data_2DKP # _entry.id 2DKP # _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 2DKP pdb_00002dkp 10.2210/pdb2dkp/pdb RCSB RCSB025529 ? ? WWPDB D_1000025529 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id hsk002101658.1 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2DKP _pdbx_database_status.recvd_initial_deposition_date 2006-04-13 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _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 'Li, H.' 1 'Tomizawa, T.' 2 'Koshiba, S.' 3 'Inoue, M.' 4 'Kigawa, T.' 5 'Yokoyama, S.' 6 'RIKEN Structural Genomics/Proteomics Initiative (RSGI)' 7 # _citation.id primary _citation.title 'Solution structure of the PH domain of pleckstrin homology domain-containing protein family A member 5 from human' _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 'Li, H.' 1 ? primary 'Tomizawa, T.' 2 ? primary 'Koshiba, S.' 3 ? primary 'Inoue, M.' 4 ? primary 'Kigawa, T.' 5 ? primary 'Yokoyama, S.' 6 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'Pleckstrin homology domain-containing family A member 5' _entity.formula_weight 14598.751 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment 'PH domain' _entity.details ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Phosphoinositol 3-phosphate-binding protein 2, PEPP-2' # _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 ;GSSGSSGKRSNSIKRNPNAPVVRRGWLYKQDSTGMKLWKKRWFVLSDLCLFYYRDEKEEGILGSILLPSFQIALLTSEDH INRKYAFKAAHPNMRTYYFCTDTGKEMELWMKAMLDAALVQTSGPSSG ; _entity_poly.pdbx_seq_one_letter_code_can ;GSSGSSGKRSNSIKRNPNAPVVRRGWLYKQDSTGMKLWKKRWFVLSDLCLFYYRDEKEEGILGSILLPSFQIALLTSEDH INRKYAFKAAHPNMRTYYFCTDTGKEMELWMKAMLDAALVQTSGPSSG ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier hsk002101658.1 # 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 SER n 1 11 ASN n 1 12 SER n 1 13 ILE n 1 14 LYS n 1 15 ARG n 1 16 ASN n 1 17 PRO n 1 18 ASN n 1 19 ALA n 1 20 PRO n 1 21 VAL n 1 22 VAL n 1 23 ARG n 1 24 ARG n 1 25 GLY n 1 26 TRP n 1 27 LEU n 1 28 TYR n 1 29 LYS n 1 30 GLN n 1 31 ASP n 1 32 SER n 1 33 THR n 1 34 GLY n 1 35 MET n 1 36 LYS n 1 37 LEU n 1 38 TRP n 1 39 LYS n 1 40 LYS n 1 41 ARG n 1 42 TRP n 1 43 PHE n 1 44 VAL n 1 45 LEU n 1 46 SER n 1 47 ASP n 1 48 LEU n 1 49 CYS n 1 50 LEU n 1 51 PHE n 1 52 TYR n 1 53 TYR n 1 54 ARG n 1 55 ASP n 1 56 GLU n 1 57 LYS n 1 58 GLU n 1 59 GLU n 1 60 GLY n 1 61 ILE n 1 62 LEU n 1 63 GLY n 1 64 SER n 1 65 ILE n 1 66 LEU n 1 67 LEU n 1 68 PRO n 1 69 SER n 1 70 PHE n 1 71 GLN n 1 72 ILE n 1 73 ALA n 1 74 LEU n 1 75 LEU n 1 76 THR n 1 77 SER n 1 78 GLU n 1 79 ASP n 1 80 HIS n 1 81 ILE n 1 82 ASN n 1 83 