data_2K8B # _entry.id 2K8B # _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 2K8B pdb_00002k8b 10.2210/pdb2k8b/pdb RCSB RCSB100802 ? ? WWPDB D_1000100802 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.content_type _pdbx_database_related.details PDB 2K89 unspecified 'Solution structure of Ubiquitin-binding domain PLAA (PFUC, Gly76-Pro77 cis isomer)' PDB 2K8A unspecified 'Solution structure of Ubiquitin-binding domain PLAA (PFUC, Gly76-Pro77 trans isomer)' PDB 2K8C unspecified 'Solution structure of PLAA family ubiquitin binding domain (PFUC) trans isomer in complex with ubiquitin' # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2K8B _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2008-09-04 _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.pdb_format_compatible Y _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 'Fu, Q.S.' 1 'Zhou, C.J.' 2 'Gao, H.C.' 3 'Lin, D.H.' 4 'Hu, H.Y.' 5 # _citation.id primary _citation.title 'Structural Basis for Ubiquitin Recognition by a Novel Domain from Human Phospholipase A2-activating Protein.' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 284 _citation.page_first 19043 _citation.page_last 19052 _citation.year 2009 _citation.journal_id_ASTM JBCHA3 _citation.country US _citation.journal_id_ISSN 0021-9258 _citation.journal_id_CSD 0071 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 19423704 _citation.pdbx_database_id_DOI 10.1074/jbc.M109.009126 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Fu, Q.S.' 1 ? primary 'Zhou, C.J.' 2 ? primary 'Gao, H.C.' 3 ? primary 'Jiang, Y.J.' 4 ? primary 'Zhou, Z.R.' 5 ? primary 'Hong, J.' 6 ? primary 'Yao, W.M.' 7 ? primary 'Song, A.X.' 8 ? primary 'Lin, D.H.' 9 ? primary 'Hu, H.Y.' 10 ? # 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 Ubiquitin 8576.831 1 ? ? ? ? 2 polymer man 'Phospholipase A-2-activating protein' 9032.011 1 ? ? 'UNP residues 386-465' ? # _entity_name_com.entity_id 2 _entity_name_com.name 'PLA2P, PLAP' # 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 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG A ? 2 'polypeptide(L)' no no ANQQTSGKVLYEGKEFDYVFSIDVNEGGPSYKLPYNTSDDPWLTAYNFLQKNDLNPMFLDQVAKFIIDNTKGQMLGLGNP ANQQTSGKVLYEGKEFDYVFSIDVNEGGPSYKLPYNTSDDPWLTAYNFLQKNDLNPMFLDQVAKFIIDNTKGQMLGLGNP B ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MET n 1 2 GLN n 1 3 ILE n 1 4 PHE n 1 5 VAL n 1 6 LYS n 1 7 THR n 1 8 LEU n 1 9 THR n 1 10 GLY n 1 11 LYS n 1 12 THR n 1 13 ILE n 1 14 THR n 1 15 LEU n 1 16 GLU n 1 17 VAL n 1 18 GLU n 1 19 PRO n 1 20 SER n 1 21 ASP n 1 22 THR n 1 23 ILE n 1 24 GLU n 1 25 ASN n 1 26 VAL n 1 27 LYS n 1 28 ALA n 1 29 LYS n 1 30 ILE n 1 31 GLN n 1 32 ASP n 1 33 LYS n 1 34 GLU n 1 35 GLY n 1 36 ILE n 1 37 PRO n 1 38 PRO n 1 39 ASP n 1 40 GLN n 1 41 GLN n 1 42 ARG n 1 43 LEU n 1 44 ILE n 1 45 PHE n 