'COBALT (II) ION' 58.933 1 ? ? ? ? 5 non-polymer syn '(1S)-5-deoxy-1-O-methyl-1-C-[(2R,3S)-3,5,7,10-tetrahydroxy-6-methyl-4-oxo-1,2,3,4-tetrahydroanthracen-2-yl]-D-xylulose' 420.410 2 ? ? ? ? # _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 '(DT)(DT)(DG)(DG)(DC)(DC)(DA)(DA)' _entity_poly.pdbx_seq_one_letter_code_can TTGGCCAA _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 4 'COBALT (II) ION' CO 5 '(1S)-5-deoxy-1-O-methyl-1-C-[(2R,3S)-3,5,7,10-tetrahydroxy-6-methyl-4-oxo-1,2,3,4-tetrahydroanthracen-2-yl]-D-xylulose' CPH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DT n 1 2 DT n 1 3 DG n 1 4 DG n 1 5 DC n 1 6 DC n 1 7 DA n 1 8 DA n # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide # loop_ _pdbx_entity_branch_descriptor.ordinal _pdbx_entity_branch_descriptor.entity_id _pdbx_entity_branch_descriptor.descriptor _pdbx_entity_branch_descriptor.type _pdbx_entity_branch_descriptor.program _pdbx_entity_branch_descriptor.program_version 1 2 'WURCS=2.0/2,2,1/[ad112m-1b_1-5_4*OCC/3=O][ad112m-1a_1-5_4*OC]/1-2/a3-b1' WURCS PDB2Glycan 1.1.0 2 2 '[][b-D-2-deoxy-Fucp4Ac]{[(3+1)][a-D-2-deoxy-Fucp4Me]{}}' LINUCS PDB-CARE ? 3 3 'WURCS=2.0/2,3,2/[ad122m-1b_1-5][ad611m-1a_1-5_3*C_4*OCC/3=O]/1-1-2/a3-b1_b3-c1' WURCS PDB2Glycan 1.1.0 4 3 '[][b-D-2,6-deoxy-Glcp]{[(3+1)][b-D-2,6-deoxy-Glcp]{[(3+1)][a-L-2,6-deoxy-Glcp4Ac]{}}}' LINUCS PDB-CARE ? # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.value_order _pdbx_entity_branch_link.details 1 2 2 1GL C1 O1 1 2GL O3 HO3 sing ? 2 3 2 DDA C1 O1 1 DDA O3 HO3 sing ? 3 3 3 ERI C1 O1 2 DDA O3 HO3 sing ? # 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 1GL 'D-saccharide, alpha linking' . 2,6-dideoxy-4-O-methyl-alpha-D-galactopyranose ;4-O-METHYL-2,6-DIDEOXY-ALPHA-D-GALACTO-HEXOPYRANOSE; 2-deoxy-4-O-methyl-alpha-D-fucopyranose; 2,6-dideoxy-4-O-methyl-alpha-D-galactose; 2,6-dideoxy-4-O-methyl-D-galactose; 2,6-dideoxy-4-O-methyl-galactose ; 'C7 H14 O4' 162.184 2GL 'D-saccharide, beta linking' . 4-O-acetyl-2,6-dideoxy-beta-D-galactopyranose ;4-O-ACETYL-2,6-DIDEOXY-ALPHA-D-GALACTO-HEXOPYRANOSE; 4-O-acetyl-2,6-dideoxy-beta-D-galactose; 4-O-acetyl-2,6-dideoxy-D-galactose; 4-O-acetyl-2,6-dideoxy-galactose ; 'C8 H14 O5' 190.194 CO non-polymer . 'COBALT (II) ION' ? 'Co 2' 58.933 CPH non-polymer . '(1S)-5-deoxy-1-O-methyl-1-C-[(2R,3S)-3,5,7,10-tetrahydroxy-6-methyl-4-oxo-1,2,3,4-tetrahydroanthracen-2-yl]-D-xylulose' None 'C21 H24 O9' 420.410 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 DDA 'D-saccharide, beta linking' . beta-D-Olivopyranose ;beta-D-Olivose; 2,6-dideoxy-beta-D-arabino-hexopyranose; 2,6-dideoxy-beta-D-glucopyranose; 2,6-dideoxy-beta-D-mannopyranose; 2-deoxy-beta-D-quinovopyranose; 2-deoxy-beta-D-rhamnoopyranose; D-Olivose; Olivose; 2,6-DIDEOXY-BETA-D-GLUCOSE; 2,6-DIDEOXY-BETA-D-MANNOSE ; 'C6 H12 O4' 148.157 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 ERI 'L-saccharide, alpha linking' n 3-C-methyl-4-O-acetyl-alpha-L-Olivopyranose ;4-O-ACETYL-2,6-DIDEOXY-3-C-METHYL-BETA-L-ARABINO-HEXOPYRANOSE; 3-C-methyl-4-O-acetyl-alpha-L-Olivose; 3-C-methyl-4-O-acetyl-L-Olivose; 3-C-methyl-4-O-acetyl-Olivose ; 'C9 H16 O5' 204.220 # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier 1GL 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 a-D-2-deoxy-Fucp4OMe DDA 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1.0 DOlib DDA 'COMMON NAME' GMML 1.0 b-D-Olivopyranose DDA 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 b-D-2,6-deoxy-Glcp DDA 'SNFG CARBOHYDRATE SYMBOL' GMML 1.0 Oli # 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 DT 1 1 1 DT DT A . n A 1 2 DT 2 2 2 DT DT A . n A 1 3 DG 3 3 3 DG DG A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DC 5 5 5 DC DC A . n A 1 6 DC 6 6 6 DC DC A . n A 1 7 DA 7 7 7 DA DA A . n A 1 8 DA 8 8 8 DA DA A . n B 1 1 DT 1 11 11 DT DT B . n B 1 2 DT 2 12 12 DT DT B . n B 1 3 DG 3 13 13 DG DG B . n B 1 4 DG 4 14 14 DG DG B . n B 1 5 DC 5 15 15 DC DC B . n B 1 6 DC 6 16 16 DC DC B . n B 1 7 DA 7 17 17 DA DA B . n B 1 8 DA 8 