data_2EZF # _entry.id 2EZF # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.356 _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 2EZF pdb_00002ezf 10.2210/pdb2ezf/pdb WWPDB D_1000178057 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 2EZG _pdbx_database_related.details 'ENSEMBLE OF 35 STRUCTURES' _pdbx_database_related.content_type ensemble # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2EZF _pdbx_database_status.recvd_initial_deposition_date 1997-06-04 _pdbx_database_status.deposit_site ? _pdbx_database_status.process_site BNL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Clore, G.M.' 1 'Huth, J.R.' 2 'Bewley, C.' 3 'Gronenborn, A.M.' 4 # _citation.id primary _citation.title 'The solution structure of an HMG-I(Y)-DNA complex defines a new architectural minor groove binding motif.' _citation.journal_abbrev Nat.Struct.Biol. _citation.journal_volume 4 _citation.page_first 657 _citation.page_last 665 _citation.year 1997 _citation.journal_id_ASTM NSBIEW _citation.country US _citation.journal_id_ISSN 1072-8368 _citation.journal_id_CSD 2024 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 9253416 _citation.pdbx_database_id_DOI 10.1038/nsb0897-657 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Huth, J.R.' 1 ? primary 'Bewley, C.A.' 2 ? primary 'Nissen, M.S.' 3 ? primary 'Evans, J.N.' 4 ? primary 'Reeves, R.' 5 ? primary 'Gronenborn, A.M.' 6 ? primary 'Clore, G.M.' 7 ? # _cell.entry_id 2EZF _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 2EZF _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # 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(*GP*GP*GP*AP*AP*AP*TP*TP*CP*CP*TP*C)-3') ; 3662.404 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*GP*AP*GP*GP*AP*AP*TP*TP*TP*CP*CP*C)-3') ; 3662.404 1 ? ? ? ? 3 polymer man 'HIGH MOBILITY GROUP PROTEIN HMG-I/HMG-Y' 1185.469 1 ? ? ? ? # _entity_name_com.entity_id 3 _entity_name_com.name 'HIGH MOBILITY GROUP PROTEIN HMG' # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no no '(DG)(DG)(DG)(DA)(DA)(DA)(DT)(DT)(DC)(DC)(DT)(DC)' GGGAAATTCCTC B ? 2 polydeoxyribonucleotide no no '(DG)(DA)(DG)(DG)(DA)(DA)(DT)(DT)(DT)(DC)(DC)(DC)' GAGGAATTTCCC C ? 3 'polypeptide(L)' no no GRKPRGRPKK GRKPRGRPKK A ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DG n 1 2 DG n 1 3 DG n 1 4 DA n 1 5 DA n 1 6 DA n 1 7 DT n 1 8 DT n 1 9 DC n 1 10 DC n 1 11 DT n 1 12 DC n 2 1 DG n 2 2 DA n 2 3 DG n 2 4 DG n 2 5 DA n 2 6 DA n 2 7 DT n 2 8 DT n 2 9 DT n 2 10 DC n 2 11 DC n 2 12 DC n 3 1 GLY n 3 2 ARG n 3 3 LYS n 3 4 PRO n 3 5 ARG n 3 6 GLY n 3 7 ARG n 3 8 PRO n 3 9 LYS n 3 10 LYS n # _entity_src_gen.entity_id 3 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name human _entity_src_gen.gene_src_genus Homo _entity_src_gen.pdbx_gene_src_gene ? _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus Escherichia _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform 1 UNP HMGIY_HUMAN 3 ? ? P17096 ? 2 PDB 2EZF 1 ? ? 2EZF ? 3 PDB 2EZF 2 ? ? 2EZF ? # 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 2EZF A 1 ? 