data_2M5V # _entry.id 2M5V # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.371 _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 2M5V pdb_00002m5v 10.2210/pdb2m5v/pdb RCSB RCSB103247 ? ? BMRB 18242 ? ? WWPDB D_1000103247 ? ? # _pdbx_database_related.db_id 18242 _pdbx_database_related.db_name BMRB _pdbx_database_related.content_type unspecified _pdbx_database_related.details . # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2M5V _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2013-03-11 _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 _pdbx_database_status.status_code_nmr_data REL # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Su, M.Y.' 1 'Chang, C.F.' 2 'Chang, C.I.' 3 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary ;Three-Dimensional Structure of Human NLRP10/PYNOD Pyrin Domain Reveals a Homotypic Interaction Site Distinct from Its Mouse Homologue. ; 'Plos One' 8 e67843 e67843 2013 ? US 1932-6203 ? ? 23861819 10.1371/journal.pone.0067843 1 '(1)H, (13)C and (15)N resonance assignments of the pyrin domain from human PYNOD.' 'Biomol.Nmr Assign.' ? ? ? 2012 ? NE 1874-270X ? ? 22618865 10.1007/s12104-012-9396-8 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Su, M.Y.' 1 ? primary 'Kuo, C.I.' 2 ? primary 'Chang, C.F.' 3 ? primary 'Chang, C.I.' 4 ? 1 'Su, M.Y.' 5 ? 1 'Chang, C.I.' 6 ? 1 'Chang, C.F.' 7 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'NACHT, LRR and PYD domains-containing protein 10' _entity.formula_weight 11582.622 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment 'UNP residues 1-100' _entity.details ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Nucleotide-binding oligomerization domain protein 8' # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;GAMAMAKARKPREALLWALSDLEENDFKKLKFYLRDMTLSEGQPPLARGELEGLIPVDLAELLISKYGEKEAVKVVLKGL KVMNLLELVDQLSHICLHDYRE ; _entity_poly.pdbx_seq_one_letter_code_can ;GAMAMAKARKPREALLWALSDLEENDFKKLKFYLRDMTLSEGQPPLARGELEGLIPVDLAELLISKYGEKEAVKVVLKGL KVMNLLELVDQLSHICLHDYRE ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 GLY n 1 2 ALA n 1 3 MET n 1 4 ALA n 1 5 MET n 1 6 ALA n 1 7 LYS n 1 8 ALA n 1 9 ARG n 1 10 LYS n 1 11 PRO n 1 12 ARG n 1 13 GLU n 1 14 ALA n 1 15 LEU n 1 16 LEU n 1 17 TRP n 1 18 ALA n 1 19 LEU n 1 20 SER n 1 21 ASP n 1 22 LEU n 1 23 GLU n 1 24 GLU n 1 25 ASN n 1 26 ASP n 1 27 PHE n 1 28 LYS n 1 29 LYS n 1 30 LEU n 1 31 LYS n 1 32 PHE n 1 33 TYR n 1 34 LEU n 1 35 ARG n 1 36 ASP n 1 37 MET n 1 38 THR n 1 39 LEU n 1 40 SER n 1 41 GLU n 1 42 GLY n 1 43 GLN n 1 44 PRO n 1 45 PRO n 1 46 LEU n 1 47 ALA n 1 48 ARG n 1 49 GLY n 1 50 GLU n 1 51 LEU n 1 52 GLU n 1 53 GLY n 1 54 LEU n 1 55 ILE n 1 56 PRO n 1 57 VAL n 1 58 ASP n 1 59 LEU n 1 60 ALA n 1 61 GLU n 1 62 LEU n 1 63 LEU n 1 64 ILE n 1 65 SER n 1 66 LYS n 1 