18 18 DA DA B . n # loop_ _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_mon_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.hetero C 2 2GL 1 C 2GL 1 A 2GL 32 n C 2 1GL 2 C 1GL 2 A 1GL 31 n D 2 2GL 1 D 2GL 1 B 2GL 22 n D 2 1GL 2 D 1GL 2 B 1GL 21 n E 3 DDA 1 E DDA 1 B DDA 26 n E 3 DDA 2 E DDA 2 B DDA 25 n E 3 ERI 3 E ERI 3 B ERI 24 n F 3 DDA 1 F DDA 1 B DDA 36 n F 3 DDA 2 F DDA 2 B DDA 35 n F 3 ERI 3 F ERI 3 B ERI 34 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 G 4 CO 1 41 41 CO CO A . H 5 CPH 1 33 33 CPH CPH A . I 5 CPH 1 23 23 CPH CPH 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 N 1 A CPH 33 ? O6 ? H CPH 1 O6 2 1 N 1 A CPH 33 ? O2 ? H CPH 1 O2 3 1 N 1 B CPH 23 ? O6 ? I CPH 1 O6 4 1 N 1 B CPH 23 ? O2 ? I CPH 1 O2 # _cell.entry_id 1EKI _cell.length_a 1.000 _cell.length_b 1.000 _cell.length_c 1.000 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1EKI _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # _exptl.entry_id 1EKI _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _database_PDB_matrix.entry_id 1EKI _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 1EKI _struct.title 'AVERAGE SOLUTION STRUCTURE OF D(TTGGCCAA)2 BOUND TO CHROMOMYCIN-A3 AND COBALT' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details 'minimized average' # _struct_keywords.entry_id 1EKI _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'drug bound in the minor groove of DNA, DNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 3 ? F N N 3 ? G N N 4 ? H N N 5 ? I N N 5 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1EKI _struct_ref.pdbx_db_accession 1EKI _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1EKI A 1 ? 8 ? 1EKI 1 ? 8 ? 1 8 2 1 1EKI B 1 ? 8 ? 1EKI 11 ? 18 ? 11 18 # _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,H,I # _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.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 covale1 covale both ? C 2GL . O3 ? ? ? 1_555 C 1GL . C1 ? ? C 2GL 1 C 1GL 2 1_555 ? ? ? ? ? ? ? 1.455 sing ? covale2 covale both ? D 2GL . O3 ? ? ? 1_555 D 1GL . C1 ? ? D 2GL 1 D 1GL 2 1_555 ? ? ? ? ? ? ? 1.453 sing ? covale3 covale both ? E DDA . O3 ? ? ? 1_555 E DDA . C1 ? ? E DDA 1 E DDA 2 1_555 ? ? ? ? ? ? ? 1.422 sing ? covale4 covale both ? E DDA . O3 ? ? ? 1_555 E ERI . C1 ? ? E DDA 2 E ERI 3 1_555 ? ? ? ? ? ? ? 1.433 sing ? covale5 covale both ? F DDA . O3 ? ? ? 1_555 F DDA . C1 ? ? F DDA 1 F DDA 2 1_555 ? ? ? ? ? ? ? 1.425 sing ? covale6 covale both ? F DDA . O3 ? ? ? 1_555 F ERI . C1 ? ? F DDA 2 F ERI 3 1_555 ? ? ? ? ? ? ? 1.440 sing ? metalc1 metalc ? ? H CPH . O9 ? ? ? 1_555 G CO . CO ? ? A CPH 33 A CO 41 1_555 ? ? ? ? ? ? ? 1.902 ? ? metalc2 metalc ? ? H CPH . O1 ? ? ? 1_555 G CO . CO ? ? A CPH 33 A CO 41 1_555 ? ? ? ? ? ? ? 1.931 ? ? metalc3 metalc ? ? H CPH . C9 ? ? ? 1_555 G CO . CO ? ? A CPH 33 A CO 41 1_555 ? ? ? ? ? ? ? 2.408 ? ? metalc4 metalc ? ? H CPH . C1 ? ? ? 1_555 G CO . CO ? ? A CPH 33 A CO 41 1_555 ? ? ? ? ? ? ? 2.754 ? ? metalc5 metalc ? ? G CO . CO ? ? ? 1_555 I CPH . O9 ? ? A CO 41 B CPH 23 1_555 ? ? ? ? ? ? ? 1.912 ? ? metalc6 metalc ? ? G CO . CO ? ? ? 1_555 I CPH . O1 ? ? A CO 41 B CPH 23 1_555 ? ? ? ? ? ? ? 1.863 ? ? metalc7 metalc ? ? G CO . CO ? ? ? 1_555 I CPH . C9 ? ? A CO 41 B CPH 23 1_555 ? ? ? ? ? ? ? 2.570 ? ? metalc8 metalc ? ? G CO . CO ? ? ? 1_555 I CPH . C1 ? ? A CO 41 B CPH 23 1_555 ? ? ? ? ? ? ? 2.765 ? ? hydrog1 hydrog ? ? A DT 1 N3 ? ? ? 1_555 B DA 8 N1 ? ? A DT 1 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DT 1 O4 ? ? ? 1_555 B DA 8 N6 ? ? A DT 1 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DT 2 N3 ? ? ? 1_555 B DA 7 N1 ? ? A DT 2 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DT 2 O4 ? ? ? 