10 ? P17096 68 ? 77 ? 32 41 2 2 2EZF B 1 ? 12 ? 2EZF 301 ? 312 ? 301 312 3 3 2EZF C 1 ? 12 ? 2EZF 313 ? 324 ? 313 324 # 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 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 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 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 306 _pdbx_nmr_exptl_sample_conditions.pressure ? _pdbx_nmr_exptl_sample_conditions.pH 6.1 _pdbx_nmr_exptl_sample_conditions.ionic_strength ? _pdbx_nmr_exptl_sample_conditions.pressure_units . _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.field_strength 1 AMX500 Bruker 600 2 AMX600 Bruker 500 3 DMX600 Bruker 750 4 DMX750 Bruker 750 # _pdbx_nmr_refine.entry_id 2EZF _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ;THE STRUCTURES WERE CALCULATED USING THE SIMULATED ANNEALING PROTOCOL OF NILGES ET AL. (1988) FEBS LETT. 229, 129 - 136 USING THE PROGRAM X-PLOR 3.1 (BRUNGER) MODIFIED TO INCORPORATE COUPLING CONSTANT (GARRETT ET AL. (1984) J. MAGN RESON. SERIES B 104, 99 - 103), CARBON CHEMICAL SHIFT (KUSZEWSKI ET AL. (1995) J. MAGN. RESON. SERIES B 106, 92 - 96) RESTRAINTS AND A CONFORMATIONAL DATABASE POTENTIAL (KUSZEWSKI ET AL. (1996) PROTEIN SCI 5, 1067 - 1080 AND (1997) J. MAGN. RESON. 125, 171-177) THE 3D STRUCTURE OF THE COMPLEX OF THE THIRD DNA BINDING DOMAIN OF HMG-I(Y) COMPLEXED TO DNA WAS SOLVED BY MULTI-DIMENSIONAL HETERONUCLEAR-EDITED AND -FILTERED NMR (A) PROTEIN: 31 SEQUENTIAL (|I-J|=1), 2 MEDIUM RANGE (1 < |I-J| >=5) AND 22 INTRARESIDUE APPROXIMATE INTERPROTON DISTANCE RESTRAINTS; NULL 17 TORSION ANGLE RESTRAINTS 6 THREE-BOND HN-HA AND 3 THREE_BOND COCO COUPLING CONSTANT RESTRAINTS; 17 (9 CALPHA AND 8 CBETA) 13C SHIFT RESTRAINTS. (B) DNA: 249 INTRARESIDUE, 119 SEQUENTIAL INTRASTRAND AND 33 INTERSTRAND INTERPROTON DISTANCE RESTRAINTS; 42 DISTANCES FOR WATSON-CRICK BASE PAIR HYDROGEN BONDS; 136 TORSION ANGLE RESTRAINTS (C) 34 INTERMOLECULAR INTERPROTON DISTANCE RESTRAINTS (D) 4 INTERMOLECULAR DISTANCE RESTRAINTS TO PHOSPHATES (E) 28 'REPULSIVE' RESTRAINTS THE STRUCTURE IN THIS ENTRY IS THE RESTRAINED REGULARIZED MEAN STRUCTURE. THE LAST NUMERIC COLUMN REPRESENTS THE RMS OF THE 35 INDIVIDUAL SIMULATED ANNEALING STRUCTURES FOUND IN PDB ENTRY 2EZF ABOUT THE MEAN COORDINATE POSITIONS. THE LAST NUMERIC COLUMN IN THE INDIVIDUAL SA STRUCTURES HAS NO MEANING. RESIDUES 32 - 41 OF THE PROTEIN CORRESPOND TO RESIDUES 79 - 88 OF INTACT HMG-I(Y). ; _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_details.entry_id 2EZF _pdbx_nmr_details.text ;DATA WERE RECORDED ON A 2:1 COMPLEX OF DNA DODECAMER TO HMG-I(Y) 50-91 WHICH CONTAINS THE SECOND AND THIRD DNA DNA BINDING DOMAINS. EACH DNA BINDING DOMAIN BINDS TO 1 MOLECULE OF DNA. ; # _pdbx_nmr_ensemble.entry_id 2EZF _pdbx_nmr_ensemble.conformers_calculated_total_number 35 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria ? # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal refinement X-PLOR 3.1 BRUNGER 1 'structure solution' 'XPLOR MODIFIED' MODIFIED ? 