data_2NBJ # _entry.id 2NBJ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_code _database_2.database_id RCSB104661 RCSB 2NBJ PDB 19957 BMRB D_1000104661 WWPDB # loop_ _pdbx_database_related.content_type _pdbx_database_related.db_id _pdbx_database_related.db_name _pdbx_database_related.details unspecified 19957 BMRB 'Chemical shifts assignment of the protein and the DNA in complex' unspecified 2KHL PDB '3D structure of the free MC1 protein' # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2NBJ _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2016-02-25 _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code REL _pdbx_database_status.status_code_mr REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Paquet, F.' 1 'Loth, K.' 2 'Landon, C.' 3 # _citation.id primary _citation.title 'First 3D structure of an atypical protein-DNA complex' _citation.journal_abbrev 'To be Published' _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 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Paquet, F.' 1 primary 'Loth, K.' 2 primary 'Landon, C.' 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 man 'Chromosomal protein MC1' 10687.312 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*AP*AP*AP*AP*AP*CP*AP*CP*AP*CP*AP*CP*CP*CP*A)-3') ; 4508.994 1 ? ? ? ? 3 polymer syn ;DNA (5'-D(P*TP*GP*GP*GP*TP*GP*TP*GP*TP*GP*TP*TP*TP*TP*T)-3') ; 4668.012 1 ? ? ? ? # 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 'polypeptide(L)' no no ;SNTRNFVLRDEDGNEHGVFTGKQPRQAALKAANRGSGTKANPDIIRLRERGTKKVHVFKAWKEIVDAPKNRPAWMPEKIS KPFVKKERIEKLE ; ;SNTRNFVLRDEDGNEHGVFTGKQPRQAALKAANRGSGTKANPDIIRLRERGTKKVHVFKAWKEIVDAPKNRPAWMPEKIS KPFVKKERIEKLE ; A ? 2 polydeoxyribonucleotide no no '(DA)(DA)(DA)(DA)(DA)(DC)(DA)(DC)(DA)(DC)(DA)(DC)(DC)(DC)(DA)' AAAAACACACACCCA B ? 3 polydeoxyribonucleotide no no '(DT)(DG)(DG)(DG)(DT)(DG)(DT)(DG)(DT)(DG)(DT)(DT)(DT)(DT)(DT)' TGGGTGTGTGTTTTT C ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 SER n 1 2 ASN n 1 3 THR n 1 4 ARG n 1 5 ASN n 1 6 PHE n 1 7 VAL n 1 8 LEU n 1 9 ARG n 1 10 ASP n 1 11 GLU n 1 12 ASP n 1 13 GLY n 1 14 ASN n 1 15 GLU n 1 16 HIS n 1 17 GLY n 1 18 VAL n 1 19 PHE n 1 20 THR n 1 21 GLY n 1 22 LYS n 1 23 GLN n 1 24 PRO n 1 25 ARG n 1 26 GLN n 1 27 ALA n 1 28 ALA n 1 29 LEU n 1 30 LYS n 1 31 ALA n 1 32 ALA n 1 33 ASN n 1 34 ARG n 1 35 GLY n 1 36 SER n 1 37 GLY n 1 38 THR n 1 39 LYS n 1 40 ALA n 1 41 ASN n 1 42 PRO n 1 43 ASP n 1 44 ILE n 1 45 ILE n 1 46 ARG n 1 47 LEU n 1 48 ARG n 1 49 GLU n 1 50 ARG n 1 51 GLY n 1 52 THR n 1 53 LYS n 1 54 LYS n 1 55 VAL n 1 56 HIS n 1 57 VAL n 1 58 PHE n 1 59 LYS n 1 60 ALA n 1 61 TRP n 1 62 LYS n 1 63 GLU n 1 64 ILE n 1 65 VAL n 1 66 ASP n 1 67 ALA n 1 68 PRO n 1 69 LYS n 1 70 ASN n 1 71 ARG n 1 72 PRO n 1 73 ALA n 1 74 TRP n 1 75 MET n 1 76 PRO n 1 77 GLU n 1 78 LYS n 1 79 ILE n 1 80 SER n 1 81 LYS n 1 82 PRO n 1 83 PHE n 1 84 VAL n 1 85 LYS n 1 86 LYS n 1 87 GLU n 1 88 ARG n 1 89 ILE n 1 90 GLU n 1 91 LYS n 1 92 LEU n 1 93 GLU n 2 1 DA n 2 2 DA n 2 3 DA n 2 4 DA n 2 5 DA n 2 6 DC n 2 7 DA n 2 8 DC n 2 9 DA n 2 10 DC n 2 11 DA n 2 12 DC n 2 13 DC n 2 14 DC n 2 15 DA n 3 1 DT n 3 2 DG n 3 3 DG n 3 4 DG n 3 5 DT n 3 6 DG n 3 7 DT n 3 8 DG n 3 9 DT n 3 10 DG n 3 11 DT n 3 12 DT n 3 13 DT n 3 14 DT n 3 15 DT n # _entity_src_gen.entity_id 1 _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 ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene MSTHC_1630 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain CHTI55 _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 'Methanosarcina thermophila CHTI-55' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 1434121 _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 ? _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 pet24a-mc1 _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.