data_2YRN # _entry.id 2YRN # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.351 _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 2YRN pdb_00002yrn 10.2210/pdb2yrn/pdb RCSB RCSB027047 ? ? WWPDB D_1000027047 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2YRN _pdbx_database_status.recvd_initial_deposition_date 2007-04-02 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr REL _pdbx_database_status.SG_entry Y _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 'Tomizawa, T.' 1 'Tochio, N.' 2 'Koshiba, S.' 3 'Inoue, M.' 4 'Nakamura, Y.' 5 'Furukawa, Y.' 6 'Kigawa, T.' 7 'Yokoyama, S.' 8 'RIKEN Structural Genomics/Proteomics Initiative (RSGI)' 9 # _citation.id primary _citation.title 'Solution structure of the CH domain from Human Neuron navigator 2' _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 _citation_author.identifier_ORCID primary 'Tomizawa, T.' 1 ? primary 'Tochio, N.' 2 ? primary 'Koshiba, S.' 3 ? primary 'Inoue, M.' 4 ? primary 'Nakamura, Y.' 5 ? primary 'Furukawa, Y.' 6 ? primary 'Kigawa, T.' 7 ? primary 'Yokoyama, S.' 8 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'Neuron navigator 2 isoform 4' _entity.formula_weight 14406.391 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec 3.6.1.- _entity.pdbx_mutation 'T32A, K41R' _entity.pdbx_fragment 'CH domain' _entity.details ? # _entity_name_com.entity_id 1 _entity_name_com.name ;Helicase APC down-regulated 1, Retinoic acid inducible in neuroblastoma 1, Steerin-2, Pore membrane and/or filament-interacting-like protein 2, Unc-53 homolog 2, unc53H2 ; # _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 ;GSSGSSGKRKPVIHGLEDQKRIYTDWANHYLAKSGHKRLIRDLQQDVTDGVLLAQIIQVVANEKIEDINGCPKNRSQMIE NIDACLNFLAAKGINIQGLSAEEIRNGNLKAILGLFFSLSRYKQQQQQP ; _entity_poly.pdbx_seq_one_letter_code_can ;GSSGSSGKRKPVIHGLEDQKRIYTDWANHYLAKSGHKRLIRDLQQDVTDGVLLAQIIQVVANEKIEDINGCPKNRSQMIE NIDACLNFLAAKGINIQGLSAEEIRNGNLKAILGLFFSLSRYKQQQQQP ; _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 SER n 1 3 SER n 1 4 GLY n 1 5 SER n 1 6 SER n 1 7 GLY n 1 8 LYS n 1 9 ARG n 1 10 LYS n 1 11 PRO n 1 12 VAL n 1 13 ILE n 1 14 HIS n 1 15 GLY n 1 16 LEU n 1 17 GLU n 1 18 ASP n 1 19 GLN n 1 20 LYS n 1 21 ARG n 1 22 ILE n 1 23 TYR n 1 24 THR n 1 25 ASP n 1 26 TRP n 1 27 ALA n 1 28 ASN n 1 29 HIS n 1 30 TYR n 1 31 LEU n 1 32 ALA n 1 33 LYS n 1 34 SER n 1 35 GLY n 1 36 HIS n 1 37 LYS n 1 38 ARG n 1 39 LEU n 1 40 ILE n 1 41 ARG n 1 42 ASP n 1 43 LEU n 1 44 GLN n 1 45 GLN n 1 46 ASP n 1 47 VAL n 1 48 THR n 1 49 ASP n 1 50 GLY n 1 51 VAL n 1 52 LEU n 1 53 LEU n 1 54 ALA n 1 55 GLN n 1 56 ILE n 1 57 ILE n 1 58 GLN n 1 59 VAL n 1 60 VAL n 1 61 ALA n 1 62 ASN n 1 63 GLU n 1 64 LYS n 1 65 ILE n 1 66 GLU n 1 67 ASP n 1 68 ILE n 1 69 ASN n 1 70 GLY n 1 71 CYS n 1 72 PRO n 1 73 LYS n 1 74 ASN n 1 75 ARG n 1 76 SER n 1 77 GLN n 1 78 MET n 1 79 ILE n 1 80 GLU n 1 81 ASN n 1 82 ILE n 1 83 ASP n 1 84 ALA n 1 85 CYS n 1 86 LEU n 1 87 ASN n 1 88 PHE n 1 89 LEU n 1 90 ALA n 1 91 ALA n 1 92 LYS n 1 93 