67 TYR n 1 68 GLY n 1 69 GLU n 1 70 LYS n 1 71 GLU n 1 72 ALA n 1 73 VAL n 1 74 LYS n 1 75 VAL n 1 76 VAL n 1 77 LEU n 1 78 LYS n 1 79 GLY n 1 80 LEU n 1 81 LYS n 1 82 VAL n 1 83 MET n 1 84 ASN n 1 85 LEU n 1 86 LEU n 1 87 GLU n 1 88 LEU n 1 89 VAL n 1 90 ASP n 1 91 GLN n 1 92 LEU n 1 93 SER n 1 94 HIS n 1 95 ILE n 1 96 CYS n 1 97 LEU n 1 98 HIS n 1 99 ASP n 1 100 TYR n 1 101 ARG n 1 102 GLU 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 human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'NLRP10, NALP10, NOD8, PYNOD' _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 469008 _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 'BL21(DE3)' _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 plasmid _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name pETM11 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code NAL10_HUMAN _struct_ref.pdbx_db_accession Q86W26 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MAMAKARKPREALLWALSDLEENDFKKLKFYLRDMTLSEGQPPLARGELEGLIPVDLAELLISKYGEKEAVKVVLKGLKV MNLLELVDQLSHICLHDYRE ; _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2M5V _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 3 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 102 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q86W26 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 100 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 3 _struct_ref_seq.pdbx_auth_seq_align_end 102 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 2M5V GLY A 1 ? UNP Q86W26 ? ? 'expression tag' 1 1 1 2M5V ALA A 2 ? UNP Q86W26 ? ? 'expression tag' 2 2 # 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 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 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 1 '3D HNCACB' 1 3 1 '3D CBCA(CO)NH' 1 4 1 '3D C(CO)NH' 1 5 1 '3D HNCO' 1 6 1 '3D HNCA' 1 7 1 '3D HCCH-TOCSY' 1 8 1 '3D 1H-15N NOESY' 1 9 1 '3D 1H-13C NOESY' 1 10 1 '3D H(CCO)NH' 1 11 1 '3D 1H-15N TOCSY' 1 12 1 '3D HBHA(CO)NH' 1 13 1 '3D HN(CO)CA' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.ionic_strength 140 _pdbx_nmr_exptl_sample_conditions.pH 7.4 _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_sample_details.contents '0.2 mM [U-13C; U-15N] PYNOD PYD, 90% H2O/10% D2O' _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.solvent_system '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 Bruker AVANCE 1 'Bruker Avance' 800 Bruker AVANCE 2 'Bruker Avance' # _pdbx_nmr_refine.entry_id 2M5V _pdbx_nmr_refine.method 'DGSA-distance geometry simulated annealing' _pdbx_nmr_refine.details ? _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 'structures with the lowest energy' _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2M5V _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 