2 # _exptl.entry_id 2EZF _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 2EZF _struct.title ;SOLUTION STRUCTURE OF A COMPLEX OF THE THIRD DNA BINDING DOMAIN OF HUMAN HMG-I(Y) BOUND TO DNA DODECAMER CONTAINING THE PRDII SITE OF THE INTERFERON-BETA PROMOTER, NMR, MINIMIZED AVERAGE STRUCTURE ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2EZF _struct_keywords.pdbx_keywords 'DNA BINDING PROTEIN/DNA' _struct_keywords.text ;DNA BINDING PROTEIN, MINOR GROOVE DNA BINDING, TRANSCRIPTIONAL CO-ACTIVATOR, ARCHITECTURAL FACTOR, COMPLEX (DNA-BINDING PROTEIN-DNA), DNA BINDING PROTEIN-DNA COMPLEX ; # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? # _struct_biol.id 1 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DC 12 N3 ? ? B DG 301 C DC 324 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DC 12 O2 ? ? B DG 301 C DC 324 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DC 12 N4 ? ? B DG 301 C DC 324 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? B DG 302 C DC 323 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? B DG 302 C DC 323 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? B DG 302 C DC 323 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 10 N3 ? ? B DG 303 C DC 322 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 10 O2 ? ? B DG 303 C DC 322 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 10 N4 ? ? B DG 303 C DC 322 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DA 4 N1 ? ? ? 1_555 B DT 9 N3 ? ? B DA 304 C DT 321 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DA 4 N6 ? ? ? 1_555 B DT 9 O4 ? ? B DA 304 C DT 321 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? B DA 305 C DT 320 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? B DA 305 C DT 320 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 ? ? B DA 306 C DT 319 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 ? ? B DA 306 C DT 319 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? B DT 307 C DA 318 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? B DT 307 C DA 318 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? B DT 308 C DA 317 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? B DT 308 C DA 317 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 4 N1 ? ? B DC 309 C DG 316 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 4 O6 ? ? B DC 309 C DG 316 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 4 N2 ? ? B DC 309 C DG 316 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 10 N3 ? ? ? 1_555 B DG 3 N1 ? ? B DC 310 C DG 315 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DC 10 N4 ? ? ? 1_555 B DG 3 O6 ? ? B DC 310 C DG 315 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DC 10 O2 ? ? ? 1_555 B DG 3 N2 ? ? B DC 310 C DG 315 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DT 11 N3 ? ? ? 1_555 B DA 2 N1 ? ? B DT 311 C DA 314 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DT 11 O4 ? ? ? 1_555 B DA 2 N6 ? ? B DT 311 C DA 314 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 12 N3 ? ? ? 