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_isoform 1 UNP A0A0E3KRH5_METTE A0A0E3KRH5 1 ;SNTRNFVLRDEDGNEHGVFTGKQPRQAALKAANRGSGTKANPDIIRLRERGTKKVHVFKAWKEIVDAPKNRPAWMPEKIS KPFVKKERIEKLE ; 2 ? 2 PDB 2NBJ 2NBJ 2 ? ? ? 3 PDB 2NBJ 2NBJ 3 ? ? ? # 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 2NBJ A 1 ? 93 ? A0A0E3KRH5 2 ? 94 ? 1 93 2 2 2NBJ B 1 ? 15 ? 2NBJ 1 ? 15 ? 1 15 3 3 2NBJ C 1 ? 15 ? 2NBJ 16 ? 30 ? 16 30 # 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 ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 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 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # loop_ _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 1 '2D 1H-1H NOESY' 1 2 1 '3D 1H-15N NOESY' 1 3 2 '2D 1H-15N HSQC' 1 4 2 '2D 1H-13C HSQC' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.ionic_strength 100 _pdbx_nmr_exptl_sample_conditions.pH 6 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature 299 _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.solvent_system ;1.18 mM [U-100% 15N] protein, 1.18 mM [U-100% 13C; U-100% 15N] A1-A15 DNA, 10 mM sodium phosphate, 100 mM sodium chloride, 1 mM EDTA, 90% H2O/10% D2O ; 1 '90% H2O/10% D2O' ;0.85 mM [U-100% 15N] protein, 0.85 mM [U-100% 13C; U-100% 15N] A1-A15 DNA, 10 mM sodium phosphate, 100 mM sodium chloride, 1 mM EDTA, 10 mg/mL Pf1 phage, 90% H2O/10% D2O ; 2 '90% H2O/10% D2O' # loop_ _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type 600 Varian INOVA 1 'Varian INOVA' 700 Bruker Avance 2 'Bruker Avance' # _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the least restraint violations' _pdbx_nmr_ensemble.conformers_calculated_total_number 200 _pdbx_nmr_ensemble.conformers_submitted_total_number 12 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2NBJ _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.entry_id 2NBJ _pdbx_nmr_representative.selection_criteria 'fewest violations' # loop_ _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.ordinal 'Bruker Biospin' collection TOPSPIN ? 1 'Bruker Biospin' processing TOPSPIN ? 2 Varian collection VNMR ? 3 'Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax' processing NMRPipe ? 4 CCPN 'peak picking' CcpNMR ? 5 CCPN 'data analysis' CcpNMR ? 6 'Alexandre Bonvin' 'structure solution' HADDOCK ? 7 'Alexandre Bonvin' refinement HADDOCK ? 8 'Brunger, Adams, Clore, Gros, Nilges and Read' refinement CNS ? 9 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.crystals_number ? _exptl.details ? _exptl.entry_id 2NBJ _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2NBJ _struct.title 'DNA-archeal MC1 protein complex structure by NMR' _struct.pdbx_descriptor 'Chromosomal protein MC1, DNA' _struct.pdbx_model_details 'fewest violations, model1' _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2NBJ _struct_keywords.pdbx_keywords 'DNA BINDING PROTEIN/DNA' _struct_keywords.text 'DNA-protein complex, bent DNA, archaea, 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 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 GLN A 23 ? ALA A 32 ? GLN A 23 ALA A 32 1 ? 10 HELX_P HELX_P2 2 ASN A 33 ? GLY A 35 ? ASN A 33 GLY A 35 5 ? 3 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # 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 hydrog1 hydrog ? ? B DA 1 N1 ? ? ? 1_555 C DT 15 N3 ? ? B DA 1 C DT 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog2 hydrog ? ? B DA 1 N6 ? ? ? 