2M5V _pdbx_nmr_representative.selection_criteria 'lowest energy' # _pdbx_nmr_software.authors ? _pdbx_nmr_software.classification refinement _pdbx_nmr_software.name CYANA _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 2M5V _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2M5V _struct.title 'Three-dimensional structure of human NLRP10/PYNOD pyrin domain' _struct.pdbx_model_details 'lowest energy, model 1' _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2M5V _struct_keywords.pdbx_keywords 'IMMUNE SYSTEM' _struct_keywords.text 'NLRP10, PYNOD, pyrin domain, IMMUNE SYSTEM' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _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 LYS A 10 ? LEU A 22 ? LYS A 10 LEU A 22 1 ? 13 HELX_P HELX_P2 2 GLU A 23 ? LEU A 39 ? GLU A 23 LEU A 39 1 ? 17 HELX_P HELX_P3 3 ALA A 47 ? LEU A 51 ? ALA A 47 LEU A 51 5 ? 5 HELX_P HELX_P4 4 ILE A 55 ? TYR A 67 ? ILE A 55 TYR A 67 1 ? 13 HELX_P HELX_P5 5 GLY A 68 ? VAL A 82 ? GLY A 68 VAL A 82 1 ? 15 HELX_P HELX_P6 6 LEU A 85 ? CYS A 96 ? LEU A 85 CYS A 96 1 ? 12 HELX_P HELX_P7 7 LEU A 97 ? ARG A 101 ? LEU A 97 ARG A 101 5 ? 5 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _atom_sites.entry_id 2M5V _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 GLY 1 1 1 GLY GLY A . n A 1 2 ALA 2 2 2 ALA ALA A . n A 1 3 MET 3 3 3 MET MET A . n A 1 4 ALA 4 4 4 ALA ALA A . n A 1 5 MET 5 5 5 MET MET A . n A 1 6 ALA 6 6 6 ALA ALA A . n A 1 7 LYS 7 7 7 LYS LYS A . n A 1 8 ALA 8 8 8 ALA ALA A . n A 1 9 ARG 9 9 9 ARG ARG A . n A 1 10 LYS 10 10 10 LYS LYS A . n A 1 11 PRO 11 11 11 PRO PRO A . n A 1 12 ARG 12 12 12 ARG ARG A . n A 1 13 GLU 13 13 13 GLU GLU A . n A 1 14 ALA 14 14 14 ALA ALA A . n A 1 15 LEU 15 15 15 LEU LEU A . n A 1 16 LEU 16 16 16 LEU LEU A . n A 1 17 TRP 17 17 17 TRP TRP A . n A 1 18 ALA 18 18 18 ALA ALA A . n A 1 19 LEU 19 19 19 LEU LEU 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 LEU 22 22 22 LEU LEU A . n A 1 23 GLU 23 23 23 GLU GLU 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 ASP 26 26 26 ASP ASP A . n A 1 27 PHE 27 27 27 PHE PHE A . n A 1 28 LYS 28 28 28 LYS LYS A . n A 1 29 LYS 29 29 29 LYS LYS A . n A 1 30 LEU 30 30 30 LEU LEU A . n A 1 31 LYS 31 31 31 LYS LYS A . n A 1 32 PHE 32 32 32 PHE PHE A . n A 1 33 TYR 33 33 33 TYR TYR A . n A 1 34 LEU 34 34 34 LEU LEU A . n A 1 35 ARG 35 35 35 ARG ARG A . n A 1 36 ASP 36 36 36 ASP ASP A . n A 1 37 MET 37 37 37 MET MET A . n A 1 38 THR 38 38 38 THR THR A . n A 1 39 LEU 39 39 39 LEU LEU A . n A 1 40 SER 40 40 40 SER SER A . n A 1 41 GLU 41 41 41 GLU GLU A . n A 1 42 GLY 42 42 42 GLY GLY A . n A 1 43 GLN 43 43 43 GLN GLN A . n A 1 44 PRO 44 44 44 PRO PRO A . n A 1 45 PRO 45 45 45 PRO PRO A . n A 1 46 LEU 46 46 46 LEU LEU A . n A 1 47 ALA 47 47 47 ALA ALA A . n A 1 48 ARG 48 