data_2DNY # _entry.id 2DNY # _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 2DNY pdb_00002dny 10.2210/pdb2dny/pdb RCSB RCSB025636 ? ? WWPDB D_1000025636 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id hsi002009842.1 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2DNY _pdbx_database_status.recvd_initial_deposition_date 2006-04-27 _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 'Suzuki, S.' 1 'Nagata, T.' 2 'Muto, Y.' 3 'Inoue, M.' 4 'Kigawa, T.' 5 'Terada, T.' 6 'Shirouzu, M.' 7 'Yokoyama, S.' 8 'RIKEN Structural Genomics/Proteomics Initiative (RSGI)' 9 # _citation.id primary _citation.title 'Solution structure of the third RNA binding domain of FBP-interacting repressor, SIAHBP1' _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 'Suzuki, S.' 1 ? primary 'Nagata, T.' 2 ? primary 'Muto, Y.' 3 ? primary 'Inoue, M.' 4 ? primary 'Kigawa, T.' 5 ? primary 'Terada, T.' 6 ? primary 'Shirouzu, M.' 7 ? primary 'Yokoyama, S.' 8 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'Fuse-binding protein-interacting repressor, isoform b' _entity.formula_weight 13100.477 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment 'RNA recognition motif' _entity.details ? # _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 ;GSSGSSGKLLRKQESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETH KAIQALNGRWFAGRKVVAEVYDQERFDNSDLSASGPSSG ; _entity_poly.pdbx_seq_one_letter_code_can ;GSSGSSGKLLRKQESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETH KAIQALNGRWFAGRKVVAEVYDQERFDNSDLSASGPSSG ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier hsi002009842.1 # 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 LEU n 1 10 LEU n 1 11 ARG n 1 12 LYS n 1 13 GLN n 1 14 GLU n 1 15 SER n 1 16 THR n 1 17 VAL n 1 18 MET n 1 19 VAL n 1 20 LEU n 1 21 ARG n 1 22 ASN n 1 23 MET n 1 24 VAL n 1 25 ASP n 1 26 PRO n 1 27 LYS n 1 28 ASP n 1 29 ILE n 1 30 ASP n 1 31 ASP n 1 32 ASP n 1 33 LEU n 1 34 GLU n 1 35 GLY n 1 36 GLU n 1 37 VAL n 1 38 THR n 1 39 GLU n 1 40 GLU n 1 41 CYS n 1 42 GLY n 1 43 LYS n 1 44 PHE n 1 45 GLY n 1 46 ALA n 1 47 VAL n 1 48 ASN n 1 49 ARG n 1 50 VAL n 1 51 ILE n 1 52 ILE n 1 53 TYR n 1 54 GLN n 1 55 GLU n 1 56 LYS n 1 57 GLN n 1 58 GLY n 1 59 GLU n 1 60 GLU n 1 61 GLU n 1 62 ASP n 1 63 ALA n 1 64 GLU n 1 65 ILE n 1 66 ILE n 1 67 VAL n 1 68 LYS n 1 69 ILE n 1 70 PHE n 1 71 VAL n 1 72 GLU n 1 73 PHE n 1 74 SER n 1 75 ILE n 1 76 ALA n 1 77 SER n 1 78 GLU n 1 79 THR n 1 80 HIS n 1 81 LYS n 1 82 ALA n 1 83 ILE n 1 84 GLN n 1 85 ALA n 1 86 LEU n 1 87 ASN n 1 88 GLY n 1 89 ARG n 1 90 TRP n 1 91 PHE n 1 92 ALA n 1 93 GLY n 1 94 ARG n 1 95 LYS n 1 96 VAL n 1 97 VAL n 1 98 ALA n 1 99 GLU n 1 100 VAL n 1 101 TYR n 1 102 ASP n 1 103 GLN n 1 104 GLU n 1 105 ARG n 1 106 PHE n 1 107 ASP n 1 108 ASN n 1 109 SER n 1 110 ASP n 1 111 LEU n 1 112 SER n 1 113 ALA n 1 114 SER n 1 115 GLY n 1 116 PRO n 1 117 SER n 1 118 SER n 1 119 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 