GLY n 1 94 ILE n 1 95 ASN n 1 96 ILE n 1 97 GLN n 1 98 GLY n 1 99 LEU n 1 100 SER n 1 101 ALA n 1 102 GLU n 1 103 GLU n 1 104 ILE n 1 105 ARG n 1 106 ASN n 1 107 GLY n 1 108 ASN n 1 109 LEU n 1 110 LYS n 1 111 ALA n 1 112 ILE n 1 113 LEU n 1 114 GLY n 1 115 LEU n 1 116 PHE n 1 117 PHE n 1 118 SER n 1 119 LEU n 1 120 SER n 1 121 ARG n 1 122 TYR n 1 123 LYS n 1 124 GLN n 1 125 GLN n 1 126 GLN n 1 127 GLN n 1 128 GLN n 1 129 PRO 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 Homo _entity_src_gen.pdbx_gene_src_gene NAV2 _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 ? _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 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 P041004-11 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description 'Cell-free protein synthesis' # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code NAV2_HUMAN _struct_ref.pdbx_db_accession Q8IVL1 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;KRKPVIHGLEDQKRIYTDWANHYLTKSGHKRLIKDLQQDVTDGVLLAQIIQVVANEKIEDINGCPKNRSQMIENIDACLN FLAAKGINIQGLSAEEIRNGNLKAILGLFFSLSRYKQQQQQP ; _struct_ref.pdbx_align_begin 12 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2YRN _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 8 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 129 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q8IVL1 _struct_ref_seq.db_align_beg 12 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 133 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 8 _struct_ref_seq.pdbx_auth_seq_align_end 129 # 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 2YRN GLY A 1 ? UNP Q8IVL1 ? ? 'expression tag' 1 1 1 2YRN SER A 2 ? UNP Q8IVL1 ? ? 'expression tag' 2 2 1 2YRN SER A 3 ? UNP Q8IVL1 ? ? 'expression tag' 3 3 1 2YRN GLY A 4 ? UNP Q8IVL1 ? ? 'expression tag' 4 4 1 2YRN SER A 5 ? UNP Q8IVL1 ? ? 'expression tag' 5 5 1 2YRN SER A 6 ? UNP Q8IVL1 ? ? 'expression tag' 6 6 1 2YRN GLY A 7 ? UNP Q8IVL1 ? ? 'expression tag' 7 7 1 2YRN ALA A 32 ? UNP Q8IVL1 THR 36 'engineered mutation' 32 8 1 2YRN ARG A 41 ? UNP Q8IVL1 LYS 45 'engineered mutation' 41 9 # 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.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.solution_id 1 1 3D_13C-separated_NOESY 1 2 1 3D_15N-separated_NOESY 1 # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 296 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pH 7.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength 120mM _pdbx_nmr_exptl_sample_conditions.pressure_units . _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '1.30mM CH domain U-15N, 13C; 20mM d-Tris-HCl(pH 7.0); 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 90% H2O, 10% D2O' _pdbx_nmr_sample_details.solvent_system '90% H2O/10% D2O' # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model AVANCE _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.field_strength 900 _pdbx_nmr_spectrometer.type ? # _pdbx_nmr_refine.entry_id 2YRN _pdbx_nmr_refine.method 'torsion angle