ARG n 1 84 LYS n 1 85 TYR n 1 86 ALA n 1 87 PHE n 1 88 LYS n 1 89 ALA n 1 90 ALA n 1 91 HIS n 1 92 PRO n 1 93 ASN n 1 94 MET n 1 95 ARG n 1 96 THR n 1 97 TYR n 1 98 TYR n 1 99 PHE n 1 100 CYS n 1 101 THR n 1 102 ASP n 1 103 THR n 1 104 GLY n 1 105 LYS n 1 106 GLU n 1 107 MET n 1 108 GLU n 1 109 LEU n 1 110 TRP n 1 111 MET n 1 112 LYS n 1 113 ALA n 1 114 MET n 1 115 LEU n 1 116 ASP n 1 117 ALA n 1 118 ALA n 1 119 LEU n 1 120 VAL n 1 121 GLN n 1 122 THR n 1 123 SER n 1 124 GLY n 1 125 PRO n 1 126 SER n 1 127 SER n 1 128 GLY 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 'PLEKHA5, KIAA1686, PEPP2' _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 'Cell free synthesis' _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 P051025-03 _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 PKHA5_HUMAN _struct_ref.pdbx_db_accession Q9HAU0 _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin 156 _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2DKP _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 122 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9HAU0 _struct_ref_seq.db_align_beg 156 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 271 _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 122 # 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 2DKP GLY A 1 ? UNP Q9HAU0 ? ? 'cloning artifact' 1 1 1 2DKP SER A 2 ? UNP Q9HAU0 ? ? 'cloning artifact' 2 2 1 2DKP SER A 3 ? UNP Q9HAU0 ? ? 'cloning artifact' 3 3 1 2DKP GLY A 4 ? UNP Q9HAU0 ? ? 'cloning artifact' 4 4 1 2DKP SER A 5 ? UNP Q9HAU0 ? ? 'cloning artifact' 5 5 1 2DKP SER A 6 ? UNP Q9HAU0 ? ? 'cloning artifact' 6 6 1 2DKP GLY A 7 ? UNP Q9HAU0 ? ? 'cloning artifact' 7 7 1 2DKP SER A 123 ? UNP Q9HAU0 ? ? 'cloning artifact' 123 8 1 2DKP GLY A 124 ? UNP Q9HAU0 ? ? 'cloning artifact' 124 9 1 2DKP PRO A 125 ? UNP Q9HAU0 ? ? 'cloning artifact' 125 10 1 2DKP SER A 126 ? UNP Q9HAU0 ? ? 'cloning artifact' 126 11 1 2DKP SER A 127 ? UNP Q9HAU0 ? ? 'cloning artifact' 127 12 1 2DKP GLY A 128 ? UNP Q9HAU0 ? ? 'cloning artifact' 128 13 # 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_15N-separated_NOESY 1 2 1 3D_13C-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 '1.14mM PH 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 800 _pdbx_nmr_spectrometer.type ? # _pdbx_nmr_refine.entry_id 2DKP _pdbx_nmr_refine.method 'torsion angle dynamics' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.entry_id 2DKP _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.conformer_selection_criteria 'target function,structures with the least restraint