1_555 C DT 15 O4 ? ? B DA 1 C DT 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog3 hydrog ? ? B DA 3 N1 ? ? ? 1_555 C DT 13 N3 ? ? B DA 3 C DT 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog4 hydrog ? ? B DA 3 N6 ? ? ? 1_555 C DT 13 O4 ? ? B DA 3 C DT 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog5 hydrog ? ? B DA 4 N1 ? ? ? 1_555 C DT 12 N3 ? ? B DA 4 C DT 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog6 hydrog ? ? B DA 4 N6 ? ? ? 1_555 C DT 12 O4 ? ? B DA 4 C DT 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog7 hydrog ? ? B DA 5 N1 ? ? ? 1_555 C DT 11 N3 ? ? B DA 5 C DT 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog8 hydrog ? ? B DA 5 N6 ? ? ? 1_555 C DT 11 O4 ? ? B DA 5 C DT 26 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog9 hydrog ? ? B DC 6 O2 ? ? ? 1_555 B DA 7 N6 ? ? B DC 6 B DA 7 1_555 ? ? ? ? ? ? 'DC-DA MISPAIR' ? ? hydrog10 hydrog ? ? B DC 6 N3 ? ? ? 1_555 C DG 10 N1 ? ? B DC 6 C DG 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog11 hydrog ? ? B DC 6 N4 ? ? ? 1_555 C DG 10 O6 ? ? B DC 6 C DG 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog12 hydrog ? ? B DC 6 O2 ? ? ? 1_555 C DG 10 N2 ? ? B DC 6 C DG 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog13 hydrog ? ? B DA 7 N1 ? ? ? 1_555 C DT 9 N3 ? ? B DA 7 C DT 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog14 hydrog ? ? B DA 7 N6 ? ? ? 1_555 C DT 9 O4 ? ? B DA 7 C DT 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog15 hydrog ? ? B DC 8 N3 ? ? ? 1_555 C DG 8 N1 ? ? B DC 8 C DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog16 hydrog ? ? B DC 8 N4 ? ? ? 1_555 C DG 8 O6 ? ? B DC 8 C DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog17 hydrog ? ? B DC 8 O2 ? ? ? 1_555 C DG 8 N2 ? ? B DC 8 C DG 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog18 hydrog ? ? B DA 9 N1 ? ? ? 1_555 C DT 7 N3 ? ? B DA 9 C DT 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog19 hydrog ? ? B DA 9 N6 ? ? ? 1_555 C DT 7 O4 ? ? B DA 9 C DT 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog20 hydrog ? ? B DC 10 N3 ? ? ? 1_555 C DG 6 N1 ? ? B DC 10 C DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog21 hydrog ? ? B DC 10 N4 ? ? ? 1_555 C DG 6 O6 ? ? B DC 10 C DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog22 hydrog ? ? B DC 10 O2 ? ? ? 1_555 C DG 6 N2 ? ? B DC 10 C DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog23 hydrog ? ? B DA 11 N1 ? ? ? 1_555 C DT 5 N3 ? ? B DA 11 C DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog24 hydrog ? ? B DA 11 N6 ? ? ? 1_555 C DT 5 O4 ? ? B DA 11 C DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog25 hydrog ? ? B DC 12 N3 ? ? ? 1_555 C DG 4 N1 ? ? B DC 12 C DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog26 hydrog ? ? B DC 12 N4 ? ? ? 1_555 C DG 4 O6 ? ? B DC 12 C DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog27 hydrog ? ? B DC 12 O2 ? ? ? 1_555 C DG 4 N2 ? ? B DC 12 C DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog28 hydrog ? ? B DC 13 N3 ? ? ? 1_555 C DG 3 N1 ? ? B DC 13 C DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog29 hydrog ? ? B DC 13 N4 ? ? ? 1_555 C DG 3 O6 ? ? B DC 13 C DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog30 hydrog ? ? B DC 13 O2 ? ? ? 1_555 C DG 3 N2 ? ? B DC 13 C DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog31 hydrog ? ? B DC 14 N4 ? ? ? 1_555 C DG 2 O6 ? ? B DC 14 C DG 17 1_555 ? ? ? ? ? ? 