1_555 B DA 7 N6 ? ? A DT 2 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 6 N3 ? ? A DG 3 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 6 O2 ? ? A DG 3 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 6 N4 ? ? A DG 3 B DC 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 5 N3 ? ? A DG 4 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 5 O2 ? ? A DG 4 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 5 N4 ? ? A DG 4 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 5 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 5 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 5 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 5 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 6 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 6 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 6 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 6 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 6 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 6 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DA 7 N1 ? ? ? 1_555 B DT 2 N3 ? ? A DA 7 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DA 7 N6 ? ? ? 1_555 B DT 2 O4 ? ? A DA 7 B DT 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DA 8 N1 ? ? ? 1_555 B DT 1 N3 ? ? A DA 8 B DT 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DA 8 N6 ? ? ? 1_555 B DT 1 O4 ? ? A DA 8 B DT 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? 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 O9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 O1 ? H CPH . ? A CPH 33 ? 1_555 102.5 ? 2 O9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C9 ? H CPH . ? A CPH 33 ? 1_555 35.6 ? 3 O1 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C9 ? H CPH . ? A CPH 33 ? 1_555 83.5 ? 4 O9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C1 ? H CPH . ? A CPH 33 ? 1_555 85.3 ? 5 O1 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C1 ? H CPH . ? A CPH 33 ? 1_555 22.9 ? 6 C9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C1 ? H CPH . ? A CPH 33 ? 1_555 61.2 ? 7 O9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 O9 ? I CPH . ? B CPH 23 ? 1_555 120.4 ? 8 O1 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 O9 ? I CPH . ? B CPH 23 ? 1_555 115.3 ? 9 C9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 O9 ? I CPH . ? B CPH 23 ? 1_555 155.1 ? 10 C1 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 O9 ? I CPH . ? B CPH 23 ? 1_555 138.1 ? 11 O9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 O1 ? I CPH . ? B CPH 23 ? 1_555 127.9 ? 12 O1 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 O1 ? I CPH . ? B CPH 23 ? 1_555 88.0 ? 13 C9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 O1 ? I CPH . ? B CPH 23 ? 1_555 97.9 ? 14 C1 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 O1 ? I CPH . ? B CPH 23 ? 1_555 86.6 ? 15 O9 ? I CPH . ? B CPH 23 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 O1 ? I CPH . ? B CPH 23 ? 1_555 98.9 ? 16 O9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C9 ? I CPH . ? B CPH 23 ? 1_555 151.5 ? 17 O1 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C9 ? I CPH . ? B CPH 23 ? 1_555 90.9 ? 18 C9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C9 ? I CPH . ? B CPH 23 ? 1_555 172.6 ? 19 C1 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C9 ? I CPH . ? B CPH 23 ? 1_555 112.8 ? 20 O9 ? I CPH . ? B CPH 23 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C9 ? I CPH . ? B CPH 23 ? 1_555 32.3 ? 21 O1 ? I CPH . ? B CPH 23 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C9 ? I CPH . ? B CPH 23 ? 1_555 77.0 ? 22 O9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C1 ? I CPH . ? B CPH 23 ? 1_555 146.1 ? 23 O1 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C1 ? I CPH . ? B CPH 23 ? 1_555 91.8 ? 24 C9 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C1 ? I CPH . ? B CPH 23 ? 1_555 118.8 ? 25 C1 ? H CPH . ? A CPH 33 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C1 ? I CPH . ? B CPH 23 ? 1_555 98.1 ? 26 O9 ? I CPH . ? B CPH 23 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C1 ? I CPH . ? B CPH 23 ? 1_555 78.7 ? 27 O1 ? I CPH . ? B CPH 23 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C1 ? I CPH . ? B CPH 23 ? 1_555 20.9 ? 28 C9 ? I CPH . ? B CPH 23 ? 