dynamics, restrainted molecular dynamics' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.entry_id 2YRN _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the least restraint violations, structures with the lowest energy, target function' _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.entry_id 2YRN _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal collection XwinNMR 3.5 Bruker 1 processing NMRPipe 20030801 'Delaglio, F.' 2 'data analysis' NMRView 5.0.4 'Johnson, B.A.' 3 'data analysis' KUJIRA 0.9295 'Kobayashi, N.' 4 'structure solution' CYANA 2.0.17 'Guntert, P.' 5 refinement CYANA 2.0.17 'Guntert, P.' 6 # _exptl.entry_id 2YRN _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 2YRN _struct.title 'Solution structure of the CH domain from Human Neuron navigator 2' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2YRN _struct_keywords.pdbx_keywords HYDROLASE _struct_keywords.text ;Calponin Homolgy domain, Helicase, all alpha, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, Hydrolase ; # _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 GLY A 15 ? SER A 34 ? GLY A 15 SER A 34 1 ? 20 HELX_P HELX_P2 2 ASP A 42 ? VAL A 47 ? ASP A 42 VAL A 47 1 ? 6 HELX_P HELX_P3 3 GLY A 50 ? ALA A 61 ? GLY A 50 ALA A 61 1 ? 12 HELX_P HELX_P4 4 SER A 76 ? LYS A 92 ? SER A 76 LYS A 92 1 ? 17 HELX_P HELX_P5 5 SER A 100 ? GLY A 107 ? SER A 100 GLY A 107 1 ? 8 HELX_P HELX_P6 6 ASN A 108 ? GLN A 124 ? ASN A 108 GLN A 124 1 ? 17 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _database_PDB_matrix.entry_id 2YRN _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 2YRN _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 SER 2 2 2 SER SER A . n A 1 3 SER 3 3 3 SER SER A . n A 1 4 GLY 4 4 4 GLY GLY A . n A 1 5 SER 5 5 5 SER SER A . n A 1 6 SER 6 6 6 SER SER A . n A 1 7 GLY 7 7 7 GLY GLY A . n A 1 8 LYS 8 8 8 LYS LYS 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 VAL 12 12 12 VAL VAL A . n A 1 13 ILE 13 13 13 ILE ILE A . n A 1 14 HIS 14 14 14 HIS HIS A . n A 1 15 GLY 15 15 15 GLY GLY A . n A 1 16 LEU 16 16 16 LEU LEU A . n A 1 17 GLU 17 17 17 GLU GLU A . n A 1 18 ASP 18 18 18 ASP ASP A . n A 1 19 GLN 19 19 19 GLN GLN A . n A 1 20 LYS 20 20 20 LYS LYS A . n A 1 21 ARG 21 21 21 ARG ARG A . n A 1 22 ILE 22 22 22 ILE ILE A . n A 1 23 TYR 23 23 23 TYR TYR A . n A 1 24 THR 24 24 24 THR THR A . n A 1 25 ASP 25 25 25 ASP ASP A . n A 1 26 TRP 26 26 26 TRP TRP A . n A 1 27 ALA 27 27 27 ALA ALA A . n A 1 28 ASN 28 28 28 ASN ASN A . n A 1 29 HIS 29 29 29 HIS HIS A . n A 1 30 TYR 30 30 30 TYR TYR A . n A 1 31 LEU 31 31 31 LEU LEU A . n A 1 32 ALA 32 32 32 ALA ALA A . n A 1 33 LYS 33 33 33 LYS LYS A . n A 1 34 SER 34 34 34 SER SER A . n A 1 35 GLY 35 35 35 GLY GLY A . n A 1 36 HIS 36 36 36 HIS HIS A . n A 1 37 LYS 37 37 37 LYS LYS A . n A 1 38 ARG 38 38 38 ARG ARG A . n A 1 39 LEU 39 39 39 LEU LEU A . n A 1 40 ILE 40 40 40 ILE ILE A . n A 1 41 ARG 41 41 41 ARG ARG A . n A 1 42 ASP 42 42 42 ASP ASP A . n A 1 43 LEU 43 43 43 