violations' _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 2DKP _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 0.932 'Kobayashi, N.' 4 'structure solution' CYANA 2.0.17 'Guntert, P.' 5 refinement CYANA 2.0.17 'Guntert, P.' 6 # _exptl.entry_id 2DKP _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 2DKP _struct.title 'Solution structure of the PH domain of pleckstrin homology domain-containing protein family A member 5 from human' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2DKP _struct_keywords.pdbx_keywords 'SIGNALING PROTEIN' _struct_keywords.text ;PH domain, Pleckstrin homology domain-containing protein family A member 5, structural genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, SIGNALING PROTEIN ; # _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_conf.conf_type_id HELX_P _struct_conf.id HELX_P1 _struct_conf.pdbx_PDB_helix_id 1 _struct_conf.beg_label_comp_id GLY _struct_conf.beg_label_asym_id A _struct_conf.beg_label_seq_id 104 _struct_conf.pdbx_beg_PDB_ins_code ? _struct_conf.end_label_comp_id LEU _struct_conf.end_label_asym_id A _struct_conf.end_label_seq_id 119 _struct_conf.pdbx_end_PDB_ins_code ? _struct_conf.beg_auth_comp_id GLY _struct_conf.beg_auth_asym_id A _struct_conf.beg_auth_seq_id 104 _struct_conf.end_auth_comp_id LEU _struct_conf.end_auth_asym_id A _struct_conf.end_auth_seq_id 119 _struct_conf.pdbx_PDB_helix_class 1 _struct_conf.details ? _struct_conf.pdbx_PDB_helix_length 16 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 7 _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 A 5 6 ? anti-parallel A 6 7 ? 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 ILE A 61 ? ILE A 65 ? ILE A 61 ILE A 65 A 2 CYS A 49 ? TYR A 53 ? CYS A 49 TYR A 53 A 3 TRP A 38 ? SER A 46 ? TRP A 38 SER A 46 A 4 ARG A 23 ? GLN A 30 ? ARG A 23 GLN A 30 A 5 TYR A 97 ? CYS A 100 ? TYR A 97 CYS A 100 A 6 ALA A 86 ? ALA A 90 ? ALA A 86 ALA A 90 A 7 GLN A 71 ? LEU A 74 ? GLN A 71 LEU A 74 # 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 65 ? O ILE A 65 N LEU A 50 ? N LEU A 50 A 2 3 O PHE A 51 ? O PHE A 51 N VAL A 44 ? N VAL A 44 A 3 4 O LYS A 39 ? O LYS A 39 N LYS A 29 ? N LYS A 29 A 4 5 N GLN A 30 ? N GLN A 30 O TYR A 98 ? O TYR A 98 A 5 6 O PHE A 99 ? O PHE A 99 N PHE A 87 ? N PHE A 87 A 6 7 O LYS A 88 ? O LYS A 88 N ALA A 73 ? N ALA A 73 # _database_PDB_matrix.entry_id 2DKP _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 2DKP _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 SER 10 10 10 SER SER A . n A 1 11 ASN 11 11 11 ASN ASN A . n A 1 12 SER 12 12 12 SER SER A . n A 1 13 ILE 13 13 13 ILE ILE A . n A 1 14 