1 46 ALA n 1 47 GLY n 1 48 LYS n 1 49 GLN n 1 50 LEU n 1 51 GLU n 1 52 ASP n 1 53 GLY n 1 54 ARG n 1 55 THR n 1 56 LEU n 1 57 SER n 1 58 ASP n 1 59 TYR n 1 60 ASN n 1 61 ILE n 1 62 GLN n 1 63 LYS n 1 64 GLU n 1 65 SER n 1 66 THR n 1 67 LEU n 1 68 HIS n 1 69 LEU n 1 70 VAL n 1 71 LEU n 1 72 ARG n 1 73 LEU n 1 74 ARG n 1 75 GLY n 1 76 GLY n 2 1 ALA n 2 2 ASN n 2 3 GLN n 2 4 GLN n 2 5 THR n 2 6 SER n 2 7 GLY n 2 8 LYS n 2 9 VAL n 2 10 LEU n 2 11 TYR n 2 12 GLU n 2 13 GLY n 2 14 LYS n 2 15 GLU n 2 16 PHE n 2 17 ASP n 2 18 TYR n 2 19 VAL n 2 20 PHE n 2 21 SER n 2 22 ILE n 2 23 ASP n 2 24 VAL n 2 25 ASN n 2 26 GLU n 2 27 GLY n 2 28 GLY n 2 29 PRO n 2 30 SER n 2 31 TYR n 2 32 LYS n 2 33 LEU n 2 34 PRO n 2 35 TYR n 2 36 ASN n 2 37 THR n 2 38 SER n 2 39 ASP n 2 40 ASP n 2 41 PRO n 2 42 TRP n 2 43 LEU n 2 44 THR n 2 45 ALA n 2 46 TYR n 2 47 ASN n 2 48 PHE n 2 49 LEU n 2 50 GLN n 2 51 LYS n 2 52 ASN n 2 53 ASP n 2 54 LEU n 2 55 ASN n 2 56 PRO n 2 57 MET n 2 58 PHE n 2 59 LEU n 2 60 ASP n 2 61 GLN n 2 62 VAL n 2 63 ALA n 2 64 LYS n 2 65 PHE n 2 66 ILE n 2 67 ILE n 2 68 ASP n 2 69 ASN n 2 70 THR n 2 71 LYS n 2 72 GLY n 2 73 GLN n 2 74 MET n 2 75 LEU n 2 76 GLY n 2 77 LEU n 2 78 GLY n 2 79 ASN n 2 80 PRO n # loop_ _entity_src_gen.entity_id _entity_src_gen.pdbx_src_id _entity_src_gen.pdbx_alt_source_flag _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 _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 _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id _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 _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id _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 _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 1 1 sample ? ? ? Human ? 'RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC' ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Escherichia coli' 562 ? ? ? ? ? ? 'BL21(DE3)' ? ? ? ? ? ? ? ? pET-22B ? ? ? ? ? 2 1 sample ? ? ? Human ? 'PLAA, PLAP' ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Escherichia coli' 562 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? pET-32M ? ? ? ? ? # 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 UBIQ_HUMAN P62988 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 1 ? 2 UNP PLAP_HUMAN Q9Y263 2 ;ANQQTSGKVLYEGKEFDYVFSIDVNEGGPSYKLPYNTSDDPWLTAYNFLQKNDLNPMFLDQVAKFIIDNTKGQMLGLGNP ; 386 ? # 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 2K8B A 1 ? 76 ? P62988 1 ? 76 ? 1 76 2 2 2K8B B 1 ? 80 ? Q9Y263 386 ? 465 ? 