SIAHBP1 _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 P050509-16 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description 'Cell-free protein synthesis' # _struct_ref.id 1 _struct_ref.db_name GB _struct_ref.db_code AAH08875 _struct_ref.pdbx_db_accession 14250810 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;KLLRKQESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALN GRWFAGRKVVAEVYDQERFDNSDLSA ; _struct_ref.pdbx_align_begin 437 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2DNY _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 113 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 14250810 _struct_ref_seq.db_align_beg 437 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 542 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 437 _struct_ref_seq.pdbx_auth_seq_align_end 542 # 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 2DNY GLY A 1 ? GB 14250810 ? ? 'cloning artifact' 430 1 1 2DNY SER A 2 ? GB 14250810 ? ? 'cloning artifact' 431 2 1 2DNY SER A 3 ? GB 14250810 ? ? 'cloning artifact' 432 3 1 2DNY GLY A 4 ? GB 14250810 ? ? 'cloning artifact' 433 4 1 2DNY SER A 5 ? GB 14250810 ? ? 'cloning artifact' 434 5 1 2DNY SER A 6 ? GB 14250810 ? ? 'cloning artifact' 435 6 1 2DNY GLY A 7 ? GB 14250810 ? ? 'cloning artifact' 436 7 1 2DNY SER A 114 ? GB 14250810 ? ? 'cloning artifact' 543 8 1 2DNY GLY A 115 ? GB 14250810 ? ? 'cloning artifact' 544 9 1 2DNY PRO A 116 ? GB 14250810 ? ? 'cloning artifact' 545 10 1 2DNY SER A 117 ? GB 14250810 ? ? 'cloning artifact' 546 11 1 2DNY SER A 118 ? GB 14250810 ? ? 'cloning artifact' 547 12 1 2DNY GLY A 119 ? GB 14250810 ? ? 'cloning artifact' 548 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 298 _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 13C/15N-PROTEIN; 20mM d-Tris-HCl(pH7.0); 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 2DNY _pdbx_nmr_refine.method 'torsion angle dyanamics, simulated annealing' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_details.entry_id 2DNY _pdbx_nmr_details.text 'The structure was determined using triple-resonance NMR spectroscopy.' # _pdbx_nmr_ensemble.entry_id 2DNY _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 lowest energy, 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 2DNY _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 20031121 'Delaglio, F.' 2 'data analysis' NMRView 5.0.4 'Johnson, B.A.' 3 'data analysis' KUJIRA 0.9321 'Kobayashi, N.' 4 'data analysis' Olivia 1.10.5 'Yokochi, M.' 5 'structure solution' CYANA 2.0.17 'Guntert, P.' 6 refinement CYANA 2.0.17 'Guntert, P.' 7 # _exptl.entry_id 2DNY _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _struct.entry_id 2DNY _struct.title 'Solution structure of the third RNA binding domain of FBP-interacting repressor, SIAHBP1' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2DNY _struct_keywords.pdbx_keywords 'RNA BINDING PROTEIN' _struct_keywords.text ;RNA recognition motif, RRM, RNA binding domain, RBD, RNP, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, RNA BINDING 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 # 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 ASP A 32 ? CYS A 41 ? ASP A 461 CYS A 470 1 ? 