LYS 14 14 14 LYS LYS A . n A 1 15 ARG 15 15 15 ARG ARG A . n A 1 16 ASN 16 16 16 ASN ASN A . n A 1 17 PRO 17 17 17 PRO PRO A . n A 1 18 ASN 18 18 18 ASN ASN A . n A 1 19 ALA 19 19 19 ALA ALA A . n A 1 20 PRO 20 20 20 PRO PRO A . n A 1 21 VAL 21 21 21 VAL VAL A . n A 1 22 VAL 22 22 22 VAL VAL A . n A 1 23 ARG 23 23 23 ARG ARG A . n A 1 24 ARG 24 24 24 ARG ARG A . n A 1 25 GLY 25 25 25 GLY GLY A . n A 1 26 TRP 26 26 26 TRP TRP A . n A 1 27 LEU 27 27 27 LEU LEU A . n A 1 28 TYR 28 28 28 TYR TYR A . n A 1 29 LYS 29 29 29 LYS LYS A . n A 1 30 GLN 30 30 30 GLN GLN A . n A 1 31 ASP 31 31 31 ASP ASP A . n A 1 32 SER 32 32 32 SER SER A . n A 1 33 THR 33 33 33 THR THR A . n A 1 34 GLY 34 34 34 GLY GLY A . n A 1 35 MET 35 35 35 MET MET A . n A 1 36 LYS 36 36 36 LYS LYS A . n A 1 37 LEU 37 37 37 LEU LEU A . n A 1 38 TRP 38 38 38 TRP TRP A . n A 1 39 LYS 39 39 39 LYS LYS A . n A 1 40 LYS 40 40 40 LYS LYS A . n A 1 41 ARG 41 41 41 ARG ARG A . n A 1 42 TRP 42 42 42 TRP TRP A . n A 1 43 PHE 43 43 43 PHE PHE A . n A 1 44 VAL 44 44 44 VAL VAL A . n A 1 45 LEU 45 45 45 LEU LEU A . n A 1 46 SER 46 46 46 SER SER A . n A 1 47 ASP 47 47 47 ASP ASP A . n A 1 48 LEU 48 48 48 LEU LEU A . n A 1 49 CYS 49 49 49 CYS CYS A . n A 1 50 LEU 50 50 50 LEU LEU A . n A 1 51 PHE 51 51 51 PHE PHE A . n A 1 52 TYR 52 52 52 TYR TYR A . n A 1 53 TYR 53 53 53 TYR TYR A . n A 1 54 ARG 54 54 54 ARG ARG A . n A 1 55 ASP 55 55 55 ASP ASP A . n A 1 56 GLU 56 56 56 GLU GLU A . n A 1 57 LYS 57 57 57 LYS LYS A . n A 1 58 GLU 58 58 58 GLU GLU A . n A 1 59 GLU 59 59 59 GLU GLU A . n A 1 60 GLY 60 60 60 GLY GLY A . n A 1 61 ILE 61 61 61 ILE ILE A . n A 1 62 LEU 62 62 62 LEU LEU A . n A 1 63 GLY 63 63 63 GLY GLY A . n A 1 64 SER 64 64 64 SER SER A . n A 1 65 ILE 65 65 65 ILE ILE A . n A 1 66 LEU 66 66 66 LEU LEU A . n A 1 67 LEU 67 67 67 LEU LEU A . n A 1 68 PRO 68 68 68 PRO PRO A . n A 1 69 SER 69 69 69 SER SER A . n A 1 70 PHE 70 70 70 PHE PHE A . n A 1 71 GLN 71 71 71 GLN GLN A . n A 1 72 ILE 72 72 72 ILE ILE A . n A 1 73 ALA 73 73 73 ALA ALA A . n A 1 74 LEU 74 74 74 LEU LEU A . n A 1 75 LEU 75 75 75 LEU LEU A . n A 1 76 THR 76 76 76 THR THR A . n A 1 77 SER 77 77 77 SER SER A . n A 1 78 GLU 78 78 78 GLU GLU A . n A 1 79 ASP 79 79 79 ASP ASP A . n A 1 80 HIS 80 80 80 HIS HIS A . n A 1 81 ILE 81 81 81 ILE ILE A . n A 1 82 ASN 82 82 82 ASN ASN A . n A 1 83 ARG 83 83 83 ARG ARG A . n A 1 84 LYS 84 84 84 LYS LYS A . n A 1 85 TYR 85 85 85 TYR TYR A . n A 1 86 ALA 86 86 86 ALA ALA A . n A 1 87 PHE 87 87 87 PHE PHE A . n A 1 88 LYS 88 88 88 LYS LYS A . n A 1 89 ALA 89 89 89 ALA ALA A . n A 1 90 ALA 90 90 