LEU LEU A . n A 1 44 GLN 44 44 44 GLN GLN A . n A 1 45 GLN 45 45 45 GLN GLN A . n A 1 46 ASP 46 46 46 ASP ASP A . n A 1 47 VAL 47 47 47 VAL VAL A . n A 1 48 THR 48 48 48 THR THR A . n A 1 49 ASP 49 49 49 ASP ASP A . n A 1 50 GLY 50 50 50 GLY GLY A . n A 1 51 VAL 51 51 51 VAL VAL A . n A 1 52 LEU 52 52 52 LEU LEU A . n A 1 53 LEU 53 53 53 LEU LEU A . n A 1 54 ALA 54 54 54 ALA ALA A . n A 1 55 GLN 55 55 55 GLN GLN A . n A 1 56 ILE 56 56 56 ILE ILE A . n A 1 57 ILE 57 57 57 ILE ILE A . n A 1 58 GLN 58 58 58 GLN GLN A . n A 1 59 VAL 59 59 59 VAL VAL A . n A 1 60 VAL 60 60 60 VAL VAL A . n A 1 61 ALA 61 61 61 ALA ALA A . n A 1 62 ASN 62 62 62 ASN ASN A . n A 1 63 GLU 63 63 63 GLU GLU A . n A 1 64 LYS 64 64 64 LYS LYS A . n A 1 65 ILE 65 65 65 ILE ILE A . n A 1 66 GLU 66 66 66 GLU GLU A . n A 1 67 ASP 67 67 67 ASP ASP A . n A 1 68 ILE 68 68 68 ILE ILE A . n A 1 69 ASN 69 69 69 ASN ASN A . n A 1 70 GLY 70 70 70 GLY GLY A . n A 1 71 CYS 71 71 71 CYS CYS A . n A 1 72 PRO 72 72 72 PRO PRO A . n A 1 73 LYS 73 73 73 LYS LYS A . n A 1 74 ASN 74 74 74 ASN ASN A . n A 1 75 ARG 75 75 75 ARG ARG A . n A 1 76 SER 76 76 76 SER SER A . n A 1 77 GLN 77 77 77 GLN GLN A . n A 1 78 MET 78 78 78 MET MET A . n A 1 79 ILE 79 79 79 ILE ILE A . n A 1 80 GLU 80 80 80 GLU GLU A . n A 1 81 ASN 81 81 81 ASN ASN A . n A 1 82 ILE 82 82 82 ILE ILE A . n A 1 83 ASP 83 83 83 ASP ASP A . n A 1 84 ALA 84 84 84 ALA ALA A . n A 1 85 CYS 85 85 85 CYS CYS A . n A 1 86 LEU 86 86 86 LEU LEU A . n A 1 87 ASN 87 87 87 ASN ASN A . n A 1 88 PHE 88 88 88 PHE PHE A . n A 1 89 LEU 89 89 89 LEU LEU A . n A 1 90 ALA 90 90 90 ALA ALA A . n A 1 91 ALA 91 91 91 ALA ALA A . n A 1 92 LYS 92 92 92 LYS LYS A . n A 1 93 GLY 93 93 93 GLY GLY A . n A 1 94 ILE 94 94 94 ILE ILE A . n A 1 95 ASN 95 95 95 ASN ASN A . n A 1 96 ILE 96 96 96 ILE ILE A . n A 1 97 GLN 97 97 97 GLN GLN A . n A 1 98 GLY 98 98 98 GLY GLY A . n A 1 99 LEU 99 99 99 LEU LEU A . n A 1 100 SER 100 100 100 SER SER A . n A 1 101 ALA 101 101 101 ALA ALA A . n A 1 102 GLU 102 102 102 GLU GLU A . n A 1 103 GLU 103 103 103 GLU GLU A . n A 1 104 ILE 104 104 104 ILE ILE A . n A 1 105 ARG 105 105 105 ARG ARG A . n A 1 106 ASN 106 106 106 ASN ASN A . n A 1 107 GLY 107 107 107 GLY GLY A . n A 1 108 ASN 108 108 108 ASN ASN A . n A 1 109 LEU 109 109 109 LEU LEU A . n A 1 110 LYS 110 110 110 LYS LYS A . n A 1 111 ALA 111 111 111 ALA ALA A . n A 1 112 ILE 112 112 112 ILE ILE A . n A 1 113 LEU 113 113 113 LEU LEU A . n A 1 114 GLY 114 114 114 GLY GLY A . n A 1 115 LEU 115 115 115 LEU LEU A . n A 1 116 PHE 116 116 116 PHE PHE A . n A 1 117 PHE 117 117 117 PHE PHE A . n A 1 118 SER 118 118 118 SER SER A . n A 1 119 LEU 119 119 119 LEU LEU A . n A 1 120 SER 120 120 120 SER SER A . n A 1 121 ARG 121 121 121 ARG ARG A . n A 1 122 TYR 122 122 122 TYR TYR A . n A 1 123 LYS 123 123 123 LYS LYS A . n A 1 124 GLN 124 124 124 GLN GLN A . n A 1 125 GLN 125 125 125 GLN GLN A . n A 1 126 GLN 126 126 126 GLN GLN A . n A 1 127 GLN 127 127 127 GLN GLN A . n A 1 128 GLN 128 128 128 GLN GLN A . n A 1 129 PRO 129 129 129 PRO PRO A . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'NPPSFA, National Project on Protein Structural and Functional Analyses' _pdbx_SG_project.full_name_of_center 'RIKEN Structural Genomics/Proteomics Initiative' _pdbx_SG_project.initial_of_center RSGI # _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 ? _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 2008-02-12 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2021-11-10 # _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' 'Data collection' 3 3 'Structure model' 'Database references' 4 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_nmr_software 3 3 'Structure model' pdbx_nmr_spectrometer 4 3 'Structure model' pdbx_struct_assembly 5 3 'Structure model' pdbx_struct_oper_list 6 3 '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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_pdbx_nmr_software.name' 4 3 'Structure model' '_pdbx_nmr_spectrometer.model' 5 3 'Structure model' '_struct_ref_seq_dif.details' # _pdbx_entry_details.sequence_details 'THE SEQUENCE DATABASE IS Q8IVL1-4, ISOFORM 4.' _pdbx_entry_details.entry_id 2YRN _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.has_ligand_of_interest ? # 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 LYS A 20 ? ? -35.05 -36.53 2 1 ASN A 28 ? ? -38.70 -39.71 3 1 SER A 34 ? ? -90.85 31.92 4 1 LYS A 37 ? ? -37.59 -71.28 5 1 ARG A 38 ? ? -43.85 150.54 6 1 ASP A 67 ? ? -87.54 31.32 7 1 LEU A 99 ? ? -62.88 -178.41 8 1 SER A 100 ? ? -162.95 107.30 9 1 LYS A 110 ? ? -34.32 -36.02 10 1 ALA A 111 ? ? -78.00 -72.79 11 2 SER A 3 ? ? -49.09 99.59 12 2 ARG A 9 ? ? -99.93 -74.96 13 2 LYS A 37 ? ? -94.00 -72.85 14 2 VAL A 51 ? ? -54.55 -70.55 15 2 ASP A 67 ? ? -94.32 34.98 16 2 ASN A 81 ? ? -36.16 -72.29 17 2 GLN A 126 ? ? -81.77 49.85 18 3 ASP A 67 ? ? -91.73 35.10 19 3 ASN A 69 ? ? -57.85 -70.88 20 3 ASN A 108 ? ? -52.69 107.28 21 4 SER A 5 ? ? -108.09 46.02 22 4 HIS A 14 ? ? -115.19 79.92 23 4 ASN A 28 ? ? -38.10 -35.71 24 4 HIS A 36 ? ? -35.23 128.94 25 4 VAL A 51 ? ? -68.11 -70.12 26 4 GLN A 55 ? ? -38.06 -31.09 27 4 PRO A 72 ? ? -69.72 98.62 28 4 ASN A 81 ? ? -41.80 -72.61 29 4 ASN A 108 ? ? -54.23 99.35 30 4 GLN A 126 ? ? -62.86 75.89 31 5 HIS A 14 ? ? -119.52 53.75 32 5 LEU A 16 ? ? -39.10 -33.35 33 5 LYS A 37 ? ? -81.93 47.82 34 5 VAL A 51 ? ? -61.03 -70.54 35 5 ASP A 67 ? ? -92.11 36.16 36 6 SER A 34 ? ? -91.76 33.06 37 6 LYS A 37 ? ? -38.25 -74.78 38 6 ARG A 38 ? ? -38.35 150.21 39 6 ASP A 46 ? ? -48.66 -19.02 40 6 GLN A 55 ? ? -36.69 -29.57 41 6 ASP A 67 ? ? -86.82 36.74 42 6 ASN A 81 ? ? -36.56 -70.18 43 6 GLN A 97 ? ? -37.85 116.46 44 7 ARG A 41 ? ? -94.46 -64.77 45 7 VAL A 51 ? ? -50.58 -70.35 46 7 ASP A 67 ? ? -89.14 35.43 47 7 ASN A 81 ? ? -39.51 -71.26 48 7 LEU A 99 ? ? -58.34 170.09 49 7 GLN A 125 ? ? 