49 128 # 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 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 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 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-15N HSQC' 1 2 2 '2D 1H-15N HSQC' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.ionic_strength '50mM NaCl' _pdbx_nmr_exptl_sample_conditions.pH 6.5 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature 298 _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 '0.2 mM Ubiquitin, 90% H2O, 10% D2O' 1 '90% H2O/10% D2O' '0.2 mM PFUC_cis, 90% H2O, 10% D2O' 2 '90% H2O/10% D2O' # _pdbx_nmr_spectrometer.field_strength 600 _pdbx_nmr_spectrometer.manufacturer Varian _pdbx_nmr_spectrometer.model UNITY _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type 'Varian Unity' # _pdbx_nmr_refine.entry_id 2K8B _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details 'The structures were calculated with HADDOCK by NMR restraint-guided docking' _pdbx_nmr_refine.software_ordinal 1 # _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 '10 structures for lowest energy' _pdbx_nmr_ensemble.conformers_calculated_total_number 1000 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2K8B _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 2K8B _pdbx_nmr_representative.selection_criteria 'lowest energy' # _pdbx_nmr_software.authors 'Brunger, Adams, Clore, Gros, Nilges and Read' _pdbx_nmr_software.classification refinement _pdbx_nmr_software.name CNS _pdbx_nmr_software.version ? _pdbx_nmr_software.ordinal 1 # _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 2K8B _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2K8B _struct.title 'Solution structure of PLAA family ubiquitin binding domain (PFUC) cis isomer in complex with ubiquitin' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2K8B _struct_keywords.pdbx_keywords 'PROTEIN BINDING' _struct_keywords.text 'Ubiquitin in complex with PFUC cis isomer, Cytoplasm, Nucleus, Phosphoprotein, Ubl conjugation, WD repeat, PROTEIN BINDING' # 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 ? # _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 THR A 22 ? GLU A 34 ? THR A 22 GLU A 34 1 ? 13 HELX_P HELX_P2 2 ASP B 40 ? ASP B 53 ? ASP B 88 ASP B 101 1 ? 14 HELX_P HELX_P3 3 PRO B 56 ? GLY B 72 ? PRO B 104 GLY B 120 1 ? 17 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_mon_prot_cis.pdbx_id _struct_mon_prot_cis.label_comp_id _struct_mon_prot_cis.label_seq_id _struct_mon_prot_cis.label_asym_id _struct_mon_prot_cis.label_alt_id _struct_mon_prot_cis.pdbx_PDB_ins_code _struct_mon_prot_cis.auth_comp_id _struct_mon_prot_cis.auth_seq_id _struct_mon_prot_cis.auth_asym_id _struct_mon_prot_cis.pdbx_label_comp_id_2 _struct_mon_prot_cis.pdbx_label_seq_id_2 _struct_mon_prot_cis.pdbx_label_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_ins_code_2 _struct_mon_prot_cis.pdbx_auth_comp_id_2 _struct_mon_prot_cis.pdbx_auth_seq_id_2 _struct_mon_prot_cis.pdbx_auth_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_model_num _struct_mon_prot_cis.pdbx_omega_angle 1 GLY 28 B . ? GLY 76 B PRO 29 B ? PRO 77 B 1 -0.43 2 GLY 28 B . ? GLY 