90 ALA ALA A . n A 1 91 HIS 91 91 91 HIS HIS A . n A 1 92 PRO 92 92 92 PRO PRO A . n A 1 93 ASN 93 93 93 ASN ASN A . n A 1 94 MET 94 94 94 MET MET A . n A 1 95 ARG 95 95 95 ARG ARG A . n A 1 96 THR 96 96 96 THR THR A . n A 1 97 TYR 97 97 97 TYR TYR A . n A 1 98 TYR 98 98 98 TYR TYR A . n A 1 99 PHE 99 99 99 PHE PHE A . n A 1 100 CYS 100 100 100 CYS CYS A . n A 1 101 THR 101 101 101 THR THR A . n A 1 102 ASP 102 102 102 ASP ASP A . n A 1 103 THR 103 103 103 THR THR A . n A 1 104 GLY 104 104 104 GLY GLY A . n A 1 105 LYS 105 105 105 LYS LYS A . n A 1 106 GLU 106 106 106 GLU GLU A . n A 1 107 MET 107 107 107 MET MET A . n A 1 108 GLU 108 108 108 GLU GLU A . n A 1 109 LEU 109 109 109 LEU LEU A . n A 1 110 TRP 110 110 110 TRP TRP A . n A 1 111 MET 111 111 111 MET MET A . n A 1 112 LYS 112 112 112 LYS LYS A . n A 1 113 ALA 113 113 113 ALA ALA A . n A 1 114 MET 114 114 114 MET MET A . n A 1 115 LEU 115 115 115 LEU LEU A . n A 1 116 ASP 116 116 116 ASP ASP A . n A 1 117 ALA 117 117 117 ALA ALA A . n A 1 118 ALA 118 118 118 ALA ALA A . n A 1 119 LEU 119 119 119 LEU LEU A . n A 1 120 VAL 120 120 120 VAL VAL A . n A 1 121 GLN 121 121 121 GLN GLN A . n A 1 122 THR 122 122 122 THR THR A . n A 1 123 SER 123 123 123 SER SER A . n A 1 124 GLY 124 124 124 GLY GLY A . n A 1 125 PRO 125 125 125 PRO PRO A . n A 1 126 SER 126 126 126 SER SER A . n A 1 127 SER 127 127 127 SER SER A . n A 1 128 GLY 128 128 128 GLY GLY 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 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 2006-10-13 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-09 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 '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 4 'Structure model' database_2 2 4 'Structure model' pdbx_nmr_software 3 4 'Structure model' pdbx_nmr_spectrometer 4 4 'Structure model' pdbx_struct_assembly 5 4 'Structure model' pdbx_struct_oper_list 6 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_nmr_software.name' 4 4 'Structure model' '_pdbx_nmr_spectrometer.model' 5 4 'Structure model' '_struct_ref_seq_dif.details' # _pdbx_database_remark.id 650 _pdbx_database_remark.text ;HELIX DETERMINATION METHOD: AUTHOR DETERMINED ; # 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 A 11 ? ? -69.96 83.25 2 1 ALA A 19 ? ? -41.58 102.17 3 1 PRO A 20 ? ? -45.16 106.37 4 1 LEU A 48 ? ? 