'DC-DG PAIR' ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 5 _struct_sheet.details ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 GLU A 15 ? GLY A 21 ? GLU A 15 GLY A 21 A 2 ARG A 4 ? ARG A 9 ? ARG A 4 ARG A 9 A 3 ILE A 44 ? ARG A 50 ? ILE A 44 ARG A 50 A 4 VAL A 55 ? ASP A 66 ? VAL A 55 ASP A 66 A 5 LYS A 78 ? LYS A 86 ? LYS A 78 LYS A 86 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 O PHE A 19 ? O PHE A 19 N PHE A 6 ? N PHE A 6 A 2 3 N ASN A 5 ? N ASN A 5 O ARG A 50 ? O ARG A 50 A 3 4 N ILE A 45 ? N ILE A 45 O PHE A 58 ? O PHE A 58 A 4 5 N TRP A 61 ? N TRP A 61 O PHE A 83 ? O PHE A 83 # _atom_sites.entry_id 2NBJ _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 S # 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 SER 1 1 1 SER SER A . n A 1 2 ASN 2 2 2 ASN ASN A . n A 1 3 THR 3 3 3 THR THR A . n A 1 4 ARG 4 4 4 ARG ARG A . n A 1 5 ASN 5 5 5 ASN ASN A . n A 1 6 PHE 6 6 6 PHE PHE A . n A 1 7 VAL 7 7 7 VAL VAL A . n A 1 8 LEU 8 8 8 LEU LEU A . n A 1 9 ARG 9 9 9 ARG ARG A . n A 1 10 ASP 10 10 10 ASP ASP A . n A 1 11 GLU 11 11 11 GLU GLU A . n A 1 12 ASP 12 12 12 ASP ASP A . n A 1 13 GLY 13 13 13 GLY GLY A . n A 1 14 ASN 14 14 14 ASN ASN A . n A 1 15 GLU 15 15 15 GLU GLU A . n A 1 16 HIS 16 16 16 HIS HIS A . n A 1 17 GLY 17 17 17 GLY GLY A . n A 1 18 VAL 18 18 18 VAL VAL A . n A 1 19 PHE 19 19 19 PHE PHE A . n A 1 20 THR 20 20 20 THR THR A . n A 1 21 GLY 21 21 21 GLY GLY A . n A 1 22 LYS 22 22 22 LYS LYS A . n A 1 23 GLN 23 23 23 GLN GLN A . n A 1 24 PRO 24 24 24 PRO PRO A . n A 1 25 ARG 25 25 25 ARG ARG A . n A 1 26 GLN 26 26 26 GLN GLN A . n A 1 27 ALA 27 27 27 ALA ALA A . n A 1 28 ALA 28 28 28 ALA ALA A . n A 1 29 LEU 29 29 29 LEU LEU A . n A 1 30 LYS 30 30 30 LYS LYS A . n A 1 31 ALA 31 31 31 ALA ALA A . n A 1 32 ALA 32 32 32 ALA ALA A . n A 1 33 ASN 33 33 33 ASN ASN A . n A 1 34 ARG 34 34 34 ARG ARG A . n A 1 35 GLY 35 35 35 GLY GLY A . n A 1 36 SER 36 36 36 SER SER A . n A 1 37 GLY 37 37 37 GLY GLY A . n A 1 38 THR 38 38 38 THR THR A . n A 1 39 LYS 39 39 39 LYS LYS A . n A 1 40 ALA 40 40 40 ALA ALA A . n A 1 41 ASN 41 41 41 ASN ASN A . n A 1 42 PRO 42 42 42 PRO PRO A . n A 1 43 ASP 43 43 43 ASP ASP A . n A 1 44 ILE 44 44 44 ILE ILE A . n A 1 45 ILE 45 45 45 ILE ILE A . n A 1 46 ARG 46 46 46 ARG ARG A . n A 1 47 LEU 47 47 47 LEU LEU A . n A 1 48 ARG 48 48 48 ARG ARG A . n A 1 49 GLU 49 49 49 GLU GLU A . n A 1 50 ARG 50 50 50 ARG ARG A . n A 1 51 GLY 51 51 51 GLY GLY A . n A 1 52 THR 52 52 52 THR THR A . n A 1 53 LYS 53 53 53 LYS LYS A . n A 1 54 LYS 54 54 54 LYS LYS A . n A 1 55 VAL 55 55 55 VAL VAL A . n A 1 56 HIS 56 56 56 HIS HIS A . n A 1 57 VAL 57 57 57 VAL VAL A . n A 1 58 PHE 58 58 58 PHE PHE A . n A 1 59 LYS 59 59 59 LYS LYS A . n A 1 60 ALA 60 60 60 ALA ALA A . n A 1 61 TRP 61 61 61 TRP TRP A . n A 1 62 LYS 62 62 62 LYS LYS A . n A 1 63 GLU 63 63 63 GLU GLU A . n A 1 64 ILE 64 64 64 ILE ILE A . n A 1 65 VAL 65 65 65 VAL VAL A . n A 1 66 ASP 66 66 66 ASP ASP A . n A 1 67 ALA 67 67 67 ALA ALA A . n A 1 68 PRO 68 68 68 PRO PRO A . n A 1 69 LYS 69 69 69 LYS LYS A . n A 1 70 ASN 70 70 70 ASN ASN A . n A 1 71 ARG 71 71 71 ARG ARG A . n A 1 72 PRO 72 72 72 PRO PRO A . n A 1 73 ALA 73 73 73 ALA ALA A . n A 1 74 TRP 74 74 74 TRP TRP A . n A 1 75 MET 75 75 75 MET MET A . n A 1 76 PRO 76 76 76 PRO PRO A . n A 1 77 GLU 77 77 77 GLU GLU A . n A 1 78 LYS 78 78 78 LYS LYS A . n A 1 79 ILE 79 79 79 ILE ILE A . n A 1 80 SER 80 80 80 SER SER A . n A 1 81 LYS 81 81 81 LYS LYS A . n A 1 82 PRO 82 82 82 PRO PRO A . n A 1 83 PHE 83 83 83 PHE PHE A . n A 1 84 VAL 84 84 84 VAL VAL A . n A 1 85 LYS 85 85 85 LYS LYS A . n A 1 86 LYS 86 86 86 LYS LYS A . n A 1 87 GLU 87 87 87 GLU GLU A . n A 1 88 ARG 88 88 88 ARG ARG A . n