76 B PRO 29 B ? PRO 77 B 2 -0.14 3 GLY 28 B . ? GLY 76 B PRO 29 B ? PRO 77 B 3 -1.20 4 GLY 28 B . ? GLY 76 B PRO 29 B ? PRO 77 B 4 -0.83 5 GLY 28 B . ? GLY 76 B PRO 29 B ? PRO 77 B 5 -0.21 6 GLY 28 B . ? GLY 76 B PRO 29 B ? PRO 77 B 6 -0.20 7 GLY 28 B . ? GLY 76 B PRO 29 B ? PRO 77 B 7 -0.75 8 GLY 28 B . ? GLY 76 B PRO 29 B ? PRO 77 B 8 0.64 9 GLY 28 B . ? GLY 76 B PRO 29 B ? PRO 77 B 9 -0.14 10 GLY 28 B . ? GLY 76 B PRO 29 B ? PRO 77 B 10 -0.27 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 5 ? B ? 2 ? C ? 2 ? # 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 ? parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel B 1 2 ? anti-parallel C 1 2 ? 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 THR A 12 ? GLU A 16 ? THR A 12 GLU A 16 A 2 GLN A 2 ? THR A 7 ? GLN A 2 THR A 7 A 3 THR A 66 ? LEU A 71 ? THR A 66 LEU A 71 A 4 GLN A 41 ? PHE A 45 ? GLN A 41 PHE A 45 A 5 LYS A 48 ? GLN A 49 ? LYS A 48 GLN A 49 B 1 VAL B 9 ? TYR B 11 ? VAL B 57 TYR B 59 B 2 LYS B 14 ? PHE B 16 ? LYS B 62 PHE B 64 C 1 TYR B 18 ? ILE B 22 ? TYR B 66 ILE B 70 C 2 TYR B 31 ? TYR B 35 ? TYR B 79 TYR B 83 # 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 ILE A 13 ? O ILE A 13 N VAL A 5 ? N VAL A 5 A 2 3 N LYS A 6 ? N LYS A 6 O LEU A 67 ? O LEU A 67 A 3 4 O VAL A 70 ? O VAL A 70 N ARG A 42 ? N ARG A 42 A 4 5 N PHE A 45 ? N PHE A 45 O LYS A 48 ? O LYS A 48 B 1 2 N TYR B 11 ? N TYR B 59 O LYS B 14 ? O LYS B 62 C 1 2 N TYR B 18 ? N TYR B 66 O TYR B 35 ? O TYR B 83 # _atom_sites.entry_id 2K8B _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 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 MET 1 1 1 MET MET A . n A 1 2 GLN 2 2 2 GLN GLN A . n A 1 3 ILE 3 3 3 ILE ILE A . n A 1 4 PHE 4 4 4 PHE PHE A . n A 1 5 VAL 5 5 5 VAL VAL A . n A 1 6 LYS 6 6 6 LYS LYS A . n A 1 7 THR 7 7 7 THR THR A . n A 1 8 LEU 8 8 8 LEU LEU A . n A 1 9 THR 9 9 9 THR THR A . n A 1 10 GLY 10 10 10 GLY GLY A . n A 1 11 LYS 11 11 11 LYS LYS A . n A 1 12 THR 12 12 12 THR THR A . n A 1 13 ILE 13 13 13 ILE ILE A . n A 1 14 THR 14 14 14 THR THR A . n A 1 15 LEU 15 15 15 LEU LEU A . n A 1 16 GLU 16 16 16 GLU GLU A . n A 1 17 VAL 17 17 17 VAL VAL A . n A 1 18 GLU 18 18 18 GLU GLU A . n A 1 19 PRO 19 19 19 PRO PRO A . n A 1 20 SER 20 20 20 SER SER A . n A 1 21 ASP 21 21 21 ASP ASP A . n A 1 22 THR 22 22 22 THR THR A . n A 1 23 ILE 23 23 23 ILE ILE A . n A 1 24 GLU 24 24 24 GLU GLU A . n A 1 25 ASN 25 25 25 ASN ASN A . n A 1 26 VAL 26 26 26 VAL VAL A . n A 1 27 LYS 27 27 27 LYS LYS A . n A 1 28 ALA 28 28 28 ALA ALA A . n A 1 29 LYS 29 29 29 LYS LYS A . n A 1 30 ILE 30 30 30 ILE ILE A . n A 1 31 GLN 31 31 31 GLN GLN A . n A 1 32 ASP 32 32 32 ASP ASP A . n A 1 33 LYS 33 33 33 LYS LYS A . n A 1 34 GLU 34 34 34 GLU GLU A . n A 1 35 GLY 35 35 35 GLY GLY A . n A 1 36 ILE 36 36 36 ILE ILE A . n A 1 37 PRO 37 37 37 