47.23 29.97 5 1 LEU A 75 ? ? -49.34 160.22 6 1 ASP A 79 ? ? -92.87 48.65 7 1 GLU A 106 ? ? -39.28 -27.84 8 1 LEU A 119 ? ? -39.04 -33.64 9 1 VAL A 120 ? ? -37.35 142.42 10 1 GLN A 121 ? ? -107.94 61.87 11 2 LEU A 75 ? ? -49.57 156.22 12 2 ASP A 79 ? ? -35.09 132.52 13 2 HIS A 80 ? ? -95.82 34.72 14 2 ASN A 82 ? ? -109.50 42.36 15 2 GLN A 121 ? ? -109.65 79.93 16 2 PRO A 125 ? ? -79.78 23.81 17 3 SER A 5 ? ? -37.10 140.14 18 3 ALA A 19 ? ? -43.85 103.40 19 3 MET A 35 ? ? -34.20 134.43 20 3 GLU A 58 ? ? 34.56 50.97 21 3 LEU A 74 ? ? -49.53 151.19 22 3 HIS A 80 ? ? -81.04 46.23 23 3 TYR A 85 ? ? 34.41 53.09 24 3 LEU A 119 ? ? -39.78 -26.64 25 3 SER A 127 ? ? -51.67 97.32 26 4 ASN A 11 ? ? -99.01 -62.36 27 4 SER A 12 ? ? -59.47 177.27 28 4 ALA A 19 ? ? -33.92 142.11 29 4 TRP A 26 ? ? -62.95 97.71 30 4 THR A 33 ? ? -37.00 118.92 31 4 LEU A 75 ? ? -45.77 165.42 32 4 LYS A 112 ? ? -38.91 -39.19 33 4 GLN A 121 ? ? -114.26 76.46 34 5 SER A 2 ? ? 39.29 41.97 35 5 SER A 12 ? ? -56.54 170.92 36 5 ALA A 19 ? ? -37.81 102.36 37 5 ARG A 23 ? ? -172.27 131.31 38 5 TRP A 26 ? ? -67.56 86.59 39 5 LEU A 74 ? ? -49.99 150.01 40 5 HIS A 80 ? ? -83.19 42.80 41 5 ASN A 82 ? ? -94.91 40.05 42 5 GLU A 106 ? ? -49.75 -18.20 43 5 LYS A 112 ? ? -34.28 -39.57 44 5 GLN A 121 ? ? -100.36 63.41 45 5 PRO A 125 ? ? -75.00 46.30 46 6 SER A 2 ? ? -58.65 106.23 47 6 ALA A 19 ? ? -33.98 102.16 48 6 ARG A 23 ? ? -171.09 140.39 49 6 LYS A 36 ? ? -86.06 49.74 50 6 LEU A 48 ? ? 35.81 40.53 51 6 LYS A 57 ? ? -49.11 -19.33 52 6 LEU A 75 ? ? -55.42 176.16 53 6 ASN A 82 ? ? -86.54 34.58 54 6 GLU A 106 ? ? -47.76 -19.74 55 6 LYS A 112 ? ? -34.62 -39.06 56 6 GLN A 121 ? ? -103.99 58.12 57 6 PRO A 125 ? ? -77.24 42.75 58 7 SER A 5 ? ? -166.82 117.23 59 7 ALA A 19 ? ? -47.36 105.29 60 7 TRP A 26 ? ? -57.85 96.00 61 7 SER A 32 ? ? -81.61 45.11 62 7 ARG A 54 ? ? -33.18 -36.02 63 7 VAL A 120 ? ? -33.47 125.70 64 7 GLN A 121 ? ? -96.47 44.86 65 7 SER A 123 ? ? 34.89 46.41 66 7 SER A 127 ? ? -54.98 106.87 67 8 LYS A 8 ? ? -133.64 -53.52 68 8 ARG A 9 ? ? 70.21 41.62 69 8 ALA A 19 ? ? -47.80 105.61 70 8 SER A 32 ? ? -108.05 -71.02 71 8 THR A 33 ? ? 33.83 36.21 72 8 GLU A 59 ? ? -107.23 70.94 73 8 LEU A 75 ? ? -41.65 164.26 74 8 SER A 77 ? ? -34.21 -35.15 75 8 HIS A 80 ? ? -94.51 40.89 76 9 LYS A 8 ? ? -174.08 141.78 77 9 ALA A 19 ? ? -34.68 101.75 78 9 TRP A 26 ? ? -61.42 98.50 79 9 SER A 32 ? ? -103.64 -64.69 80 9 ASN A 82 ? ? -87.72 41.75 81 9 PRO A 125 ? ? -77.98 39.07 82 10 LEU A 75 ? ? -43.72 163.11 83 10 GLN A 121 ? ? -105.54 58.74 84 11 SER A 5 ? ? -166.61 117.61 85 11 ARG A 15 ? ? -66.96 -179.33 86 11 ALA A 19 ? ? -45.99 104.49 87 11 ARG A 23 ? ? -173.68 140.10 88 11 LEU A 48 ? ? 36.41 49.59 89 11 HIS A 80 ? ? -91.13 47.66 90 11 ILE A 81 ? ? -121.65 -52.03 91 11 TYR A 85 ? ? 