1_555 B DG 1 N1 ? ? B DC 312 C DG 313 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 12 N4 ? ? ? 1_555 B DG 1 O6 ? ? B DC 312 C DG 313 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DC 12 O2 ? ? ? 1_555 B DG 1 N2 ? ? B DC 312 C DG 313 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _database_PDB_matrix.entry_id 2EZF _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 2EZF _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 H N O P # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DG 1 301 301 DG G B . n A 1 2 DG 2 302 302 DG G B . n A 1 3 DG 3 303 303 DG G B . n A 1 4 DA 4 304 304 DA A B . n A 1 5 DA 5 305 305 DA A B . n A 1 6 DA 6 306 306 DA A B . n A 1 7 DT 7 307 307 DT T B . n A 1 8 DT 8 308 308 DT T B . n A 1 9 DC 9 309 309 DC C B . n A 1 10 DC 10 310 310 DC C B . n A 1 11 DT 11 311 311 DT T B . n A 1 12 DC 12 312 312 DC C B . n B 2 1 DG 1 313 313 DG G C . n B 2 2 DA 2 314 314 DA A C . n B 2 3 DG 3 315 315 DG G C . n B 2 4 DG 4 316 316 DG G C . n B 2 5 DA 5 317 317 DA A C . n B 2 6 DA 6 318 318 DA A C . n B 2 7 DT 7 319 319 DT T C . n B 2 8 DT 8 320 320 DT T C . n B 2 9 DT 9 321 321 DT T C . n B 2 10 DC 10 322 322 DC C C . n B 2 11 DC 11 323 323 DC C C . n B 2 12 DC 12 324 324 DC C C . n C 3 1 GLY 1 32 32 GLY GLY A . n C 3 2 ARG 2 33 33 ARG ARG A . n C 3 3 LYS 3 34 34 LYS LYS A . n C 3 4 PRO 4 35 35 PRO PRO A . n C 3 5 ARG 5 36 36 ARG ARG A . n C 3 6 GLY 6 37 37 GLY GLY A . n C 3 7 ARG 7 38 38 ARG ARG A . n C 3 8 PRO 8 39 39 PRO PRO A . n C 3 9 LYS 9 40 40 LYS LYS A . n C 3 10 LYS 10 41 41 LYS LYS A . n # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_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 1997-10-15 2 'Structure model' 1 1 2008-03-24 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-09 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Database references' 4 4 'Structure model' 'Derived calculations' 5 4 'Structure model' Other # 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' database_2 2 4 'Structure model' pdbx_database_status 3 4 'Structure model' pdbx_struct_assembly 4 4 'Structure model' pdbx_struct_oper_list # 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' '_pdbx_database_status.process_site' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' 3.1 ? 1 X-PLOR refinement 3.1 ? 2 X-PLOR phasing 3.1 ? 3 # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 PRO A 35 ? ? -69.98 -177.76 2 1 PRO A 39 ? ? -45.61 154.72 # _ndb_struct_conf_na.entry_id 2EZF _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 1 1_555 B DC 12 1_555 -0.458 -0.171 0.037 3.931 0.746 2.021 1 B_DG301:DC324_C B 301 ? C 324 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.240 -0.034 0.330 10.328 -2.855 -0.927 2 B_DG302:DC323_C B 302 ? C 323 ? 19 1 1 A DG 3 1_555 B DC 10 1_555 0.070 -0.195 0.540 9.551 -10.369 -2.311 3 B_DG303:DC322_C B 303 ? C 322 ? 19 1 1 A DA 4 1_555 B DT 9 1_555 -0.156 -0.202 0.323 -0.422 -12.407 -0.759 4 B_DA304:DT321_C B 304 ? C 321 ? 20 1 1 A DA 5 1_555 B DT 8 1_555 0.060 -0.110 -0.051 0.004 -9.173 -3.497 5 B_DA305:DT320_C B 305 ? C 320 ? 