PRO PRO A . n A 1 38 PRO 38 38 38 PRO PRO A . n A 1 39 ASP 39 39 39 ASP ASP A . n A 1 40 GLN 40 40 40 GLN GLN A . n A 1 41 GLN 41 41 41 GLN GLN A . n A 1 42 ARG 42 42 42 ARG ARG A . n A 1 43 LEU 43 43 43 LEU LEU A . n A 1 44 ILE 44 44 44 ILE ILE A . n A 1 45 PHE 45 45 45 PHE PHE A . n A 1 46 ALA 46 46 46 ALA ALA A . n A 1 47 GLY 47 47 47 GLY GLY A . n A 1 48 LYS 48 48 48 LYS LYS A . n A 1 49 GLN 49 49 49 GLN GLN A . n A 1 50 LEU 50 50 50 LEU LEU A . n A 1 51 GLU 51 51 51 GLU GLU A . n A 1 52 ASP 52 52 52 ASP ASP A . n A 1 53 GLY 53 53 53 GLY GLY A . n A 1 54 ARG 54 54 54 ARG ARG A . n A 1 55 THR 55 55 55 THR THR A . n A 1 56 LEU 56 56 56 LEU LEU A . n A 1 57 SER 57 57 57 SER SER A . n A 1 58 ASP 58 58 58 ASP ASP A . n A 1 59 TYR 59 59 59 TYR TYR A . n A 1 60 ASN 60 60 60 ASN ASN A . n A 1 61 ILE 61 61 61 ILE ILE A . n A 1 62 GLN 62 62 62 GLN GLN A . n A 1 63 LYS 63 63 63 LYS LYS A . n A 1 64 GLU 64 64 64 GLU GLU A . n A 1 65 SER 65 65 65 SER SER A . n A 1 66 THR 66 66 66 THR THR A . n A 1 67 LEU 67 67 67 LEU LEU A . n A 1 68 HIS 68 68 68 HIS HIS A . n A 1 69 LEU 69 69 69 LEU LEU A . n A 1 70 VAL 70 70 70 VAL VAL A . n A 1 71 LEU 71 71 71 LEU LEU A . n A 1 72 ARG 72 72 72 ARG ARG A . n A 1 73 LEU 73 73 73 LEU LEU A . n A 1 74 ARG 74 74 74 ARG ARG A . n A 1 75 GLY 75 75 75 GLY GLY A . n A 1 76 GLY 76 76 76 GLY GLY A . n B 2 1 ALA 1 49 49 ALA ALA B . n B 2 2 ASN 2 50 50 ASN ASN B . n B 2 3 GLN 3 51 51 GLN GLN B . n B 2 4 GLN 4 52 52 GLN GLN B . n B 2 5 THR 5 53 53 THR THR B . n B 2 6 SER 6 54 54 SER SER B . n B 2 7 GLY 7 55 55 GLY GLY B . n B 2 8 LYS 8 56 56 LYS LYS B . n B 2 9 VAL 9 57 57 VAL VAL B . n B 2 10 LEU 10 58 58 LEU LEU B . n B 2 11 TYR 11 59 59 TYR TYR B . n B 2 12 GLU 12 60 60 GLU GLU B . n B 2 13 GLY 13 61 61 GLY GLY B . n B 2 14 LYS 14 62 62 LYS LYS B . n B 2 15 GLU 15 63 63 GLU GLU B . n B 2 16 PHE 16 64 64 PHE PHE B . n B 2 17 ASP 17 65 65 ASP ASP B . n B 2 18 TYR 18 66 66 TYR TYR B . n B 2 19 VAL 19 67 67 VAL VAL B . n B 2 20 PHE 20 68 68 PHE PHE B . n B 2 21 SER 21 69 69 SER SER B . n B 2 22 ILE 22 70 70 ILE ILE B . n B 2 23 ASP 23 71 71 ASP ASP B . n B 2 24 VAL 24 72 72 VAL VAL B . n B 2 25 ASN 25 73 73 ASN ASN B . n B 2 26 GLU 26 74 74 GLU GLU B . n B 2 27 GLY 27 75 75 GLY GLY B . n B 2 28 GLY 28 76 76 GLY GLY B . n B 2 29 PRO 29 77 77 PRO PRO B . n B 2 30 SER 30 78 78 SER SER B . n B 2 31 TYR 31 79 79 TYR TYR B . n B 2 32 LYS 32 80 80 LYS LYS B . n B 2 33 LEU 33 81 81 LEU LEU B . n B 2 34 PRO 34 82 82 PRO PRO B . n B 2 35 TYR 35 83 83 TYR TYR B . n B 2 36 ASN 36 84 84 ASN ASN B . n B 2 37 THR 37 85 85 THR THR B . n B 2 38 SER 38 86 86 SER SER B . n B 2 39 ASP 39 87 87 ASP ASP B . n B 2 40 ASP 40 88 88 ASP ASP B . n B 2 41 PRO 41 89 89 PRO PRO B . n B 2 42 TRP 42 90 90 TRP TRP B . n B 2 43 LEU 43 91 91 LEU LEU B . n B 2 44 THR 44 92 92 THR THR B . n