48 48 ARG ARG A . n A 1 49 GLY 49 49 49 GLY GLY A . n A 1 50 GLU 50 50 50 GLU GLU A . n A 1 51 LEU 51 51 51 LEU LEU A . n A 1 52 GLU 52 52 52 GLU GLU A . n A 1 53 GLY 53 53 53 GLY GLY A . n A 1 54 LEU 54 54 54 LEU LEU A . n A 1 55 ILE 55 55 55 ILE ILE A . n A 1 56 PRO 56 56 56 PRO PRO A . n A 1 57 VAL 57 57 57 VAL VAL A . n A 1 58 ASP 58 58 58 ASP ASP A . n A 1 59 LEU 59 59 59 LEU LEU A . n A 1 60 ALA 60 60 60 ALA ALA A . n A 1 61 GLU 61 61 61 GLU GLU A . n A 1 62 LEU 62 62 62 LEU LEU A . n A 1 63 LEU 63 63 63 LEU LEU A . n A 1 64 ILE 64 64 64 ILE ILE A . n A 1 65 SER 65 65 65 SER SER A . n A 1 66 LYS 66 66 66 LYS LYS A . n A 1 67 TYR 67 67 67 TYR TYR A . n A 1 68 GLY 68 68 68 GLY GLY A . n A 1 69 GLU 69 69 69 GLU GLU A . n A 1 70 LYS 70 70 70 LYS LYS A . n A 1 71 GLU 71 71 71 GLU GLU A . n A 1 72 ALA 72 72 72 ALA ALA A . n A 1 73 VAL 73 73 73 VAL VAL A . n A 1 74 LYS 74 74 74 LYS LYS A . n A 1 75 VAL 75 75 75 VAL VAL A . n A 1 76 VAL 76 76 76 VAL VAL A . n A 1 77 LEU 77 77 77 LEU LEU A . n A 1 78 LYS 78 78 78 LYS LYS A . n A 1 79 GLY 79 79 79 GLY GLY A . n A 1 80 LEU 80 80 80 LEU LEU A . n A 1 81 LYS 81 81 81 LYS LYS A . n A 1 82 VAL 82 82 82 VAL VAL A . n A 1 83 MET 83 83 83 MET MET A . n A 1 84 ASN 84 84 84 ASN ASN A . n A 1 85 LEU 85 85 85 LEU LEU A . n A 1 86 LEU 86 86 86 LEU LEU A . n A 1 87 GLU 87 87 87 GLU GLU A . n A 1 88 LEU 88 88 88 LEU LEU A . n A 1 89 VAL 89 89 89 VAL VAL A . n A 1 90 ASP 90 90 90 ASP ASP A . n A 1 91 GLN 91 91 91 GLN GLN A . n A 1 92 LEU 92 92 92 LEU LEU A . n A 1 93 SER 93 93 93 SER SER A . n A 1 94 HIS 94 94 94 HIS HIS A . n A 1 95 ILE 95 95 95 ILE ILE A . n A 1 96 CYS 96 96 96 CYS CYS A . n A 1 97 LEU 97 97 97 LEU LEU A . n A 1 98 HIS 98 98 98 HIS HIS A . n A 1 99 ASP 99 99 99 ASP ASP A . n A 1 100 TYR 100 100 100 TYR TYR A . n A 1 101 ARG 101 101 101 ARG ARG A . n A 1 102 GLU 102 102 102 GLU GLU A . n # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A # _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 2013-04-03 2 'Structure model' 1 1 2013-06-05 3 'Structure model' 1 2 2013-07-31 4 'Structure model' 1 3 2023-06-14 # _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' 'Database references' 2 3 'Structure model' 'Database references' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 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_nmr_spectrometer 4 4 'Structure model' struct_ref_seq_dif # 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.status_code_nmr_data' 4 4 'Structure model' '_pdbx_nmr_spectrometer.model' 5 4 'Structure model' '_struct_ref_seq_dif.details' # _pdbx_nmr_exptl_sample.component 'PYNOD PYD-1' _pdbx_nmr_exptl_sample.concentration 0.2 _pdbx_nmr_exptl_sample.concentration_range ? _pdbx_nmr_exptl_sample.concentration_units mM _pdbx_nmr_exptl_sample.isotopic_labeling '[U-13C; U-15N]' _pdbx_nmr_exptl_sample.solution_id 1 # _pdbx_nmr_constraints.disulfide_bond_constraints_total_count ? _pdbx_nmr_constraints.entry_id 2M5V _pdbx_nmr_constraints.hydrogen_bond_constraints_total_count ? _pdbx_nmr_constraints.NA_alpha-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_beta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_chi-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_delta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_epsilon-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_gamma-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_other-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_sugar_pucker_constraints_total_count ? _pdbx_nmr_constraints.NOE_constraints_total 969 _pdbx_nmr_constraints.NOE_interentity_total_count ? _pdbx_nmr_constraints.NOE_interproton_distance_evaluation ? _pdbx_nmr_constraints.NOE_intraresidue_total_count 525 _pdbx_nmr_constraints.NOE_long_range_total_count ? _pdbx_nmr_constraints.NOE_medium_range_total_count 179 _pdbx_nmr_constraints.NOE_motional_averaging_correction ? _pdbx_nmr_constraints.NOE_pseudoatom_corrections ? _pdbx_nmr_constraints.NOE_sequential_total_count 265 _pdbx_nmr_constraints.protein_chi_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_other_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_phi_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_psi_angle_constraints_total_count ? # 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 ALA A 2 ? ? 64.11 158.40 2 1 MET A 3 ? ? 64.72 -173.33 3 1 ALA A 4 ? ? 64.18 107.70 4 1 MET A 5 ? ? -111.75 78.12 5 1 SER A 40 ? ? -119.32 76.99 6 1 GLU A 41 ? ? 49.13 -164.37 7 1 PRO A 45 ? ? -69.72 -167.03 8 1 LEU A 54 ? ? -74.96 -167.44 9 1 LYS A 70 ? ? -65.49 -81.37 10 1 VAL A 82 ? ? -58.34 -7.98 11 1 ASN A 84 ? ? 74.89 32.48 12 1 GLU A 87 ? ? -51.78 -75.08 13 1 LEU A 97 ? ? 66.93 75.46 14 2 MET A 3 ? ? -129.60 -74.63 15 2 ALA A 4 ? ? -170.97 142.49 16 2 MET A 5 ? ? -176.39 128.50 17 2 ALA A 6 ? ? -178.94 124.19 18 2 GLU A 41 ? ? -67.74 -173.28 19 2 PRO A 45 ? ? -69.75 -176.90 20 2 LYS A 70 ? ? -60.11 -76.67 21 2 VAL A 82 ? ? -59.26 -5.89 22 2 GLU A 87 ? ? -51.56 -75.30 23 2 LEU A 97 ? ? 66.45 106.08 24 3 ALA A 4 ? ? -101.51 76.30 25 3 LYS A 7 ? ? -173.40 66.78 26 3 ARG A 9 ? ? -94.60 -76.08 27 3 TYR A 67 ? ? -135.79 -39.93 28 3 LYS A 70 ? ? -59.32 -74.14 29 3 GLU A 87 ? ? -53.08 -84.15 30 3 LEU A 97 ? ? 65.41 116.04 31 3 ARG A 101 ? ? -98.69 43.18 32 4 ALA A 2 ? ? 64.57 155.46 33 4 MET A 3 ? ? -142.32 26.12 34 4 ALA A 4 ? ? -109.01 56.41 35 4 ALA A 6 ? ? 38.42 -154.40 36 4 LYS A 7 ? ? -149.17 -55.25 37 4 ALA A 8 ? ? -171.57 107.11 38 4 LYS A 10 ? ? -141.84 54.47 39 4 PRO A 11 ? ? -69.79 78.97 40 4 SER A 40 ? ? -105.82 -162.33 41 4 PRO A 45 ? ? -69.83 -167.18 42 4 LEU A 54 ? ? -68.36 -170.55 43 4 TYR A 67 ? ? -135.06 -39.76 44 4 LYS A 70 ? ? -58.74 -74.91 45 4 GLU A 87 ? ? -53.17 -80.25 46 4 LEU A 97 ? ? 