71.72 36.27 50 8 SER A 3 ? ? -47.76 157.86 51 8 HIS A 14 ? ? -100.42 78.49 52 8 VAL A 51 ? ? -68.95 -70.60 53 8 GLN A 55 ? ? -39.40 -39.64 54 8 ASP A 67 ? ? -82.47 41.12 55 8 ASN A 81 ? ? -35.62 -72.53 56 8 GLN A 126 ? ? -87.18 44.87 57 9 SER A 5 ? ? -167.39 117.01 58 9 LYS A 8 ? ? -57.25 99.79 59 9 ARG A 9 ? ? -91.16 -63.86 60 9 SER A 34 ? ? -87.92 36.20 61 9 LYS A 37 ? ? -34.29 -74.92 62 9 ARG A 38 ? ? -42.60 152.33 63 9 ARG A 41 ? ? -93.06 -60.75 64 9 GLN A 55 ? ? -39.44 -36.46 65 9 ASN A 62 ? ? 71.74 31.94 66 9 ASP A 67 ? ? -84.69 32.97 67 9 ASN A 108 ? ? -66.50 99.45 68 9 GLN A 125 ? ? 72.36 33.82 69 10 PRO A 11 ? ? -69.82 98.09 70 10 LYS A 37 ? ? -84.05 46.68 71 10 ASP A 67 ? ? -86.49 33.77 72 10 ASN A 69 ? ? -64.42 -70.89 73 10 LYS A 73 ? ? -130.32 -36.26 74 11 ARG A 9 ? ? -90.10 37.44 75 11 ASP A 67 ? ? -86.52 37.24 76 11 CYS A 71 ? ? -112.61 76.56 77 11 ASN A 81 ? ? -47.47 -70.45 78 11 GLN A 97 ? ? -42.70 104.37 79 11 GLN A 126 ? ? -81.36 41.51 80 12 SER A 3 ? ? -84.61 41.99 81 12 SER A 34 ? ? -88.13 38.03 82 12 LYS A 37 ? ? -97.34 53.89 83 12 ARG A 38 ? ? -176.05 133.27 84 12 LEU A 43 ? ? -38.11 -38.38 85 12 GLN A 55 ? ? -39.11 -27.87 86 12 ASP A 67 ? ? -79.61 44.19 87 12 GLN A 124 ? ? -38.45 -39.28 88 12 GLN A 127 ? ? -35.07 139.15 89 13 SER A 34 ? ? -91.81 31.79 90 13 ARG A 38 ? ? -42.40 151.72 91 13 GLN A 55 ? ? -37.29 -36.46 92 13 ASN A 62 ? ? 70.24 31.31 93 13 ASP A 67 ? ? -83.75 42.30 94 13 CYS A 71 ? ? -116.69 77.47 95 13 GLN A 124 ? ? -39.69 114.79 96 14 SER A 3 ? ? -171.17 133.51 97 14 ARG A 9 ? ? -88.51 40.96 98 14 VAL A 12 ? ? -38.13 119.87 99 14 LYS A 37 ? ? -102.86 47.57 100 14 ARG A 38 ? ? -172.35 147.43 101 14 VAL A 51 ? ? -53.06 -70.51 102 14 ASP A 67 ? ? -89.20 36.80 103 14 ASN A 69 ? ? -48.69 -73.65 104 14 GLN A 77 ? ? -37.83 -29.37 105 14 ASN A 81 ? ? -36.03 -71.04 106 14 GLN A 126 ? ? -59.26 88.89 107 14 GLN A 127 ? ? -129.95 -51.04 108 15 SER A 34 ? ? -88.86 31.57 109 15 GLN A 55 ? ? -39.39 -37.00 110 15 ASP A 67 ? ? -79.49 43.57 111 15 PRO A 72 ? ? -69.85 80.13 112 15 GLN A 97 ? ? -36.87 116.69 113 15 GLN A 126 ? ? -69.65 82.96 114 16 SER A 3 ? ? -174.38 149.86 115 16 ASP A 67 ? ? -87.00 34.75 116 16 GLN A 77 ? ? -37.77 -27.75 117 16 GLN A 97 ? ? -39.06 127.69 118 16 LEU A 113 ? ? -35.78 -39.77 119 17 ASP A 67 ? ? -95.21 30.33 120 17 ASN A 69 ? ? -73.25 -72.74 121 17 GLN A 97 ? ? -46.95 100.31 122 17 GLN A 126 ? ? -62.09 97.69 123 18 ARG A 9 ? ? -174.13 119.05 124 18 HIS A 14 ? ? -112.47 61.33 125 18 SER A 34 ? ? -92.83 31.68 126 18 VAL A 51 ? ? -61.44 -70.37 127 18 GLN A 55 ? ? -36.38 -37.77 128 18 GLN A 97 ? ? -46.93 107.03 129 18 ASN A 108 ? ? -63.93 99.19 130 19 LYS A 37 ? ? -94.50 46.21 131 19 ARG A 38 ? ? -173.60 140.29 132 19 ASN A 62 ? ? 71.87 39.20 133 19 ASP A 67 ? ? -82.55 44.04 134 19 ARG A 75 ? ? -38.77 -32.19 135 19 LEU A 99 ? ? -59.90 176.76 136 19 GLN A 124 ? ? -35.42 122.63 137 20 ILE A 22 ? ? -38.41 -37.73 138 20 ARG A 38 ? ? -49.60 162.79 139 20 LEU A 43 ? ? -34.34 -37.12 140 20 ASP A 67 ? ? -94.41 38.88 141 20 LYS A 110 ? ? -38.38 -34.23 142 20 GLN A 125 ? ? 35.75 36.21 143 20 GLN A 126 ? ? -106.97 44.47 #