10 HELX_P HELX_P2 2 ALA A 76 ? ALA A 85 ? ALA A 505 ALA A 514 1 ? 10 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 4 ? B ? 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 ? anti-parallel A 3 4 ? anti-parallel B 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 VAL A 47 ? LYS A 56 ? VAL A 476 LYS A 485 A 2 ILE A 65 ? PHE A 73 ? ILE A 494 PHE A 502 A 3 VAL A 17 ? ARG A 21 ? VAL A 446 ARG A 450 A 4 VAL A 97 ? VAL A 100 ? VAL A 526 VAL A 529 B 1 TRP A 90 ? PHE A 91 ? TRP A 519 PHE A 520 B 2 ARG A 94 ? LYS A 95 ? ARG A 523 LYS A 524 # 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 N ILE A 51 ? N ILE A 480 O PHE A 70 ? O PHE A 499 A 2 3 O VAL A 71 ? O VAL A 500 N MET A 18 ? N MET A 447 A 3 4 N VAL A 19 ? N VAL A 448 O GLU A 99 ? O GLU A 528 B 1 2 N PHE A 91 ? N PHE A 520 O ARG A 94 ? O ARG A 523 # _database_PDB_matrix.entry_id 2DNY _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 2DNY _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 1 430 430 GLY GLY A . n A 1 2 SER 2 431 431 SER SER A . n A 1 3 SER 3 432 432 SER SER A . n A 1 4 GLY 4 433 433 GLY GLY A . n A 1 5 SER 5 434 434 SER SER A . n A 1 6 SER 6 435 435 SER SER A . n A 1 7 GLY 7 436 436 GLY GLY A . n A 1 8 LYS 8 437 437 LYS LYS A . n A 1 9 LEU 9 438 438 LEU LEU A . n A 1 10 LEU 10 439 439 LEU LEU A . n A 1 11 ARG 11 440 440 ARG ARG A . n A 1 12 LYS 12 441 441 LYS LYS A . n A 1 13 GLN 13 442 442 GLN GLN A . n A 1 14 GLU 14 443 443 GLU GLU A . n A 1 15 SER 15 444 444 SER SER A . n A 1 16 THR 16 445 445 THR THR A . n A 1 17 VAL 17 446 446 VAL VAL A . n A 1 18 MET 18 447 447 MET MET A . n A 1 19 VAL 19 448 448 VAL VAL A . n A 1 20 LEU 20 449 449 LEU LEU A . n A 1 21 ARG 21 450 450 ARG ARG A . n A 1 22 ASN 22 451 451 ASN ASN A . n A 1 23 MET 23 452 452 MET MET A . n A 1 24 VAL 24 453 453 VAL VAL A . n A 1 25 ASP 25 454 454 ASP ASP A . n A 1 26 PRO 26 455 455 PRO PRO A . n A 1 27 LYS 27 456 456 LYS LYS A . n A 1 28 ASP 28 457 457 ASP ASP A . n A 1 29 ILE 29 458 458 ILE ILE A . n A 1 30 ASP 30 459 459 ASP ASP A . n A 1 31 ASP 31 460 460 ASP ASP A . n A 1 32 ASP 32 461 461 ASP ASP A . n A 1 33 LEU 33 462 462 LEU LEU A . n A 1 34 GLU 34 463 463 GLU GLU A . n A 1 35 GLY 35 464 464 GLY GLY A . n A 1 36 GLU 36 465 465 GLU GLU A . n A 1 37 VAL 37 466 466 VAL VAL A . n A 1 38 THR 38 467 467 THR THR A . n A 1 39 GLU 39 468 468 GLU GLU A . n A 1 40 GLU 40 469 469 GLU GLU A . n A 1 41 CYS 41 470 470 CYS CYS A . n A 1 42 GLY 42 471 471 GLY GLY A . n A 1 43 LYS 43 472 472 LYS LYS A . n A 1 44 PHE 44 473 473 PHE PHE A . n A 1 45 GLY 45 474 474 GLY GLY A . n A 1 46 ALA 46 475 475 ALA ALA A . n A 1 47 VAL 47 476 476 VAL