1_555 CO ? G CO . ? A CO 41 ? 1_555 C1 ? I CPH . ? B CPH 23 ? 1_555 56.3 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O1 D 2GL 1 ? ? C6 B CPH 23 ? ? 1.41 2 1 O1 C 2GL 1 ? ? C6 A CPH 33 ? ? 1.42 3 1 O1 E DDA 1 ? ? C2 B CPH 23 ? ? 1.42 4 1 O1 F DDA 1 ? ? C2 A CPH 33 ? ? 1.45 5 1 O2 A DC 6 ? ? H21 B DG 13 ? ? 1.59 # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DT 1 ? ? "C1'" A DT 1 ? ? N1 A DT 1 ? ? 110.92 108.30 2.62 0.30 N 2 1 C6 A DT 1 ? ? C5 A DT 1 ? ? C7 A DT 1 ? ? 119.28 122.90 -3.62 0.60 N 3 1 "O4'" A DT 2 ? ? "C1'" A DT 2 ? ? N1 A DT 2 ? ? 111.12 108.30 2.82 0.30 N 4 1 "C4'" A DG 3 ? ? "C3'" A DG 3 ? ? "C2'" A DG 3 ? ? 92.34 102.20 -9.86 0.70 N 5 1 "C3'" A DG 3 ? ? "O3'" A DG 3 ? ? P A DG 4 ? ? 137.29 119.70 17.59 1.20 Y 6 1 P A DG 4 ? ? "O5'" A DG 4 ? ? "C5'" A DG 4 ? ? 138.96 120.90 18.06 1.60 N 7 1 N3 A DG 4 ? ? C2 A DG 4 ? ? N2 A DG 4 ? ? 125.15 119.90 5.25 0.70 N 8 1 "C3'" A DG 4 ? ? "O3'" A DG 4 ? ? P A DC 5 ? ? 129.34 119.70 9.64 1.20 Y 9 1 "C4'" A DC 5 ? ? "C3'" A DC 5 ? ? "C2'" A DC 5 ? ? 97.54 102.20 -4.66 0.70 N 10 1 "O4'" A DC 5 ? ? "C1'" A DC 5 ? ? N1 A DC 5 ? ? 111.48 108.30 3.18 0.30 N 11 1 P A DA 7 ? ? "O5'" A DA 7 ? ? "C5'" A DA 7 ? ? 131.88 120.90 10.98 1.60 N 12 1 "C3'" A DA 7 ? ? "O3'" A DA 7 ? ? P A DA 8 ? ? 135.84 119.70 16.14 1.20 Y 13 1 "O4'" B DT 11 ? ? "C1'" B DT 11 ? ? N1 B DT 11 ? ? 110.97 108.30 2.67 0.30 N 14 1 C6 B DT 11 ? ? C5 B DT 11 ? ? C7 B DT 11 ? ? 119.19 122.90 -3.71 0.60 N 15 1 "O4'" B DT 12 ? ? "C1'" B DT 12 ? ? N1 B DT 12 ? ? 111.18 108.30 2.88 0.30 N 16 1 P B DG 13 ? ? "O5'" B DG 13 ? ? "C5'" B DG 13 ? ? 130.79 120.90 9.89 1.60 N 17 1 "C4'" B DG 13 ? ? "C3'" B DG 13 ? ? "C2'" B DG 13 ? ? 92.36 102.20 -9.84 0.70 N 18 1 "C3'" B DG 13 ? ? "O3'" B DG 13 ? ? P B DG 14 ? ? 136.97 119.70 17.27 1.20 Y 19 1 P B DG 14 ? ? "O5'" B DG 14 ? ? "C5'" B DG 14 ? ? 138.49 120.90 17.59 1.60 N 20 1 N3 B DG 14 ? ? C2 B DG 14 ? ? N2 B DG 14 ? ? 125.53 119.90 5.63 0.70 N 21 1 "C3'" B DG 14 ? ? "O3'" B DG 14 ? ? P B DC 15 ? ? 128.31 119.70 8.61 1.20 Y 22 1 "C4'" B DC 15 ? ? "C3'" B DC 15 ? ? "C2'" B DC 15 ? ? 96.92 102.20 -5.28 0.70 N 23 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 111.58 108.30 3.28 0.30 N 24 1 "O4'" B DC 16 ? ? "C1'" B DC 16 ? ? N1 B DC 16 ? ? 110.56 108.30 2.26 0.30 N 25 1 "C3'" B DA 17 ? ? "O3'" B DA 17 ? ? P B DA 18 ? ? 135.78 119.70 16.08 1.20 Y # loop_ _pdbx_validate_chiral.id _pdbx_validate_chiral.PDB_model_num _pdbx_validate_chiral.auth_atom_id _pdbx_validate_chiral.label_alt_id _pdbx_validate_chiral.auth_asym_id _pdbx_validate_chiral.auth_comp_id _pdbx_validate_chiral.auth_seq_id _pdbx_validate_chiral.PDB_ins_code _pdbx_validate_chiral.details _pdbx_validate_chiral.omega 1 1 "C3'" ? A DA 8 ? 'WRONG HAND' . 2 1 "C3'" ? B DA 18 ? 'WRONG HAND' . 3 1 "C1'" ? A CPH 33 ? PLANAR . # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DT A 2 ? ? 0.096 'SIDE CHAIN' 2 1 DA A 7 ? ? 0.078 'SIDE CHAIN' 3 1 DT B 12 ? ? 0.097 'SIDE CHAIN' 4 1 DG B 14 ? ? 0.057 'SIDE CHAIN' # _pdbx_nmr_ensemble.entry_id 1EKI _pdbx_nmr_ensemble.conformers_calculated_total_number 1 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria 'average structure' _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.entry_id 1EKI _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'minimized average structure' # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '2mM DNA-drug complex, 25 degrees C, in buffer (100mM NaCl, 10mM Na borate), final PH 6.' _pdbx_nmr_sample_details.solvent_system '90% H2O/10% D2O' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 6 _pdbx_nmr_exptl_sample_conditions.ionic_strength 110mM _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 1 '2D NOESY' 2 1 1 '13C-1H HMQC' # _pdbx_nmr_details.entry_id 1EKI _pdbx_nmr_details.text 'This structure was determined using standard 2D homonuclear techniques as well as 2D 13C-1H heteronuclear correlation' # _pdbx_nmr_refine.entry_id 1EKI _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ;molecular dynamics, isolated spin-pair