20 1 1 A DA 6 1_555 B DT 7 1_555 -0.342 -0.118 -0.153 12.017 -4.961 -10.473 6 B_DA306:DT319_C B 306 ? C 319 ? 20 1 1 A DT 7 1_555 B DA 6 1_555 -0.038 -0.072 -0.243 5.366 -14.839 -7.900 7 B_DT307:DA318_C B 307 ? C 318 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 0.269 -0.226 -0.323 5.916 -23.911 1.069 8 B_DT308:DA317_C B 308 ? C 317 ? 20 1 1 A DC 9 1_555 B DG 4 1_555 0.226 -0.278 -0.152 -7.322 -14.711 0.858 9 B_DC309:DG316_C B 309 ? C 316 ? 19 1 1 A DC 10 1_555 B DG 3 1_555 -0.097 -0.201 -0.163 -8.869 -11.012 -2.759 10 B_DC310:DG315_C B 310 ? C 315 ? 19 1 1 A DT 11 1_555 B DA 2 1_555 0.001 -0.026 0.075 -5.002 -4.469 -9.699 11 B_DT311:DA314_C B 311 ? C 314 ? 20 1 1 A DC 12 1_555 B DG 1 1_555 0.473 -0.161 0.034 -3.734 0.591 2.394 12 B_DC312:DG313_C B 312 ? C 313 ? 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 1 1_555 B DC 12 1_555 A DG 2 1_555 B DC 11 1_555 -0.757 0.415 4.057 -2.048 -5.916 35.846 1.684 0.860 3.976 -9.522 3.296 36.371 1 BB_DG301DG302:DC323DC324_CC B 301 ? C 324 ? B 302 ? C 323 ? 1 A DG 2 1_555 B DC 11 1_555 A DG 3 1_555 B DC 10 1_555 -0.072 0.157 3.938 -0.710 -2.253 35.686 0.647 -0.006 3.922 -3.671 1.157 35.762 2 BB_DG302DG303:DC322DC323_CC B 302 ? C 323 ? B 303 ? C 322 ? 1 A DG 3 1_555 B DC 10 1_555 A DA 4 1_555 B DT 9 1_555 0.148 0.161 4.240 0.881 1.980 35.570 -0.110 -0.076 4.245 3.237 -1.440 35.633 3 BB_DG303DA304:DT321DC322_CC B 303 ? C 322 ? B 304 ? C 321 ? 1 A DA 4 1_555 B DT 9 1_555 A DA 5 1_555 B DT 8 1_555 -0.235 0.016 3.850 0.745 -3.112 36.237 0.535 0.498 3.830 -4.991 -1.196 36.373 4 BB_DA304DA305:DT320DT321_CC B 304 ? C 321 ? B 305 ? C 320 ? 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B DT 7 1_555 -0.526 -0.190 3.197 -0.705 -1.905 32.871 -0.017 0.809 3.212 -3.363 1.244 32.932 5 BB_DA305DA306:DT319DT320_CC B 305 ? C 320 ? B 306 ? C 319 ? 1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 0.172 -0.204 4.136 2.111 0.120 33.648 -0.377 0.137 4.138 0.206 -3.643 33.713 6 BB_DA306DT307:DA318DT319_CC B 306 ? C 319 ? B 307 ? C 318 ? 1 A DT 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 0.719 0.041 3.632 1.947 -6.065 37.736 0.913 -0.825 3.614 -9.296 -2.984 38.250 7 BB_DT307DT308:DA317DA318_CC B 307 ? C 318 ? B 308 ? C 317 ? 1 A DT 8 1_555 B DA 5 1_555 A DC 9 1_555 B DG 4 1_555 -0.052 0.490 4.077 -1.536 2.593 40.561 0.345 -0.138 4.098 3.734 2.212 40.668 8 BB_DT308DC309:DG316DA317_CC B 308 ? C 317 ? B 309 ? C 316 ? 1 A DC 9 1_555 B DG 4 1_555 A DC 10 1_555 B DG 3 1_555 -0.130 0.270 3.825 -0.598 -3.191 36.146 0.954 0.112 3.790 -5.130 0.961 36.286 9 BB_DC309DC310:DG315DG316_CC B 309 ? C 316 ? B 310 ? C 315 ? 1 A DC 10 1_555 B DG 3 1_555 A DT 11 1_555 B DA 2 1_555 -0.428 -0.021 3.715 -1.014 -6.985 35.459 1.089 0.527 3.664 -11.330 1.645 36.133 10 BB_DC310DT311:DA314DG315_CC B 310 ? C 315 ? B 311 ? C 314 ? 1 A DT 11 1_555 B DA 2 1_555 A DC 12 1_555 B DG 1 1_555 0.916 0.337 4.061 -0.204 -1.258 33.646 0.835 -1.622 4.041 -2.173 0.352 33.670 11 BB_DT311DC312:DG313DA314_CC B 311 ? C 314 ? B 312 ? C 313 ? #