B 2 45 ALA 45 93 93 ALA ALA B . n B 2 46 TYR 46 94 94 TYR TYR B . n B 2 47 ASN 47 95 95 ASN ASN B . n B 2 48 PHE 48 96 96 PHE PHE B . n B 2 49 LEU 49 97 97 LEU LEU B . n B 2 50 GLN 50 98 98 GLN GLN B . n B 2 51 LYS 51 99 99 LYS LYS B . n B 2 52 ASN 52 100 100 ASN ASN B . n B 2 53 ASP 53 101 101 ASP ASP B . n B 2 54 LEU 54 102 102 LEU LEU B . n B 2 55 ASN 55 103 103 ASN ASN B . n B 2 56 PRO 56 104 104 PRO PRO B . n B 2 57 MET 57 105 105 MET MET B . n B 2 58 PHE 58 106 106 PHE PHE B . n B 2 59 LEU 59 107 107 LEU LEU B . n B 2 60 ASP 60 108 108 ASP ASP B . n B 2 61 GLN 61 109 109 GLN GLN B . n B 2 62 VAL 62 110 110 VAL VAL B . n B 2 63 ALA 63 111 111 ALA ALA B . n B 2 64 LYS 64 112 112 LYS LYS B . n B 2 65 PHE 65 113 113 PHE PHE B . n B 2 66 ILE 66 114 114 ILE ILE B . n B 2 67 ILE 67 115 115 ILE ILE B . n B 2 68 ASP 68 116 116 ASP ASP B . n B 2 69 ASN 69 117 117 ASN ASN B . n B 2 70 THR 70 118 118 THR THR B . n B 2 71 LYS 71 119 119 LYS LYS B . n B 2 72 GLY 72 120 120 GLY GLY B . n B 2 73 GLN 73 121 121 GLN GLN B . n B 2 74 MET 74 122 122 MET MET B . n B 2 75 LEU 75 123 123 LEU LEU B . n B 2 76 GLY 76 124 124 GLY GLY B . n B 2 77 LEU 77 125 125 LEU LEU B . n B 2 78 GLY 78 126 126 GLY GLY B . n B 2 79 ASN 79 127 127 ASN ASN B . n B 2 80 PRO 80 128 128 PRO PRO B . n # _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 # _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 2009-05-05 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2022-03-16 # _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' 'Database references' 3 3 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' database_2 2 3 'Structure model' pdbx_struct_assembly 3 3 '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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' # loop_ _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling _pdbx_nmr_exptl_sample.solution_id Ubiquitin 0.2 mM ? 1 PFUC_cis 0.2 mM ? 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 OD1 B ASP 108 ? ? HZ1 B LYS 112 ? ? 1.57 2 1 HZ3 B LYS 56 ? ? OD1 B ASP 65 ? ? 1.58 3 1 HZ1 A LYS 6 ? ? OD1 B ASP 71 ? ? 1.58 4 2 OD1 B ASP 116 ? ? HZ1 B LYS 119 ? ? 1.53 5 2 HZ3 A LYS 6 ? ? OD2 B ASP 71 ? ? 1.59 6 3 OD2 B ASP 65 ? ? HG1 B THR 85 ? ? 1.60 7 4 HE2 A HIS 68 ? ? OD1 B ASP 71 ? ? 1.55 8 4 HZ1 A LYS 11 ? ? OE1 A GLU 34 ? ? 1.57 9 4 OD1 B ASP 108 ? ? HZ3 B LYS 112 ? ? 1.58 10 4 OD1 B ASP 116 ? ? HZ2 B LYS 119 ? ? 1.60 11 4 HH22 A ARG 42 ? ? OD2 B ASP 108 ? ? 1.60 12 5 OD1 B ASP 108 ? ? HZ3 B LYS 112 ? ? 1.53 13 6 OD1 B ASP 108 ? ? HZ3 B LYS 112 ? ? 1.55 14 6 OD1 B ASP 116 ? ? HZ2 B LYS 119 ? ? 1.58 15 6 HZ1 B LYS 56 ? ? OD1 B ASP 65 ? ? 1.59 16 6 HZ3 A LYS 27 ? ? OD1 A ASP 52 ? ? 1.59 17 7 OD1 B ASP 108 ? ? HZ2 B LYS 112 ? ? 1.59 18 9 OD1 B ASP 108 ? ? HZ2 B LYS 112 ? ? 1.54 19 9 HZ2 B LYS 56 ? ? OD1 B ASP 65 ? ? 