37.19 28.67 92 11 SER A 126 ? ? -108.07 43.05 93 12 ARG A 23 ? ? -173.08 143.66 94 12 SER A 32 ? ? -87.06 45.85 95 12 LYS A 36 ? ? -67.29 75.27 96 12 LEU A 75 ? ? -47.96 159.80 97 12 LYS A 112 ? ? -38.07 -39.11 98 12 VAL A 120 ? ? -33.87 139.72 99 12 GLN A 121 ? ? -102.36 56.87 100 13 SER A 12 ? ? -58.14 175.05 101 13 ALA A 19 ? ? -38.29 102.37 102 13 PRO A 20 ? ? -44.29 105.12 103 13 ARG A 23 ? ? -174.94 136.57 104 13 THR A 33 ? ? -174.50 147.96 105 13 LEU A 75 ? ? -45.76 171.42 106 13 HIS A 80 ? ? -83.77 35.70 107 13 SER A 126 ? ? -101.30 -65.34 108 14 LYS A 8 ? ? -38.47 148.29 109 14 LYS A 36 ? ? -58.13 78.89 110 14 LEU A 75 ? ? -47.17 161.20 111 14 HIS A 80 ? ? -84.21 36.40 112 14 ASN A 82 ? ? -91.85 38.46 113 14 LEU A 119 ? ? -36.87 -32.28 114 14 GLN A 121 ? ? -105.05 46.94 115 14 THR A 122 ? ? -89.50 30.04 116 15 ALA A 19 ? ? -41.81 102.13 117 15 PRO A 20 ? ? -47.26 102.52 118 15 ARG A 23 ? ? -174.94 145.71 119 15 TRP A 26 ? ? -65.97 92.62 120 15 GLN A 30 ? ? -58.36 177.46 121 15 LYS A 36 ? ? -59.16 80.90 122 15 TYR A 85 ? ? 33.94 54.51 123 15 VAL A 120 ? ? -35.27 135.34 124 16 SER A 10 ? ? -50.38 96.86 125 16 ALA A 19 ? ? -36.65 101.76 126 16 ARG A 23 ? ? -172.15 144.20 127 16 MET A 35 ? ? -88.48 43.57 128 16 LEU A 75 ? ? -44.76 155.78 129 16 HIS A 80 ? ? -97.38 47.37 130 16 ASN A 82 ? ? -93.44 41.82 131 16 GLN A 121 ? ? -106.61 69.20 132 17 ALA A 19 ? ? -42.56 102.58 133 17 PRO A 20 ? ? -46.21 109.22 134 17 LEU A 75 ? ? -40.41 154.81 135 17 THR A 76 ? ? -175.28 -175.96 136 17 GLU A 78 ? ? 46.27 28.52 137 17 ASP A 79 ? ? -33.40 128.15 138 17 HIS A 80 ? ? -82.38 39.28 139 17 ASN A 82 ? ? -84.53 39.16 140 17 TYR A 85 ? ? 39.84 46.33 141 17 GLN A 121 ? ? -100.00 79.18 142 17 PRO A 125 ? ? -44.51 152.93 143 18 ARG A 9 ? ? -103.30 60.11 144 18 ARG A 15 ? ? -48.61 164.18 145 18 ILE A 61 ? ? -37.37 135.44 146 18 LEU A 75 ? ? -51.20 173.73 147 18 HIS A 80 ? ? -82.11 39.52 148 18 GLN A 121 ? ? -108.53 57.01 149 19 SER A 2 ? ? -105.17 41.96 150 19 SER A 5 ? ? -170.83 135.72 151 19 SER A 6 ? ? -173.28 143.70 152 19 ARG A 9 ? ? -35.47 144.72 153 19 ASN A 11 ? ? -102.63 43.07 154 19 ALA A 19 ? ? -36.74 101.79 155 19 ARG A 23 ? ? -172.94 142.44 156 19 TRP A 26 ? ? -54.91 99.20 157 19 GLU A 58 ? ? 30.67 47.76 158 19 GLU A 59 ? ? -94.43 36.56 159 19 LEU A 75 ? ? -53.00 -174.74 160 19 ASN A 82 ? ? -104.27 45.41 161 19 GLN A 121 ? ? -112.34 52.21 162 19 SER A 126 ? ? -34.51 140.66 163 20 ALA A 19 ? ? -43.48 103.23 164 20 TRP A 26 ? ? -68.78 90.48 165 20 THR A 33 ? ? -170.53 141.27 166 20 LYS A 36 ? ? -88.52 34.66 167 20 ASN A 82 ? ? -79.76 45.07 168 20 VAL A 120 ? ? -35.91 137.02 169 20 GLN A 121 ? ? -103.07 46.64 #