approximation for NOE's; pseudocontact shift refinement ; _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal NMRPipe 1.7 processing 'DeLaglio and Bax' 1 Sparky 3.0 'data analysis' 'Kneller and Goddard' 2 X-PLOR '3.0, 3.851' refinement 'Brunger (modified Gochin and Tu)' 3 Felix 2.1 'data analysis' Biosym 4 # 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 1GL O1 O N N 1 1GL C1 C N S 2 1GL C2 C N N 3 1GL C3 C N R 4 1GL O3 O N N 5 1GL C4 C N R 6 1GL O4 O N N 7 1GL CME C N N 8 1GL C5 C N R 9 1GL O5 O N N 10 1GL C6 C N N 11 1GL HO1 H N N 12 1GL H1 H N N 13 1GL H2 H N N 14 1GL H22 H N N 15 1GL H3 H N N 16 1GL HO3 H N N 17 1GL H4 H N N 18 1GL HM41 H N N 19 1GL HM42 H N N 20 1GL HM43 H N N 21 1GL H5 H N N 22 1GL H61 H N N 23 1GL H62 H N N 24 1GL H63 H N N 25 2GL O5 O N N 26 2GL C1 C N R 27 2GL C2 C N N 28 2GL C3 C N R 29 2GL O3 O N N 30 2GL C4 C N R 31 2GL O4 O N N 32 2GL CME C N N 33 2GL CO4 C N N 34 2GL OC4 O N N 35 2GL C5 C N R 36 2GL O1 O N N 37 2GL C6 C N N 38 2GL HO1 H N N 39 2GL H1 H N N 40 2GL H2 H N N 41 2GL H22 H N N 42 2GL H3 H N N 43 2GL HO3 H N N 44 2GL H4 H N N 45 2GL HM41 H N N 46 2GL HM42 H N N 47 2GL HM43 H N N 48 2GL H5 H N N 49 2GL H61 H N N 50 2GL H62 H N N 51 2GL H63 H N N 52 CO CO CO N N 53 CPH C1 C N N 54 CPH O1 O N N 55 CPH C2 C N S 56 CPH C3 C N R 57 CPH C4 C N N 58 CPH C5 C Y N 59 CPH C6 C Y N 60 CPH C7 C Y N 61 CPH C8 C Y N 62 CPH O8 O N N 63 CPH C9 C Y N 64 CPH O9 O N N 65 CPH "C1'" C N S 66 CPH "O1'" O N N 67 CPH C10 C Y N 68 CPH "C2'" C N N 69 CPH "O2'" O N N 70 CPH "C3'" C N S 71 CPH "O3'" O N N 72 CPH "C4'" C N R 73 CPH "O4'" O N N 74 CPH C4A C Y N 75 CPH "C5'" C N N 76 CPH C5A C Y N 77 CPH C8A C Y N 78 CPH C9A C Y N 79 CPH CC7 C N N 80 CPH O6 O N N 81 CPH O2 O N N 82 CPH CME C N N 83 CPH H2 H N N 84 CPH H3 H N N 85 CPH H4 H N N 86 CPH H4A H N N 87 CPH H5 H N N 88 CPH HO8 H N N 89 CPH HO9 H N N 90 CPH "H1'" H N N 91 CPH H10 H N N 92 CPH "H3'" H N N 93 CPH "HO3'" H N N 94 CPH "H4'" H N N 95 CPH "HO4'" H N N 96 CPH "H5'" H N N 97 CPH "H5'A" H N N 98 CPH "H5'B" H N N 99 CPH HC7 H N N 100 CPH HC7A H N N 101 CPH HC7B H N N 102 CPH HO6 H N N 103 CPH HO2 H N N 104 CPH HME H N N 105 CPH HMEA H N N 106 CPH HMEB H N N 107 DA OP3 O N N 108 DA P P N N 109 DA OP1 O N N 110 DA OP2 O N N 111 DA "O5'" O N N 112 DA "C5'" C N N 113 DA "C4'" C N R 114 DA "O4'" O N N 115 DA "C3'" C N S 116 DA "O3'" O N N 117 DA "C2'" C N N 118 DA "C1'" C N R 119 DA N9 N Y N 120 DA C8 C Y N 121 DA N7 N Y N 122 DA C5 C Y N 123 DA C6 C Y N 124 DA N6 N N N 125 DA N1 N Y N 126 DA C2 C Y N 127 DA N3 N Y N 128 DA C4 C Y N 129 DA HOP3 H N N 130 DA HOP2 H N N 131 DA "H5'" H N N 132 DA "H5''" H N N 133 DA "H4'" H N N 134 DA "H3'" H N N 135 DA "HO3'" H N N 136 DA "H2'" H N N 137 DA "H2''" H N N 138 DA "H1'" H N N 139 DA H8 H N N 140 DA H61 H N N 141 DA H62 H N N 142 DA H2 H N N 143 DC OP3 O N N 144 DC P P N N 145 DC OP1 O N N 146 DC OP2 O N N 147 DC "O5'" O N N 148 DC "C5'" C N N 149 DC "C4'" C N R 150 DC "O4'" O N N 151 DC "C3'" C N S 152 DC "O3'" O N N 153 DC "C2'" C N N 154 DC "C1'" C N R 155 DC N1 N N N 156 DC C2 C N N 157 DC O2 O N N 158 DC N3 N N N 159 DC C4 C N N 160 DC N4 N N N 161 DC C5 C N N 162 DC C6 C N N 163 DC HOP3 H N N 164 DC HOP2 H N N 165 DC "H5'" H N N 166 DC "H5''" H N N 167 DC "H4'" H N N 168 DC "H3'" H N N 169 DC "HO3'" H N N 170 DC "H2'" H N N 171 DC "H2''" H N N 172 DC "H1'" H N N 173 DC H41 H N N 174 DC H42 H N N 175 DC H5 H N N 176 DC H6 H N N 177 DDA C1 C N R 178 DDA C2 C N N 179 DDA C3 C N R 180 DDA C4 C N S 181 DDA C5 C N R 182 DDA C6 C N N 183 DDA O5 O N N 184 DDA O1 O N N 185 DDA O3 O N N 186 DDA O4 O N N 187 DDA H1 H N N 188 DDA H21 H N N 189 DDA H22 H N N 190 DDA H3 H N N 191 DDA H4 H N N 192 DDA H5 H N N 193 DDA H61 H N N 194 DDA H62 H N N 195 DDA H63 H N N 196 DDA HO1 H N N 197 DDA HO3 H N N 198 DDA HO4 H N N 199 DG OP3 O N N 200 DG P P N N 201 DG OP1 O N N 202 DG OP2 O N N 203 DG "O5'" O N N 204 DG "C5'" C N N 205 DG "C4'" C N R 206 DG "O4'" O N N 207 DG "C3'" C N S 208 DG "O3'" O N N 209 DG "C2'" C N N 210 DG "C1'" C N R 