VAL A . n A 1 48 ASN 48 477 477 ASN ASN A . n A 1 49 ARG 49 478 478 ARG ARG A . n A 1 50 VAL 50 479 479 VAL VAL A . n A 1 51 ILE 51 480 480 ILE ILE A . n A 1 52 ILE 52 481 481 ILE ILE A . n A 1 53 TYR 53 482 482 TYR TYR A . n A 1 54 GLN 54 483 483 GLN GLN A . n A 1 55 GLU 55 484 484 GLU GLU A . n A 1 56 LYS 56 485 485 LYS LYS A . n A 1 57 GLN 57 486 486 GLN GLN A . n A 1 58 GLY 58 487 487 GLY GLY A . n A 1 59 GLU 59 488 488 GLU GLU A . n A 1 60 GLU 60 489 489 GLU GLU A . n A 1 61 GLU 61 490 490 GLU GLU A . n A 1 62 ASP 62 491 491 ASP ASP A . n A 1 63 ALA 63 492 492 ALA ALA A . n A 1 64 GLU 64 493 493 GLU GLU A . n A 1 65 ILE 65 494 494 ILE ILE A . n A 1 66 ILE 66 495 495 ILE ILE A . n A 1 67 VAL 67 496 496 VAL VAL A . n A 1 68 LYS 68 497 497 LYS LYS A . n A 1 69 ILE 69 498 498 ILE ILE A . n A 1 70 PHE 70 499 499 PHE PHE A . n A 1 71 VAL 71 500 500 VAL VAL A . n A 1 72 GLU 72 501 501 GLU GLU A . n A 1 73 PHE 73 502 502 PHE PHE A . n A 1 74 SER 74 503 503 SER SER A . n A 1 75 ILE 75 504 504 ILE ILE A . n A 1 76 ALA 76 505 505 ALA ALA A . n A 1 77 SER 77 506 506 SER SER A . n A 1 78 GLU 78 507 507 GLU GLU A . n A 1 79 THR 79 508 508 THR THR A . n A 1 80 HIS 80 509 509 HIS HIS A . n A 1 81 LYS 81 510 510 LYS LYS A . n A 1 82 ALA 82 511 511 ALA ALA A . n A 1 83 ILE 83 512 512 ILE ILE A . n A 1 84 GLN 84 513 513 GLN GLN A . n A 1 85 ALA 85 514 514 ALA ALA A . n A 1 86 LEU 86 515 515 LEU LEU A . n A 1 87 ASN 87 516 516 ASN ASN A . n A 1 88 GLY 88 517 517 GLY GLY A . n A 1 89 ARG 89 518 518 ARG ARG A . n A 1 90 TRP 90 519 519 TRP TRP A . n A 1 91 PHE 91 520 520 PHE PHE A . n A 1 92 ALA 92 521 521 ALA ALA A . n A 1 93 GLY 93 522 522 GLY GLY A . n A 1 94 ARG 94 523 523 ARG ARG A . n A 1 95 LYS 95 524 524 LYS LYS A . n A 1 96 VAL 96 525 525 VAL VAL A . n A 1 97 VAL 97 526 526 VAL VAL A . n A 1 98 ALA 98 527 527 ALA ALA A . n A 1 99 GLU 99 528 528 GLU GLU A . n A 1 100 VAL 100 529 529 VAL VAL A . n A 1 101 TYR 101 530 530 TYR TYR A . n A 1 102 ASP 102 531 531 ASP ASP A . n A 1 103 GLN 103 532 532 GLN GLN A . n A 1 104 GLU 104 533 533 GLU GLU A . n A 1 105 ARG 105 534 534 ARG ARG A . n A 1 106 PHE 106 535 535 PHE PHE A . n A 1 107 ASP 107 536 536 ASP ASP A . n A 1 108 ASN 108 537 537 ASN ASN A . n A 1 109 SER 109 538 538 SER SER A . n A 1 110 ASP 110 539 539 ASP ASP A . n A 1 111 LEU 111 540 540 LEU LEU A . n A 1 112 SER 112 541 541 SER SER A . n A 1 113 ALA 113 542 542 ALA ALA A . n A 1 114 SER 114 543 543 SER SER A . n A 1 115 GLY 115 544 544 GLY GLY A . n A 1 116 PRO 116 545 545 PRO PRO A . n A 1 117 SER 117 546 546 SER SER A . n A 1 118 SER 118 547 547 SER SER A . n A 1 119 GLY 119 548 548 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 2007-04-17 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 LEU A 439 ? ? -81.84 42.57 2 1 PRO A 455 ? ? -69.78 2.01 3 1 ILE A 458 ? ? -47.57 108.47 4 1 ALA A 492 ? ? -51.73 -176.16 5 1 ALA A 514 ? ? -94.73 -63.53 6 1 ALA A 521 ? ? -51.89 84.82 7 1 SER A 538 ? ? -98.63 44.53 8 1 PRO A 545 ? ? -69.78 95.42 9 2 GLU A 443 ? ? -39.75 138.12 10 2 ILE A 458 ? ? -55.19 101.48 11 2 ALA A 521 ? ? -51.85 85.30 12 2 SER A 538 ? ? -93.95 41.62 13 3 LYS A 441 ? ? -86.84 36.46 14 3 GLN A 442 ? ? -56.85 92.06 15 3 ASN A 451 ? ? 