A 1 89 ILE 89 89 89 ILE ILE A . n A 1 90 GLU 90 90 90 GLU GLU A . n A 1 91 LYS 91 91 91 LYS LYS A . n A 1 92 LEU 92 92 92 LEU LEU A . n A 1 93 GLU 93 93 93 GLU GLU A . n B 2 1 DA 1 1 1 DA ADE B . n B 2 2 DA 2 2 2 DA ADE B . n B 2 3 DA 3 3 3 DA ADE B . n B 2 4 DA 4 4 4 DA ADE B . n B 2 5 DA 5 5 5 DA ADE B . n B 2 6 DC 6 6 6 DC CYT B . n B 2 7 DA 7 7 7 DA ADE B . n B 2 8 DC 8 8 8 DC CYT B . n B 2 9 DA 9 9 9 DA ADE B . n B 2 10 DC 10 10 10 DC CYT B . n B 2 11 DA 11 11 11 DA ADE B . n B 2 12 DC 12 12 12 DC CYT B . n B 2 13 DC 13 13 13 DC CYT B . n B 2 14 DC 14 14 14 DC CYT B . n B 2 15 DA 15 15 15 DA ADE B . n C 3 1 DT 1 16 16 DT THY C . n C 3 2 DG 2 17 17 DG GUA C . n C 3 3 DG 3 18 18 DG GUA C . n C 3 4 DG 4 19 19 DG GUA C . n C 3 5 DT 5 20 20 DT THY C . n C 3 6 DG 6 21 21 DG GUA C . n C 3 7 DT 7 22 22 DT THY C . n C 3 8 DG 8 23 23 DG GUA C . n C 3 9 DT 9 24 24 DT THY C . n C 3 10 DG 10 25 25 DG GUA C . n C 3 11 DT 11 26 26 DT THY C . n C 3 12 DT 12 27 27 DT THY C . n C 3 13 DT 13 28 28 DT THY C . n C 3 14 DT 14 29 29 DT THY C . n C 3 15 DT 15 30 30 DT THY C . 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 # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2017-03-01 # _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 ? # loop_ _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_range _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling _pdbx_nmr_exptl_sample.solution_id entity_1-1 1.18 ? mM '[U-100% 15N]' 1 DNA-2 1.18 ? mM '[U-100% 13C; U-100% 15N] A1-A15' 1 'sodium phosphate-3' 10 ? mM ? 1 'sodium chloride-4' 100 ? mM ? 1 EDTA-5 1 ? mM ? 1 entity_1-6 0.85 ? mM '[U-100% 15N]' 2 DNA-7 0.85 ? mM '[U-100% 13C; U-100% 15N] A1-A15' 2 'sodium phosphate-8' 10 ? mM ? 2 'sodium chloride-9' 100 ? mM ? 2 EDTA-10 1 ? mM ? 2 'Pf1 phage-11' 10 ? mg/mL ? 2 # 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 "H2''" C DT 24 ? ? "H5''" C DG 25 ? ? 1.31 2 1 "H2''" B DA 1 ? ? "H5''" B DA 2 ? ? 1.34 3 1 OD1 A ASP 66 ? ? HH22 A ARG 71 ? ? 1.55 4 1 HZ3 A LYS 59 ? ? OE2 A GLU 87 ? ? 1.57 5 1 HZ3 A LYS 85 ? ? OE1 A GLU 87 ? ? 1.58 6 1 OD1 A ASP 66 ? ? HZ1 A LYS 69 ? ? 1.58 7 1 O A ILE 89 ? ? "HO3'" C DT 30 ? ? 1.59 8 2 "H2''" C DT 24 ? ? "H5''" C DG 25 ? ? 1.30 9 2 HZ3 A LYS 59 ? ? OE2 A GLU 87 ? ? 1.55 10 2 HZ3 A LYS 85 ? ? OE1 A GLU 87 ? ? 1.59 11 3 "H2''" B DA 4 ? ? H8 B DA 5 ? ? 1.32 12 3 OE1 A GLU 77 ? ? HZ2 A LYS 78 ? ? 1.56 13 3 HZ2 A LYS 39 ? ? OE1 A GLU 63 ? ? 1.59 14 3 HZ3 A LYS 59 ? ? OE2 A GLU 87 ? ? 1.60 15 4 "H2''" C DT 24 ? ? "H5''" C DG 25 ? ? 1.27 16 4 "H2''" B DA 1 ? ? "H5''" B DA 2 ? ? 1.33 17 4 "H2''" B DA 4 ? ? H8 B DA 5 ? ? 1.34 18 4 OD1 A ASP 66 ? ? HZ2 A LYS 69 ? ? 1.56 19 4 HZ3 A LYS 53 ? ? OE1 A GLU 93 ? ? 1.56 20 4 OE1 A GLU 77 ? ? HZ3 A LYS 78 ? ? 1.58 21 4 OD2 A ASP 66 ? ? HZ2 A LYS 81 ? ? 1.60 22 5 "H2''" B DC 10 ? ? "H4'" B DA 11 ? ? 1.12 23 5 "H2''" C DT 24 ? ? "H5''" C DG 25 ? ? 1.22 24 5 "H2''" B DA 4 ? ? H8 B DA 5 ? ? 1.35 25 5 HZ2 A LYS 39 ? ? OE1 A GLU 63 ? ? 1.57 26 5 OD2 A ASP 66 ? ? HZ2 A LYS 81 ? ? 1.59 27 5 OD1 A ASP 66 ? ? HH22 A ARG 71 ? ? 1.59 28 5 HE A ARG 34 ? ? OD2 A ASP 43 ? ? 1.60 29 6 "H2''" C DT 24 ? ? "H5''" C DG 25 ? ? 1.20 30 6 "H2''" C DT 22 ? ? "H5'" C DG 23 ? ? 1.26 31 6 "H2''" B DA 1 ? ? "H5''" B DA 2 ? ? 1.31 32 6 OE2 A GLU 11 ? ? HH22 A ARG 46 ? ? 1.58 33 6 OD1 A ASP 66 ? ? HZ1 A LYS 69 ? ? 1.59 34 6 HZ3 A LYS 39 ? ? OE1 A GLU 63 ? ? 1.59 35 6 OE1 A GLU 77 ? ? HZ3 A LYS 78 ? ? 1.60 36 7 "H2''" C DT 24 ? ? "H5''" C DG 25 ? ? 1.25 37 7 "H2''" B DA 4 ? ? H8 B DA 5 ? ? 1.27 38 7 HZ1 A LYS 39 ? ? OE1 A GLU 63 ? ? 1.60 39 7 OD1 A ASP 66 ? ? HZ3 A LYS 69 ? ? 