211 DG N9 N Y N 212 DG C8 C Y N 213 DG N7 N Y N 214 DG C5 C Y N 215 DG C6 C N N 216 DG O6 O N N 217 DG N1 N N N 218 DG C2 C N N 219 DG N2 N N N 220 DG N3 N N N 221 DG C4 C Y N 222 DG HOP3 H N N 223 DG HOP2 H N N 224 DG "H5'" H N N 225 DG "H5''" H N N 226 DG "H4'" H N N 227 DG "H3'" H N N 228 DG "HO3'" H N N 229 DG "H2'" H N N 230 DG "H2''" H N N 231 DG "H1'" H N N 232 DG H8 H N N 233 DG H1 H N N 234 DG H21 H N N 235 DG H22 H N N 236 DT OP3 O N N 237 DT P P N N 238 DT OP1 O N N 239 DT OP2 O N N 240 DT "O5'" O N N 241 DT "C5'" C N N 242 DT "C4'" C N R 243 DT "O4'" O N N 244 DT "C3'" C N S 245 DT "O3'" O N N 246 DT "C2'" C N N 247 DT "C1'" C N R 248 DT N1 N N N 249 DT C2 C N N 250 DT O2 O N N 251 DT N3 N N N 252 DT C4 C N N 253 DT O4 O N N 254 DT C5 C N N 255 DT C7 C N N 256 DT C6 C N N 257 DT HOP3 H N N 258 DT HOP2 H N N 259 DT "H5'" H N N 260 DT "H5''" H N N 261 DT "H4'" H N N 262 DT "H3'" H N N 263 DT "HO3'" H N N 264 DT "H2'" H N N 265 DT "H2''" H N N 266 DT "H1'" H N N 267 DT H3 H N N 268 DT H71 H N N 269 DT H72 H N N 270 DT H73 H N N 271 DT H6 H N N 272 ERI O1 O N N 273 ERI C1 C N R 274 ERI C2 C N N 275 ERI C3 C N S 276 ERI O3 O N N 277 ERI CC3 C N N 278 ERI C4 C N S 279 ERI O4 O N N 280 ERI CME C N N 281 ERI CO4 C N N 282 ERI OC4 O N N 283 ERI C5 C N S 284 ERI O5 O N N 285 ERI C6 C N N 286 ERI HO1 H N N 287 ERI H1 H N N 288 ERI H21 H N N 289 ERI H22 H N N 290 ERI HO3 H N N 291 ERI H31 H N N 292 ERI H32 H N N 293 ERI H33 H N N 294 ERI H4 H N N 295 ERI H41 H N N 296 ERI H42 H N N 297 ERI H43 H N N 298 ERI H5 H N N 299 ERI H61 H N N 300 ERI H62 H N N 301 ERI H63 H N N 302 # 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 1GL O1 C1 sing N N 1 1GL O1 HO1 sing N N 2 1GL C1 C2 sing N N 3 1GL C1 O5 sing N N 4 1GL C1 H1 sing N N 5 1GL C2 C3 sing N N 6 1GL C2 H2 sing N N 7 1GL C2 H22 sing N N 8 1GL C3 O3 sing N N 9 1GL C3 C4 sing N N 10 1GL C3 H3 sing N N 11 1GL O3 HO3 sing N N 12 1GL C4 O4 sing N N 13 1GL C4 C5 sing N N 14 1GL C4 H4 sing N N 15 1GL O4 CME sing N N 16 1GL CME HM41 sing N N 17 1GL CME HM42 sing N N 18 1GL CME HM43 sing N N 19 1GL C5 O5 sing N N 20 1GL C5 C6 sing N N 21 1GL C5 H5 sing N N 22 1GL C6 H61 sing N N 23 1GL C6 H62 sing N N 24 1GL C6 H63 sing N N 25 2GL O5 C1 sing N N 26 2GL O1 HO1 sing N N 27 2GL C1 C2 sing N N 28 2GL C1 O1 sing N N 29 2GL C1 H1 sing N N 30 2GL C2 C3 sing N N 31 2GL C2 H2 sing N N 32 2GL C2 H22 sing N N 33 2GL C3 O3 sing N N 34 2GL C3 C4 sing N N 35 2GL C3 H3 sing N N 36 2GL O3 HO3 sing N N 37 2GL C4 O4 sing N N 38 2GL C4 C5 sing N N 39 2GL C4 H4 sing N N 40 2GL O4 CO4 sing N N 41 2GL CME CO4 sing N N 42 2GL CME HM41 sing N N 43 2GL CME HM42 sing N N 44 2GL CME HM43 sing N N 45 2GL CO4 OC4 doub N N 46 2GL C5 O5 sing N N 47 2GL C5 C6 sing N N 48 2GL C5 H5 sing N N 49 2GL C6 H61 sing N N 50 2GL C6 H62 sing N N 51 2GL C6 H63 sing N N 52 CPH O1 C1 doub N N 53 CPH C9A C1 sing N N 54 CPH C1 C2 sing N N 55 CPH C2 O2 sing N N 56 CPH C2 C3 sing N N 57 CPH C2 H2 sing N N 58 CPH C3 C4 sing N N 59 CPH C3 "C1'" sing N N 60 CPH C3 H3 sing N N 61 CPH C4A C4 sing N N 62 CPH C4 H4 sing N N 63 CPH C4 H4A sing N N 64 CPH C6 C5 doub Y N 65 CPH C5 C5A sing Y N 66 CPH C5 H5 sing N N 67 CPH C7 C6 sing Y N 68 CPH O6 C6 sing N N 69 CPH CC7 C7 sing N N 70 CPH C7 C8 doub Y N 71 CPH O8 C8 sing N N 72 CPH C8 C8A sing Y N 73 CPH O8 HO8 sing N N 74 CPH O9 C9 sing N N 75 CPH C8A C9 doub Y N 76 CPH C9 C9A sing Y N 77 CPH O9 HO9 sing N N 78 CPH "C2'" "C1'" sing N N 79 CPH "C1'" "O1'" sing N N 80 CPH "C1'" "H1'" sing N N 81 CPH "O1'" CME sing N N 82 CPH C5A C10 doub Y N 83 CPH C10 C4A sing Y N 84 CPH C10 H10 sing N N 85 CPH "O2'" "C2'" doub N N 86 CPH "C2'" "C3'" sing N N 87 CPH "O3'" "C3'" sing N N 88 CPH "C3'" "C4'" sing N N 89 CPH "C3'" "H3'" sing N N 90 CPH "O3'" "HO3'" sing N N 91 CPH "O4'" "C4'" sing N N 92 CPH "C4'" "C5'" sing N N 93 CPH "C4'" "H4'" sing N N 94 CPH "O4'" "HO4'" sing N N 95 CPH C9A C4A doub Y N 96 CPH "C5'" "H5'" sing N N 97 CPH "C5'" "H5'A" sing N N 98 CPH "C5'" "H5'B" sing N N 99 CPH C8A C5A sing Y N 100 