70.39 44.31 16 3 ILE A 458 ? ? -36.52 123.28 17 3 ALA A 492 ? ? -50.63 -177.85 18 3 ALA A 521 ? ? -53.24 83.78 19 3 SER A 538 ? ? -82.29 44.87 20 3 ASP A 539 ? ? -118.15 51.27 21 3 LEU A 540 ? ? -95.00 33.84 22 3 ALA A 542 ? ? -122.40 -71.13 23 3 SER A 543 ? ? -101.55 -68.23 24 4 SER A 435 ? ? -37.52 116.81 25 4 LYS A 437 ? ? -39.95 146.69 26 4 LEU A 439 ? ? -69.28 88.72 27 4 GLN A 442 ? ? -52.85 91.25 28 4 PRO A 455 ? ? -69.78 2.83 29 4 ILE A 458 ? ? -34.03 100.24 30 4 ALA A 492 ? ? -51.68 -178.29 31 4 ALA A 521 ? ? -48.95 98.09 32 4 SER A 538 ? ? -83.18 45.94 33 4 SER A 543 ? ? -56.82 94.99 34 4 PRO A 545 ? ? -69.74 2.87 35 5 SER A 432 ? ? -117.32 78.13 36 5 ASN A 451 ? ? 73.99 36.67 37 5 ASP A 454 ? ? -48.62 161.04 38 5 PRO A 455 ? ? -69.73 1.84 39 5 ASN A 516 ? ? -47.61 -19.92 40 5 ALA A 521 ? ? -52.60 85.41 41 5 GLU A 533 ? ? -34.59 -72.15 42 5 LEU A 540 ? ? -93.48 30.57 43 5 SER A 541 ? ? -121.96 -64.45 44 5 SER A 543 ? ? -103.70 -66.09 45 6 GLU A 443 ? ? -56.22 173.32 46 6 ALA A 492 ? ? -56.82 170.68 47 6 ALA A 521 ? ? -52.95 94.20 48 6 SER A 538 ? ? -84.08 38.62 49 6 PRO A 545 ? ? -69.79 96.59 50 7 LYS A 437 ? ? -129.37 -62.23 51 7 PRO A 455 ? ? -69.70 1.63 52 7 GLU A 488 ? ? -39.30 -33.05 53 7 ALA A 521 ? ? -51.95 86.91 54 7 PHE A 535 ? ? -78.93 44.64 55 7 SER A 538 ? ? -79.80 48.15 56 8 GLN A 442 ? ? -109.96 50.28 57 8 GLU A 443 ? ? -69.97 -178.30 58 8 ASN A 451 ? ? 71.48 36.78 59 8 ILE A 458 ? ? -58.53 107.93 60 8 ALA A 492 ? ? -48.96 161.68 61 8 ALA A 521 ? ? -52.37 85.06 62 8 GLU A 533 ? ? -35.47 -39.58 63 8 PHE A 535 ? ? -75.86 48.86 64 8 SER A 543 ? ? -39.12 156.50 65 9 LEU A 439 ? ? -51.69 91.87 66 9 ILE A 458 ? ? -36.61 118.11 67 9 ALA A 521 ? ? -51.72 89.13 68 9 SER A 538 ? ? -81.98 42.10 69 9 SER A 541 ? ? -67.01 -175.02 70 10 LYS A 441 ? ? -49.65 94.68 71 10 GLU A 443 ? ? -61.17 -178.92 72 10 ASN A 451 ? ? 37.38 43.18 73 10 MET A 452 ? ? -99.78 -65.33 74 10 ALA A 514 ? ? -93.62 -61.84 75 10 ALA A 521 ? ? -51.91 85.19 76 10 ASP A 531 ? ? -44.44 162.65 77 11 LYS A 437 ? ? -65.61 89.93 78 11 ARG A 440 ? ? -40.90 155.02 79 11 PRO A 455 ? ? -69.75 5.35 80 11 LYS A 472 ? ? -50.07 -70.50 81 11 GLU A 489 ? ? -49.35 162.22 82 11 ALA A 511 ? ? -39.98 -36.63 83 11 ALA A 521 ? ? -52.06 84.90 84 11 PHE A 535 ? ? -82.86 36.88 85 11 SER A 538 ? ? -84.23 42.16 86 11 ASP A 539 ? ? -164.02 105.85 87 11 LEU A 540 ? ? -88.20 43.96 88 12 GLU A 443 ? ? -40.38 154.63 89 12 SER A 444 ? ? -53.74 104.45 90 12 PRO A 455 ? ? -69.76 2.36 91 12 ALA A 492 ? ? -53.17 172.65 92 12 HIS A 509 ? ? -39.74 -39.88 93 12 ALA A 521 ? ? -52.93 83.85 94 12 ASP A 531 ? ? -69.54 99.43 95 12 SER A 538 ? ? -79.35 45.64 96 