1.60 40 8 OD1 A ASP 66 ? ? HZ1 A LYS 69 ? ? 1.57 41 9 "H2''" C DT 24 ? ? "H5''" C DG 25 ? ? 1.08 42 9 "H4'" B DA 4 ? ? "H4'" C DT 30 ? ? 1.34 43 9 OD1 A ASP 66 ? ? HH22 A ARG 71 ? ? 1.58 44 9 OE1 A GLU 77 ? ? HZ2 A LYS 78 ? ? 1.58 45 9 HZ3 A LYS 59 ? ? OE2 A GLU 87 ? ? 1.59 46 10 "H2''" C DT 24 ? ? "H5''" C DG 25 ? ? 1.27 47 10 "H2''" B DA 4 ? ? H8 B DA 5 ? ? 1.33 48 10 HZ3 A LYS 59 ? ? OE2 A GLU 87 ? ? 1.59 49 11 "H2''" B DA 4 ? ? H8 B DA 5 ? ? 1.29 50 11 "H2''" B DA 1 ? ? "H5''" B DA 2 ? ? 1.32 51 11 OD1 A ASP 66 ? ? HZ2 A LYS 69 ? ? 1.58 52 11 HZ2 A LYS 59 ? ? OE1 A GLU 87 ? ? 1.58 53 12 "H2''" C DT 24 ? ? "H5''" C DG 25 ? ? 1.15 54 12 HZ1 A LYS 53 ? ? OE1 A GLU 93 ? ? 1.59 55 12 HZ3 A LYS 53 ? ? O A GLU 93 ? ? 1.60 # 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 5 "C3'" B DA 15 ? ? "C2'" B DA 15 ? ? "C1'" B DA 15 ? ? 97.40 102.40 -5.00 0.80 N 2 7 "C3'" B DA 15 ? ? "C2'" B DA 15 ? ? "C1'" B DA 15 ? ? 97.54 102.40 -4.86 0.80 N # 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 ASP A 10 ? ? -83.08 -124.96 2 1 HIS A 16 ? ? -90.06 -123.46 3 1 LYS A 22 ? ? -157.05 -58.57 4 1 THR A 38 ? ? -160.28 -119.06 5 1 LYS A 39 ? ? -70.31 -79.96 6 1 ASN A 41 ? ? 174.73 106.54 7 1 ASP A 66 ? ? 134.59 -169.48 8 1 PRO A 68 ? ? -55.58 104.23 9 1 LYS A 69 ? ? -115.94 -97.69 10 1 ALA A 73 ? ? -27.81 -51.92 11 1 PRO A 76 ? ? -102.61 -143.66 12 1 GLU A 77 ? ? 54.24 -124.78 13 1 GLU A 87 ? ? -80.99 -70.13 14 1 ARG A 88 ? ? -168.96 114.33 15 2 ASN A 2 ? ? -163.35 114.22 16 2 ASP A 10 ? ? -81.04 -125.50 17 2 HIS A 16 ? ? -89.45 -126.62 18 2 THR A 20 ? ? -140.93 55.17 19 2 LYS A 22 ? ? -148.11 -72.67 20 2 ALA A 32 ? ? -63.49 2.00 21 2 THR A 38 ? ? -172.59 -105.33 22 2 LYS A 39 ? ? -77.43 -85.09 23 2 ASN A 41 ? ? 179.78 129.27 24 2 THR A 52 ? ? -127.10 -166.37 25 2 LYS A 53 ? ? -110.68 74.25 26 2 ASP A 66 ? ? 139.75 -174.04 27 2 PRO A 68 ? ? -46.88 96.10 28 2 LYS A 69 ? ? -110.78 -120.22 29 2 ALA A 73 ? ? -25.80 -56.97 30 2 PRO A 76 ? ? -102.44 -131.48 31 2 GLU A 77 ? ? 49.24 -127.07 32 2 GLU A 87 ? ? -83.04 -77.67 33 2 ARG A 88 ? ? -163.78 117.50 34 3 ASP A 10 ? ? -88.32 -125.81 35 3 HIS A 16 ? ? -89.78 -126.08 36 3 LYS A 22 ? ? -165.96 -43.97 37 3 ALA A 32 ? ? -67.44 0.91 38 3 THR A 38 ? ? -170.59 -105.55 39 3 LYS A 39 ? ? -73.49 -87.43 40 3 ASN A 41 ? ? -172.49 120.47 41 3 LYS A 53 ? ? -62.46 94.69 42 3 ASP A 66 ? ? 138.57 -173.19 43 3 PRO A 68 ? ? -55.01 96.80 44 3 LYS A 69 ? ? -104.54 -123.75 45 3 ALA A 73 ? ? -27.60 -55.21 46 3 MET A 75 ? ? -119.68 79.13 47 3 PRO A 76 ? ? -103.03 -146.79 48 3 GLU A 77 ? ? 49.13 -122.57 49 3 LYS A 86 ? ? -56.18 102.15 50 3 GLU A 87 ? ? -83.96 -70.64 51 3 ARG A 88 ? ? -167.94 116.04 52 4 ASP A 10 ? ? -85.26 -127.77 53 4 HIS A 16 ? ? -98.07 -122.25 54 4 LYS A 22 ? ? -159.39 -50.15 55 4 THR A 38 ? ? -157.12 -119.77 56 4 LYS A 39 ? ? -72.04 -76.50 57 4 ASN A 41 ? ? -179.02 109.34 58 4 ARG A 50 ? ? -102.03 69.32 59 4 ASP A 66 ? ? 146.23 -175.80 60 4 PRO A 68 ? ? -51.53 94.65 61 4 LYS A 69 ? ? -102.90 -131.74 62 4 ALA A 73 ? ? -25.91 -53.59 63 4 PRO A 76 ? ? -102.25 -146.69 64 4 GLU A 77 ? ? 52.79 -121.75 65 4 LYS A 86 ? ? -53.32 103.98 66 4 ARG A 88 ? ? -173.66 107.70 67 5 ASP A 10 ? ? -78.62 -127.76 68 5 HIS A 16 ? ? -97.84 -118.65 69 5 LYS A 22 ? ? -154.49 -61.09 70 5 ALA A 32 ? ? -63.61 0.35 71 5 THR A 38 ? ? -168.12 -109.43 72 5 LYS A 39 ? ? -72.43 -81.51 73 5 ASN A 41 ? ? 179.84 101.10 74 5 ASP A 66 ? ? 136.47 -170.05 75 5 PRO A 68 ? ? -50.04 94.95 76 5 LYS A 69 ? ? -111.01 -94.84 77 5 PRO A 76 ? ? -100.93 -142.78 78 5 GLU A 77 ? ? 