CPH CC7 HC7 sing N N 101 CPH CC7 HC7A sing N N 102 CPH CC7 HC7B sing N N 103 CPH O6 HO6 sing N N 104 CPH O2 HO2 sing N N 105 CPH CME HME sing N N 106 CPH CME HMEA sing N N 107 CPH CME HMEB sing N N 108 DA OP3 P sing N N 109 DA OP3 HOP3 sing N N 110 DA P OP1 doub N N 111 DA P OP2 sing N N 112 DA P "O5'" sing N N 113 DA OP2 HOP2 sing N N 114 DA "O5'" "C5'" sing N N 115 DA "C5'" "C4'" sing N N 116 DA "C5'" "H5'" sing N N 117 DA "C5'" "H5''" sing N N 118 DA "C4'" "O4'" sing N N 119 DA "C4'" "C3'" sing N N 120 DA "C4'" "H4'" sing N N 121 DA "O4'" "C1'" sing N N 122 DA "C3'" "O3'" sing N N 123 DA "C3'" "C2'" sing N N 124 DA "C3'" "H3'" sing N N 125 DA "O3'" "HO3'" sing N N 126 DA "C2'" "C1'" sing N N 127 DA "C2'" "H2'" sing N N 128 DA "C2'" "H2''" sing N N 129 DA "C1'" N9 sing N N 130 DA "C1'" "H1'" sing N N 131 DA N9 C8 sing Y N 132 DA N9 C4 sing Y N 133 DA C8 N7 doub Y N 134 DA C8 H8 sing N N 135 DA N7 C5 sing Y N 136 DA C5 C6 sing Y N 137 DA C5 C4 doub Y N 138 DA C6 N6 sing N N 139 DA C6 N1 doub Y N 140 DA N6 H61 sing N N 141 DA N6 H62 sing N N 142 DA N1 C2 sing Y N 143 DA C2 N3 doub Y N 144 DA C2 H2 sing N N 145 DA N3 C4 sing Y N 146 DC OP3 P sing N N 147 DC OP3 HOP3 sing N N 148 DC P OP1 doub N N 149 DC P OP2 sing N N 150 DC P "O5'" sing N N 151 DC OP2 HOP2 sing N N 152 DC "O5'" "C5'" sing N N 153 DC "C5'" "C4'" sing N N 154 DC "C5'" "H5'" sing N N 155 DC "C5'" "H5''" sing N N 156 DC "C4'" "O4'" sing N N 157 DC "C4'" "C3'" sing N N 158 DC "C4'" "H4'" sing N N 159 DC "O4'" "C1'" sing N N 160 DC "C3'" "O3'" sing N N 161 DC "C3'" "C2'" sing N N 162 DC "C3'" "H3'" sing N N 163 DC "O3'" "HO3'" sing N N 164 DC "C2'" "C1'" sing N N 165 DC "C2'" "H2'" sing N N 166 DC "C2'" "H2''" sing N N 167 DC "C1'" N1 sing N N 168 DC "C1'" "H1'" sing N N 169 DC N1 C2 sing N N 170 DC N1 C6 sing N N 171 DC C2 O2 doub N N 172 DC C2 N3 sing N N 173 DC N3 C4 doub N N 174 DC C4 N4 sing N N 175 DC C4 C5 sing N N 176 DC N4 H41 sing N N 177 DC N4 H42 sing N N 178 DC C5 C6 doub N N 179 DC C5 H5 sing N N 180 DC C6 H6 sing N N 181 DDA C1 C2 sing N N 182 DDA C1 O5 sing N N 183 DDA C1 O1 sing N N 184 DDA C1 H1 sing N N 185 DDA C2 C3 sing N N 186 DDA C2 H21 sing N N 187 DDA C2 H22 sing N N 188 DDA C3 C4 sing N N 189 DDA C3 O3 sing N N 190 DDA C3 H3 sing N N 191 DDA C4 C5 sing N N 192 DDA C4 O4 sing N N 193 DDA C4 H4 sing N N 194 DDA C5 C6 sing N N 195 DDA C5 O5 sing N N 196 DDA C5 H5 sing N N 197 DDA C6 H61 sing N N 198 DDA C6 H62 sing N N 199 DDA C6 H63 sing N N 200 DDA O1 HO1 sing N N 201 DDA O3 HO3 sing N N 202 DDA O4 HO4 sing N N 203 DG OP3 P sing N N 204 DG OP3 HOP3 sing N N 205 DG P OP1 doub N N 206 DG P OP2 sing N N 207 DG P "O5'" sing N N 208 DG OP2 HOP2 sing N N 209 DG "O5'" "C5'" sing N N 210 DG "C5'" "C4'" sing N N 211 DG "C5'" "H5'" sing N N 212 DG "C5'" "H5''" sing N N 213 DG "C4'" "O4'" sing N N 214 DG "C4'" "C3'" sing N N 215 DG "C4'" "H4'" sing N N 216 DG "O4'" "C1'" sing N N 217 DG "C3'" "O3'" sing N N 218 DG "C3'" "C2'" sing N N 219 DG "C3'" "H3'" sing N N 220 DG "O3'" "HO3'" sing N N 221 DG "C2'" "C1'" sing N N 222 DG "C2'" "H2'" sing N N 223 DG "C2'" "H2''" sing N N 224 DG "C1'" N9 sing N N 225 DG "C1'" "H1'" sing N N 226 DG N9 C8 sing Y N 227 DG N9 C4 sing Y N 228 DG C8 N7 doub Y N 229 DG C8 H8 sing N N 230 DG N7 C5 sing Y N 231 DG C5 C6 sing N N 232 DG C5 C4 doub Y N 233 DG C6 O6 doub N N 234 DG C6 N1 sing N N 235 DG N1 C2 sing N N 236 DG N1 H1 sing N N 237 DG C2 N2 sing N N 238 DG C2 N3 doub N N 239 DG N2 H21 sing N N 240 DG N2 H22 sing N N 241 DG N3 C4 sing N N 242 DT OP3 P sing N N 243 DT OP3 HOP3 sing N N 244 DT P OP1 doub N N 245 DT P OP2 sing N N 246 DT P "O5'" sing N N 247 DT OP2 HOP2 sing N N 248 DT "O5'" "C5'" sing N N 249 DT "C5'" "C4'" sing N N 250 DT "C5'" "H5'" sing N N 251 DT "C5'" "H5''" sing N N 252 DT "C4'" "O4'" sing N N 253 DT "C4'" "C3'" sing N N 254 DT "C4'" "H4'" sing N N 255 DT "O4'" "C1'" sing N N 256 DT "C3'" "O3'" sing N N 257 DT "C3'" "C2'" sing N N 258 DT "C3'" "H3'" sing N N 259 DT "O3'" "HO3'" sing N N 260 DT "C2'" "C1'" sing