12 PRO A 545 ? ? -69.81 -175.67 97 13 GLU A 443 ? ? -34.97 134.66 98 13 PRO A 455 ? ? -69.76 2.81 99 13 GLU A 489 ? ? -38.47 137.17 100 13 ALA A 521 ? ? -48.89 96.38 101 13 GLU A 533 ? ? -31.90 -76.41 102 13 PHE A 535 ? ? -75.64 48.38 103 13 SER A 538 ? ? -82.22 43.21 104 13 LEU A 540 ? ? -81.21 43.11 105 13 ALA A 542 ? ? -85.24 47.13 106 13 PRO A 545 ? ? -69.73 84.24 107 13 SER A 547 ? ? -51.28 104.77 108 14 SER A 432 ? ? -42.20 154.78 109 14 SER A 435 ? ? -56.08 103.76 110 14 LEU A 439 ? ? -82.59 40.83 111 14 LYS A 441 ? ? -43.92 106.42 112 14 ASN A 451 ? ? 37.36 45.95 113 14 MET A 452 ? ? -102.46 -64.16 114 14 ASN A 477 ? ? -90.29 -60.67 115 14 GLU A 488 ? ? -37.31 -28.63 116 14 ALA A 511 ? ? -39.90 -30.33 117 14 ALA A 521 ? ? -52.23 84.77 118 14 PHE A 535 ? ? -36.14 -30.50 119 14 ASP A 539 ? ? -107.38 78.13 120 14 SER A 547 ? ? -93.62 -60.95 121 15 ASN A 451 ? ? 71.88 46.42 122 15 MET A 452 ? ? -95.11 -61.85 123 15 PRO A 455 ? ? -69.79 2.67 124 15 ALA A 492 ? ? -51.03 -176.63 125 15 ALA A 521 ? ? -46.82 89.91 126 15 ASP A 531 ? ? -33.90 95.26 127 15 PHE A 535 ? ? -82.21 39.64 128 15 ALA A 542 ? ? -83.86 33.57 129 15 PRO A 545 ? ? -69.78 99.20 130 16 ASN A 451 ? ? 34.28 39.34 131 16 PRO A 455 ? ? -69.78 2.73 132 16 ILE A 458 ? ? -60.89 99.55 133 16 GLU A 489 ? ? -34.84 140.55 134 16 ALA A 492 ? ? -57.97 176.53 135 16 ALA A 521 ? ? -51.46 90.67 136 16 PHE A 535 ? ? -80.21 42.62 137 16 LEU A 540 ? ? -87.39 46.36 138 16 SER A 541 ? ? -121.70 -60.20 139 16 ALA A 542 ? ? -91.09 -60.60 140 17 SER A 435 ? ? -57.42 108.47 141 17 LYS A 441 ? ? -37.37 144.30 142 17 MET A 452 ? ? -102.32 -63.93 143 17 ALA A 492 ? ? -51.85 179.68 144 17 ALA A 521 ? ? -52.13 87.39 145 17 PHE A 535 ? ? -77.83 46.54 146 17 SER A 538 ? ? -81.54 41.45 147 17 SER A 541 ? ? -58.15 174.06 148 17 ALA A 542 ? ? -84.93 44.31 149 17 PRO A 545 ? ? -69.77 1.04 150 17 SER A 546 ? ? -47.45 166.85 151 18 SER A 431 ? ? -57.96 90.32 152 18 LEU A 439 ? ? -69.53 94.68 153 18 MET A 452 ? ? -98.17 -62.25 154 18 GLU A 488 ? ? -34.85 -34.92 155 18 ALA A 521 ? ? -44.87 99.22 156 18 ARG A 523 ? ? -163.30 119.49 157 18 ASP A 531 ? ? -36.92 143.42 158 18 PHE A 535 ? ? -82.40 30.19 159 18 SER A 541 ? ? -43.09 -70.12 160 18 PRO A 545 ? ? -69.77 -176.70 161 19 SER A 435 ? ? -35.54 143.13 162 19 LEU A 438 ? ? -89.62 32.57 163 19 SER A 444 ? ? -54.46 102.39 164 19 MET A 452 ? ? -94.69 -60.93 165 19 ASP A 454 ? ? -49.68 158.63 166 19 PRO A 455 ? ? -69.76 1.53 167 19 ALA A 492 ? ? -59.11 171.74 168 19 ALA A 521 ? ? -51.29 85.56 169 19 GLU A 533 ? ? -39.94 -75.07 170 19 PHE A 535 ? ? -76.04 48.29 171 19 SER A 538 ? ? -79.01 46.39 172 20 SER A 432 ? ? -43.96 105.42 173 20 LEU A 438 ? ? -54.73 100.69 174 20 PRO A 455 ? ? -69.71 2.41 175 20 ILE A 458 ? ? -37.00 113.62 176 20 ASN A 477 ? ? -102.39 -62.00 177 20 LEU A 515 ? ? -98.54 31.45 178 20 ALA A 521 ? ? -47.62 89.46 179 20 SER A 538 ? ? -83.10 42.64 180 20 LEU A 540 ? ? -93.52 -62.40 #