56.73 -124.91 79 5 LYS A 86 ? ? -57.35 103.12 80 5 GLU A 87 ? ? -84.92 -71.98 81 5 ARG A 88 ? ? -169.75 118.86 82 6 ASP A 10 ? ? -85.91 -129.81 83 6 HIS A 16 ? ? -89.25 -123.62 84 6 LYS A 22 ? ? -170.65 -49.40 85 6 ALA A 32 ? ? -66.02 1.80 86 6 THR A 38 ? ? -163.48 -109.64 87 6 LYS A 39 ? ? -73.70 -82.74 88 6 ASN A 41 ? ? -178.14 99.75 89 6 ASP A 66 ? ? 138.49 -173.13 90 6 PRO A 68 ? ? -53.82 95.27 91 6 LYS A 69 ? ? -103.51 -127.33 92 6 PRO A 76 ? ? -100.07 -148.72 93 6 GLU A 77 ? ? 51.63 -116.51 94 6 LYS A 86 ? ? -57.78 104.66 95 6 GLU A 87 ? ? -81.78 -75.14 96 6 ARG A 88 ? ? -169.59 111.99 97 7 ASP A 10 ? ? -79.27 -127.66 98 7 HIS A 16 ? ? -90.40 -127.43 99 7 LYS A 22 ? ? -163.82 -52.90 100 7 THR A 38 ? ? -162.71 -117.54 101 7 LYS A 39 ? ? -73.09 -79.78 102 7 ASN A 41 ? ? -175.17 117.14 103 7 ASP A 66 ? ? 141.14 -168.47 104 7 PRO A 68 ? ? -52.70 90.91 105 7 LYS A 69 ? ? -102.16 -124.66 106 7 PRO A 76 ? ? -98.39 -143.73 107 7 GLU A 77 ? ? 53.30 -123.88 108 7 LYS A 86 ? ? -57.66 104.04 109 7 ARG A 88 ? ? -171.17 116.04 110 8 ASP A 10 ? ? -83.41 -125.25 111 8 HIS A 16 ? ? -88.13 -119.60 112 8 LYS A 22 ? ? -151.55 -54.68 113 8 THR A 38 ? ? -169.53 -107.61 114 8 LYS A 39 ? ? -79.39 -83.82 115 8 ASN A 41 ? ? 175.87 91.29 116 8 THR A 52 ? ? -128.70 -166.87 117 8 ASP A 66 ? ? 140.89 -173.20 118 8 PRO A 68 ? ? -53.82 93.64 119 8 LYS A 69 ? ? -102.51 -121.72 120 8 ALA A 73 ? ? -27.45 -55.06 121 8 PRO A 76 ? ? -103.42 -149.98 122 8 GLU A 77 ? ? 53.76 -122.43 123 8 LYS A 86 ? ? -55.89 102.88 124 8 ARG A 88 ? ? -170.20 128.28 125 9 ASP A 10 ? ? -81.82 -126.50 126 9 HIS A 16 ? ? -88.97 -124.43 127 9 LYS A 22 ? ? -153.68 -58.63 128 9 THR A 38 ? ? -164.67 -109.05 129 9 LYS A 39 ? ? -79.44 -83.38 130 9 ASN A 41 ? ? 174.14 92.27 131 9 ASP A 66 ? ? 136.54 -169.95 132 9 PRO A 68 ? ? -49.85 98.66 133 9 LYS A 69 ? ? -110.68 -104.57 134 9 ALA A 73 ? ? -26.39 -56.50 135 9 PRO A 76 ? ? -104.44 -137.33 136 9 GLU A 77 ? ? 53.63 -123.58 137 9 LYS A 86 ? ? -59.11 103.48 138 9 GLU A 87 ? ? -81.05 -70.91 139 9 ARG A 88 ? ? -169.99 110.95 140 10 ASP A 10 ? ? -82.59 -124.69 141 10 HIS A 16 ? ? -89.92 -124.88 142 10 LYS A 22 ? ? -153.17 -56.81 143 10 THR A 38 ? ? -171.15 -102.17 144 10 LYS A 39 ? ? -79.57 -91.01 145 10 ASN A 41 ? ? 175.82 105.67 146 10 ASP A 66 ? ? 141.01 -175.43 147 10 PRO A 68 ? ? -52.73 89.22 148 10 LYS A 69 ? ? -98.78 -136.51 149 10 ALA A 73 ? ? -27.66 -54.49 150 10 PRO A 76 ? ? -98.65 -154.38 151 10 GLU A 77 ? ? 54.89 -117.94 152 10 LYS A 86 ? ? -56.79 104.20 153 10 GLU A 87 ? ? -82.29 -70.45 154 10 ARG A 88 ? ? -172.76 116.65 155 11 ASP A 10 ? ? -90.30 -129.40 156 11 HIS A 16 ? ? -88.35 -127.83 157 11 LYS A 22 ? ? -163.59 -45.68 158 11 ALA A 32 ? ? -67.60 5.28 159 11 THR A 38 ? ? -167.02 -102.68 160 11 LYS A 39 ? ? -82.16 -85.30 161 11 ASN A 41 ? ? -174.83 114.19 162 11 LYS A 53 ? ? -102.84 64.09 163 11 ASP A 66 ? ? 143.18 -174.85 164 11 PRO A 68 ? ? -56.71 91.45 165 11 LYS A 69 ? ? -98.20 -127.22 166 11 PRO A 76 ? ? -103.53 -134.87 167 11 GLU A 77 ? ? 49.05 -123.20 168 11 LYS A 86 ? ? -59.36 105.09 169 11 GLU A 87 ? ? -81.32 -70.99 170 11 ARG A 88 ? ? -172.25 113.02 171 12 ASN A 2 ? ? -167.34 118.31 172 12 ASP A 10 ? ? -85.05 -128.67 173 12 HIS A 16 ? ? -100.50 -123.35 174 12 LYS A 22 ? ? -162.34 -36.82 175 12 ALA A 32 ? ? -67.39 4.97 176 12 THR A 38 ? ? -169.55 -101.62 177 12 LYS A 39 ? ? -79.99 -88.28 178 12 ASN A 41 ? ? -178.93 91.19 179 12 LYS A 53 ? ? -63.56 69.76 180 12 ASP A 66 ? ? 139.26 -174.44 181 12 PRO A 68 ? ? -57.06 93.71 182 12 LYS A 69 ? ? -104.07 -121.44 183 12 PRO A 76 ? ? -100.91 -152.07 184 12 GLU A 77 ? ? 