64.03 93.67 47 5 ALA A 2 ? ? 67.05 132.44 48 5 MET A 3 ? ? -150.56 69.87 49 5 ALA A 6 ? ? -170.12 141.27 50 5 LEU A 39 ? ? -122.51 -116.53 51 5 SER A 40 ? ? 60.33 101.78 52 5 GLU A 41 ? ? -179.54 49.98 53 5 GLU A 50 ? ? -63.54 -79.64 54 5 LEU A 54 ? ? -59.71 -169.76 55 5 LYS A 70 ? ? -59.51 -78.29 56 5 GLU A 87 ? ? -53.13 -77.39 57 5 LEU A 97 ? ? 67.19 105.43 58 6 MET A 3 ? ? -117.40 -138.17 59 6 ALA A 4 ? ? 72.92 69.97 60 6 ALA A 6 ? ? -169.32 -164.09 61 6 LYS A 7 ? ? 63.41 161.43 62 6 ALA A 8 ? ? -59.76 -172.24 63 6 PRO A 11 ? ? -69.76 -85.37 64 6 LEU A 54 ? ? -79.12 -167.01 65 6 LYS A 70 ? ? -63.87 -79.92 66 6 GLU A 87 ? ? -53.12 -83.48 67 6 LEU A 97 ? ? 69.37 91.59 68 7 MET A 5 ? ? -173.24 36.92 69 7 GLU A 41 ? ? -68.32 -169.53 70 7 PRO A 45 ? ? -69.77 -171.63 71 7 LEU A 54 ? ? -78.07 -168.58 72 7 LYS A 70 ? ? -63.20 -81.07 73 7 VAL A 82 ? ? -59.86 -4.36 74 7 GLU A 87 ? ? -53.02 -82.67 75 7 LEU A 97 ? ? 66.23 135.60 76 8 ALA A 2 ? ? 65.40 113.56 77 8 ALA A 6 ? ? 38.54 -155.12 78 8 LYS A 7 ? ? -95.10 -76.35 79 8 ALA A 8 ? ? 27.39 71.59 80 8 GLU A 41 ? ? 49.52 -166.71 81 8 PRO A 45 ? ? -69.77 -165.74 82 8 LYS A 70 ? ? -63.34 -78.10 83 8 VAL A 82 ? ? -59.18 -5.47 84 8 ASN A 84 ? ? 72.63 34.19 85 8 GLU A 87 ? ? -52.01 -73.38 86 8 LEU A 97 ? ? 65.77 115.93 87 9 ALA A 4 ? ? -169.45 68.72 88 9 LEU A 39 ? ? -124.61 -100.78 89 9 SER A 40 ? ? -174.17 -171.89 90 9 LEU A 54 ? ? -73.35 -168.54 91 9 TYR A 67 ? ? -130.66 -39.77 92 9 LYS A 70 ? ? -61.47 -77.42 93 9 VAL A 82 ? ? -57.02 -8.91 94 9 GLU A 87 ? ? -53.57 -80.82 95 9 LEU A 97 ? ? 72.28 94.85 96 10 ALA A 2 ? ? -175.17 131.43 97 10 MET A 3 ? ? -173.09 106.69 98 10 SER A 40 ? ? -89.35 -72.54 99 10 GLU A 41 ? ? 177.64 -81.41 100 10 PRO A 45 ? ? -69.71 -167.47 101 10 LEU A 54 ? ? -76.57 -168.51 102 10 LYS A 70 ? ? -61.81 -79.14 103 10 GLU A 87 ? ? -53.04 -71.62 104 10 ASP A 99 ? ? -89.98 -72.82 105 10 TYR A 100 ? ? -134.97 -30.71 106 11 ALA A 4 ? ? -113.68 -76.52 107 11 MET A 5 ? ? 50.83 84.44 108 11 ARG A 9 ? ? -179.33 -169.02 109 11 GLU A 41 ? ? 39.49 -153.61 110 11 LEU A 54 ? ? -76.11 -167.69 111 11 LYS A 70 ? ? -65.32 -80.95 112 11 VAL A 82 ? ? -56.22 -7.11 113 11 GLU A 87 ? ? -52.17 -71.74 114 11 LEU A 97 ? ? 64.35 89.94 115 12 ALA A 2 ? ? -64.52 -176.26 116 12 ALA A 4 ? ? -151.41 -67.82 117 12 LYS A 7 ? ? 57.78 95.39 118 12 LYS A 10 ? ? -46.70 106.47 119 12 PRO A 45 ? ? -69.77 -179.57 120 12 LEU A 54 ? ? -78.63 -168.97 121 12 TYR A 67 ? ? -136.01 -40.26 122 12 LYS A 70 ? ? -56.71 -75.80 123 12 VAL A 82 ? ? -58.23 -5.13 124 12 LEU A 85 ? ? -89.01 30.17 125 12 LEU A 86 ? ? -59.48 -8.80 126 12 GLU A 87 ? ? -51.70 -79.08 127 12 LEU A 97 ? ? 