N N 261 DT "C2'" "H2'" sing N N 262 DT "C2'" "H2''" sing N N 263 DT "C1'" N1 sing N N 264 DT "C1'" "H1'" sing N N 265 DT N1 C2 sing N N 266 DT N1 C6 sing N N 267 DT C2 O2 doub N N 268 DT C2 N3 sing N N 269 DT N3 C4 sing N N 270 DT N3 H3 sing N N 271 DT C4 O4 doub N N 272 DT C4 C5 sing N N 273 DT C5 C7 sing N N 274 DT C5 C6 doub N N 275 DT C7 H71 sing N N 276 DT C7 H72 sing N N 277 DT C7 H73 sing N N 278 DT C6 H6 sing N N 279 ERI O1 C1 sing N N 280 ERI O1 HO1 sing N N 281 ERI C1 C2 sing N N 282 ERI C1 O5 sing N N 283 ERI C1 H1 sing N N 284 ERI C2 C3 sing N N 285 ERI C2 H21 sing N N 286 ERI C2 H22 sing N N 287 ERI C3 O3 sing N N 288 ERI C3 CC3 sing N N 289 ERI C3 C4 sing N N 290 ERI O3 HO3 sing N N 291 ERI CC3 H31 sing N N 292 ERI CC3 H32 sing N N 293 ERI CC3 H33 sing N N 294 ERI C4 O4 sing N N 295 ERI C4 C5 sing N N 296 ERI C4 H4 sing N N 297 ERI O4 CO4 sing N N 298 ERI CME CO4 sing N N 299 ERI CME H41 sing N N 300 ERI CME H42 sing N N 301 ERI CME H43 sing N N 302 ERI CO4 OC4 doub N N 303 ERI C5 O5 sing N N 304 ERI C5 C6 sing N N 305 ERI C5 H5 sing N N 306 ERI C6 H61 sing N N 307 ERI C6 H62 sing N N 308 ERI C6 H63 sing N N 309 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1EKI 'double helix' 1EKI 'a-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DT 1 1_555 B DA 8 1_555 0.142 -0.108 -0.228 3.476 -24.133 8.528 1 A_DT1:DA18_B A 1 ? B 18 ? 20 1 1 A DT 2 1_555 B DA 7 1_555 -0.011 -0.050 -0.267 -3.134 -18.262 -5.318 2 A_DT2:DA17_B A 2 ? B 17 ? 20 1 1 A DG 3 1_555 B DC 6 1_555 -0.111 -0.037 -0.011 -5.234 -9.137 5.134 3 A_DG3:DC16_B A 3 ? B 16 ? 19 1 1 A DG 4 1_555 B DC 5 1_555 0.073 -0.289 0.630 -1.693 -22.407 -4.561 4 A_DG4:DC15_B A 4 ? B 15 ? 19 1 1 A DC 5 1_555 B DG 4 1_555 -0.080 -0.240 0.508 3.870 -19.872 -4.124 5 A_DC5:DG14_B A 5 ? B 14 ? 19 1 1 A DC 6 1_555 B DG 3 1_555 0.885 -0.100 -0.185 4.498 -12.092 11.361 6 A_DC6:DG13_B A 6 ? B 13 ? 19 1 1 A DA 7 1_555 B DT 2 1_555 0.099 -0.036 -0.179 5.335 -16.053 -5.143 7 A_DA7:DT12_B A 7 ? B 12 ? 20 1 1 A DA 8 1_555 B DT 1 1_555 -0.225 -0.107 -0.135 0.591 -24.079 9.683 8 A_DA8:DT11_B A 8 ? B 11 ? 20 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 DT 1 1_555 B DA 8 1_555 A DT 2 1_555 B DA 7 1_555 -0.206 -0.600 3.337 3.607 8.197 32.541 -2.362 0.939 3.060 14.293 -6.290 33.718 1 AA_DT1DT2:DA17DA18_BB A 1 ? B 18 ? A 2 ? B 17 ? 1 A DT 2 1_555 B DA 7 1_555 A DG 3 1_555 B DC 6 1_555 0.783 -0.510 3.342 -2.112 13.289 35.201 -2.506 -1.487 2.918 21.048 3.345 37.609 2 AA_DT2DG3:DC16DA17_BB A 2 ? B 17 ? A 3 ? B 16 ? 1 A DG 3 1_555 B DC 6 1_555 A DG 4 1_555 B DC 5 1_555 1.314 -1.645 3.253 0.547 3.753 26.681 -4.456 -2.686 3.023 8.081 -1.177 26.945 3 AA_DG3DG4:DC15DC16_BB A 3 ? B 16 ? A 4 ? B 15 ? 1 A DG 4 1_555 B DC 5 1_555 A DC 5 1_555 B DG 4 1_555 -0.059 -2.499 2.846 0.591 2.567 28.928 -5.455 0.226 2.617 5.126 -1.180 29.046 4 AA_DG4DC5:DG14DC15_BB A 4 ? B 15 ? A 5 ? B 14 ? 1 A DC 5 1_555 B DG 4 1_555 A DC 6 1_555 B DG 3 1_555 -0.992 -1.589 3.282 -0.224 2.115 28.048 -3.758 1.989 3.164 4.355 0.462 28.127 5 AA_DC5DC6:DG13DG14_BB A 5 ? B 14 ? A 6 ? B 13 ? 1 A DC 6 1_555 B DG 3 1_555 A DA 7 1_555 B DT 2 1_555 -1.208 -0.070 3.353 1.927 12.190 33.496 -1.910 2.257 3.071 20.314 -3.211 35.636 6 AA_DC6DA7:DT12DG13_BB A 6 ? B 13 ? A 7 ? B 12 ? 1 A DA 7 1_555 B DT 2 1_555 A DA 8 1_555 B DT 1 1_555 0.201 -0.655 3.274 -4.305 7.504 31.404 -2.446 -1.092 2.989 13.545 7.770 32.545 7 AA_DA7DA8:DT11DT12_BB A 7 ? B 12 ? A 8 ? B 11 ? # loop_ _pdbx_entity_branch_list.entity_id _pdbx_entity_branch_list.comp_id _pdbx_entity_branch_list.num _pdbx_entity_branch_list.hetero 2 2GL 1 n 2 1GL 2 n 3 DDA 1 n 3 DDA 2 n 3 ERI 3 n # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer GE _pdbx_nmr_spectrometer.model OMEGA _pdbx_nmr_spectrometer.field_strength 500 # _atom_sites.entry_id 1EKI _atom_sites.fract_transf_matrix[1][1] 1.000000 _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] 1.000000 _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] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C CO H N O P # loop_