46.96 -118.00 185 12 LYS A 86 ? ? -56.60 102.99 186 12 ARG A 88 ? ? -172.51 117.97 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2NBJ 'double helix' 2NBJ '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 B DA 1 1_555 C DT 15 1_555 -0.684 -0.288 0.401 15.702 5.645 -1.171 1 B_DA1:DT30_C B 1 ? C 30 ? 20 1 1 B DA 3 1_555 C DT 13 1_555 0.125 -0.036 -0.499 18.682 -33.045 5.451 2 B_DA3:DT28_C B 3 ? C 28 ? 20 1 1 B DA 4 1_555 C DT 12 1_555 -0.626 -0.450 -0.486 3.180 -37.189 24.590 3 B_DA4:DT27_C B 4 ? C 27 ? 20 1 1 B DA 5 1_555 C DT 11 1_555 -0.035 -0.396 1.267 -1.004 -5.950 11.364 4 B_DA5:DT26_C B 5 ? C 26 ? 20 1 1 B DC 6 1_555 C DG 10 1_555 1.114 -0.339 -0.101 4.844 6.095 3.734 5 B_DC6:DG25_C B 6 ? C 25 ? 19 1 1 B DA 7 1_555 C DT 9 1_555 -0.496 -0.301 -0.521 14.560 2.058 0.926 6 B_DA7:DT24_C B 7 ? C 24 ? 20 1 1 B DC 8 1_555 C DG 8 1_555 1.063 -0.183 -1.025 40.718 -23.772 -1.660 7 B_DC8:DG23_C B 8 ? C 23 ? 19 1 1 B DA 9 1_555 C DT 7 1_555 -0.107 -0.832 1.359 -20.692 -10.102 -16.675 8 B_DA9:DT22_C B 9 ? C 22 ? 20 1 1 B DC 10 1_555 C DG 6 1_555 0.269 0.008 0.951 -31.075 11.665 -2.119 9 B_DC10:DG21_C B 10 ? C 21 ? 19 1 1 B DA 11 1_555 C DT 5 1_555 0.106 -0.149 0.539 0.643 -15.314 6.958 10 B_DA11:DT20_C B 11 ? C 20 ? 20 1 1 B DC 12 1_555 C DG 4 1_555 -0.751 -0.193 -0.017 8.521 -3.397 -7.104 11 B_DC12:DG19_C B 12 ? C 19 ? 19 1 1 B DC 13 1_555 C DG 3 1_555 0.318 -0.573 0.938 20.594 -15.875 -11.652 12 B_DC13:DG18_C B 13 ? C 18 ? 19 1 1 B DC 14 1_555 C DG 2 1_555 -1.601 -0.666 -1.722 7.634 21.401 -43.079 13 B_DC14:DG17_C B 14 ? C 17 ? ? 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 B DA 3 1_555 C DT 13 1_555 B DA 4 1_555 C DT 12 1_555 0.651 0.599 3.394 -5.444 1.746 37.053 0.697 -1.747 3.293 2.728 8.503 37.477 1 BB_DA3DA4:DT27DT28_CC B 3 ? C 28 ? B 4 ? C 27 ? 1 B DA 4 1_555 C DT 12 1_555 B DA 5 1_555 C DT 11 1_555 1.005 1.671 4.428 -13.569 -44.533 56.874 3.240 -1.408 2.462 -40.267 12.269 72.243 2 BB_DA4DA5:DT26DT27_CC B 4 ? C 27 ? B 5 ? C 26 ? 1 B DA 5 1_555 C DT 11 1_555 B DC 6 1_555 C DG 10 1_555 -1.398 -0.181 3.263 9.770 -3.333 35.000 0.148 3.516 2.791 -5.398 -15.825 36.445 3 BB_DA5DC6:DG25DT26_CC B 5 ? C 26 ? B 6 ? C 25 ? 1 B DC 6 1_555 C DG 10 1_555 B DA 7 1_555 C DT 9 1_555 -2.027 0.166 2.875 -0.322 11.679 32.982 -1.301 3.332 2.791 19.812 0.547 34.936 4 BB_DC6DA7:DT24DG25_CC B 6 ? C 25 ? B 7 ? C 24 ? 1 B DA 7 1_555 C DT 9 1_555 B DC 8 1_555 C DG 8 1_555 -0.491 1.786 2.440 9.254 6.102 29.512 2.404 2.251 2.488 11.481 -17.412 31.482 5 BB_DA7DC8:DG23DT24_CC B 7 ? C 24 ? B 8 ? C 23 ? 1 B DC 8 1_555 C DG 8 1_555 B DA 9 1_555 C DT 7 1_555 -1.165 0.114 4.867 -26.461 15.112 51.944 -1.101 -0.958 4.790 15.810 27.683 59.682 6 BB_DC8DA9:DT22DG23_CC B 8 ? C 23 ? B 9 ? C 22 ? 1 B DA 9 1_555 C DT 7 1_555 B DC 10 1_555 C DG 6 1_555 1.545 -1.337 3.832 2.974 12.386 31.983 -4.435 -2.094 3.235 21.446 -5.149 34.365 7 BB_DA9DC10:DG21DT22_CC B 9 ? C 22 ? B 10 ? C 21 ? 1 B DC 10 1_555 C DG 6 1_555 B DA 11 1_555 C DT 5 1_555 3.409 -0.501 3.563 28.944 -63.746 19.626 3.230 -1.228 2.815 -69.494 -31.554 72.369 8 BB_DC10DA11:DT20DG21_CC B 10 ? C 21 ? B 11 ? C 20 ? 1 B DA 11 1_555 C DT 5 1_555 B DC 12 1_555 C DG 4 1_555 -1.225 -0.565 3.077 1.947 6.962 24.221 -3.124 3.314 2.706 16.138 -4.513 25.261 9 BB_DA11DC12:DG19DT20_CC B 11 ? C 20 ? B 12 ? C 19 ? 1 B DC 12 1_555 C DG 4 1_555 B DC 13 1_555 C DG 3 1_555 -1.724 0.563 3.643 -7.444 17.251 35.580 -1.566 1.485 3.791 26.109 11.267 40.093 10 BB_DC12DC13:DG18DG19_CC B 12 ? C 19 ? B 13 ? C 18 ? 1 B DC 13 1_555 C DG 3 1_555 B DC 14 1_555 C DG 2 1_555 -0.610 2.351 3.708 27.991 -10.275 31.890 4.171 3.525 1.830 -15.198 -41.402 43.392 11 BB_DC13DC14:DG17DG18_CC B 13 ? C 18 ? B 14 ? C 17 ? #