64.13 93.75 128 13 ALA A 2 ? ? -174.23 111.88 129 13 MET A 3 ? ? -164.38 98.63 130 13 MET A 5 ? ? -176.70 -60.37 131 13 LYS A 7 ? ? -125.71 -59.02 132 13 ALA A 8 ? ? 38.52 76.36 133 13 ARG A 9 ? ? -128.77 -164.46 134 13 SER A 40 ? ? -178.96 126.07 135 13 GLU A 41 ? ? -174.45 -35.66 136 13 LEU A 54 ? ? -75.58 -168.12 137 13 LYS A 70 ? ? -63.34 -83.73 138 13 VAL A 82 ? ? -59.70 -6.05 139 13 GLU A 87 ? ? -51.81 -77.10 140 13 LEU A 97 ? ? 70.70 47.86 141 13 ARG A 101 ? ? -155.08 48.55 142 14 ALA A 2 ? ? 59.54 171.16 143 14 MET A 5 ? ? -149.83 -67.68 144 14 ALA A 6 ? ? 38.59 -155.49 145 14 LYS A 7 ? ? -177.40 101.78 146 14 LEU A 54 ? ? -70.91 -169.40 147 14 LYS A 70 ? ? -62.07 -81.34 148 14 GLU A 87 ? ? -53.01 -81.45 149 14 LEU A 97 ? ? 57.67 88.30 150 15 MET A 5 ? ? 55.00 -177.80 151 15 LYS A 7 ? ? -134.25 -62.26 152 15 SER A 40 ? ? -99.98 56.79 153 15 GLU A 41 ? ? 46.86 -162.86 154 15 LEU A 54 ? ? -75.45 -167.49 155 15 LYS A 70 ? ? -63.44 -77.57 156 15 VAL A 82 ? ? -58.23 -5.42 157 15 GLU A 87 ? ? -51.72 -78.43 158 15 LEU A 97 ? ? 67.18 137.19 159 16 LYS A 7 ? ? 66.65 139.90 160 16 LEU A 54 ? ? -79.11 -166.99 161 16 LYS A 70 ? ? -59.54 -76.02 162 16 GLU A 87 ? ? -52.99 -80.66 163 16 LEU A 97 ? ? 179.47 87.38 164 16 ARG A 101 ? ? -163.50 89.13 165 17 ALA A 2 ? ? -172.08 125.78 166 17 SER A 40 ? ? -112.80 -167.49 167 17 LEU A 54 ? ? -74.93 -168.99 168 17 LYS A 70 ? ? -64.16 -77.24 169 17 VAL A 82 ? ? -59.42 -6.88 170 17 ASN A 84 ? ? 70.68 45.89 171 17 GLU A 87 ? ? -52.79 -81.25 172 17 LEU A 97 ? ? 67.80 102.53 173 18 MET A 3 ? ? -164.50 64.71 174 18 MET A 5 ? ? 62.25 -87.68 175 18 ALA A 6 ? ? 178.23 108.44 176 18 PRO A 11 ? ? -69.76 -70.62 177 18 ALA A 47 ? ? -151.90 86.53 178 18 ILE A 55 ? ? -23.47 158.96 179 18 ASP A 58 ? ? -90.97 -60.09 180 18 LYS A 70 ? ? -64.47 -82.62 181 18 VAL A 82 ? ? -59.14 -4.36 182 18 GLU A 87 ? ? -53.22 -77.00 183 18 LEU A 97 ? ? 64.84 -172.46 184 19 ALA A 2 ? ? -145.70 -76.14 185 19 MET A 3 ? ? -107.68 50.90 186 19 MET A 5 ? ? 65.23 62.14 187 19 LYS A 7 ? ? -53.64 -78.02 188 19 ALA A 8 ? ? 38.24 77.78 189 19 ARG A 9 ? ? -60.94 94.61 190 19 GLU A 41 ? ? -59.16 -173.91 191 19 ILE A 55 ? ? -23.07 158.23 192 19 LYS A 70 ? ? -59.98 -76.42 193 19 VAL A 82 ? ? -59.69 -6.41 194 19 ASN A 84 ? ? 60.16 63.86 195 19 GLU A 87 ? ? -53.12 -79.46 196 19 LEU A 97 ? ? 63.85 106.60 197 20 ALA A 4 ? ? 62.25 67.40 198 20 MET A 5 ? ? -171.92 126.95 199 20 ALA A 6 ? ? -164.70 98.40 200 20 PRO A 11 ? ? -69.79 60.71 201 20 LEU A 39 ? ? -109.08 -97.71 202 20 SER A 40 ? ? 170.17 -171.40 203 20 LEU A 54 ? ? -67.94 -169.97 204 20 ASP A 58 ? ? -95.69 -60.09 205 20 TYR A 67 ? ? -130.90 -39.66 206 20 LYS A 70 ? ? -60.31 -80.45 207 20 VAL A 82 ? ? -59.13 -6.68 208 20 ASN A 84 ? ? 73.89 37.15 209 20 GLU A 87 ? ? -52.46 -81.15 210 20 ARG A 101 ? ? -49.64 159.48 #