1.54 20 9 HZ3 A LYS 6 ? ? OD2 B ASP 71 ? ? 1.55 21 9 HZ2 A LYS 6 ? ? OE2 B GLU 74 ? ? 1.58 22 10 HZ3 A LYS 6 ? ? OD2 B ASP 71 ? ? 1.58 # 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 ASN B 50 ? ? -145.77 26.68 2 1 GLN B 51 ? ? -90.34 35.23 3 1 GLN B 52 ? ? -90.44 59.58 4 1 GLU B 60 ? ? 65.38 -67.74 5 1 ASN B 73 ? ? 177.66 -42.98 6 1 SER B 86 ? ? -108.08 49.19 7 1 ASP B 101 ? ? 62.56 79.16 8 1 MET B 122 ? ? -92.76 33.55 9 1 LEU B 123 ? ? -141.67 -45.00 10 1 LEU B 125 ? ? 60.32 -151.34 11 2 ASN B 50 ? ? -154.52 11.71 12 2 GLU B 60 ? ? 64.14 -75.88 13 2 ASP B 65 ? ? -67.83 -71.66 14 2 ASN B 73 ? ? 177.08 -44.01 15 2 GLN B 121 ? ? 40.89 -88.73 16 2 LEU B 123 ? ? -128.57 -74.46 17 2 LEU B 125 ? ? -99.95 -146.97 18 3 GLU A 34 ? ? -109.66 -72.17 19 3 ALA A 46 ? ? 59.90 19.38 20 3 GLN B 51 ? ? -78.19 36.44 21 3 GLU B 60 ? ? 57.23 -92.04 22 3 ASP B 65 ? ? -60.86 -71.56 23 3 ASN B 73 ? ? -175.68 -45.96 24 3 MET B 122 ? ? -90.66 35.75 25 3 LEU B 123 ? ? -134.75 -53.89 26 3 LEU B 125 ? ? 66.18 -155.36 27 4 ASN B 50 ? ? -151.13 23.84 28 4 GLN B 51 ? ? -94.17 30.79 29 4 GLU B 60 ? ? 61.86 -82.10 30 4 ASP B 65 ? ? -63.66 -78.54 31 4 ASN B 73 ? ? -174.21 -50.52 32 4 SER B 86 ? ? -109.83 59.65 33 4 ASP B 101 ? ? 59.96 70.91 34 4 LEU B 125 ? ? 59.37 -159.64 35 5 THR A 7 ? ? -79.33 -166.03 36 5 LYS A 33 ? ? -81.49 -73.33 37 5 GLU B 60 ? ? 60.45 -84.69 38 5 ASP B 65 ? ? -63.60 -70.08 39 5 ASN B 73 ? ? -179.91 -59.19 40 5 SER B 86 ? ? -99.45 31.53 41 5 ASP B 87 ? ? -116.05 -162.61 42 5 LEU B 125 ? ? 59.81 -141.45 43 6 GLU A 34 ? ? -105.17 -162.83 44 6 GLU B 60 ? ? 62.70 -82.16 45 6 ASN B 73 ? ? -176.46 -49.32 46 6 ASP B 101 ? ? 58.38 78.21 47 6 LEU B 125 ? ? 65.45 -148.50 48 7 LEU A 71 ? ? -101.17 -165.46 49 7 GLN B 52 ? ? 72.43 102.61 50 7 GLU B 60 ? ? 54.81 17.84 51 7 ASP B 65 ? ? -73.29 -74.63 52 7 THR B 85 ? ? -76.55 49.71 53 7 SER B 86 ? ? -157.35 15.76 54 7 ASP B 87 ? ? -126.53 -169.46 55 7 LEU B 123 ? ? -131.90 -78.64 56 7 LEU B 125 ? ? -92.40 51.32 57 8 ALA A 46 ? ? 72.81 -47.73 58 8 LEU A 71 ? ? -117.89 -163.96 59 8 SER B 54 ? ? -89.59 -80.33 60 8 ASP B 65 ? ? -69.60 -71.76 61 8 GLU B 74 ? ? -56.10 106.24 62 8 ASP B 87 ? ? 59.78 92.91 63 8 ASP B 88 ? ? -151.35 74.92 64 8 ASP B 101 ? ? 61.08 78.17 65 8 GLN B 121 ? ? 73.90 -48.00 66 8 LEU B 123 ? ? -176.00 -87.84 67 8 LEU B 125 ? ? -117.51 -163.07 68 8 ASN B 127 ? ? -144.10 -51.61 69 9 ASP B 65 ? ? -61.62 -74.96 70 9 THR B 85 ? ? -77.61 48.80 71 9 SER B 86 ? ? -154.80 15.37 72 9 ASP B 101 ? ? 59.92 84.77 73 9 GLN B 121 ? ? -130.85 -68.75 74 9 LEU B 123 ? ? -141.47 -80.80 75 9 ASN B 127 ? ? 56.13 74.77 76 10 LEU A 73 ? ? -94.35 -60.59 77 10 GLU B 60 ? ? 57.54 -93.60 78 10 ASP B 65 ? ? -62.63 -72.72 79 10 ASN B 73 ? ? 178.18 -52.35 80 10 SER B 86 ? ? -103.93 57.69 81 10 LEU B 123 ? ? -122.32 -63.36 82 10 LEU B 125 ? ? 55.96 -153.35 #