data_1WH9 # _entry.id 1WH9 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.355 _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 1WH9 pdb_00001wh9 10.2210/pdb1wh9/pdb RCSB RCSB023579 ? ? WWPDB D_1000023579 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id hss001000072.1 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1WH9 _pdbx_database_status.recvd_initial_deposition_date 2004-05-28 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.SG_entry Y _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_sf ? _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 'Nameki, N.' 1 'Tomizawa, T.' 2 'Koshiba, S.' 3 'Kigawa, T.' 4 'Yokoyama, S.' 5 'RIKEN Structural Genomics/Proteomics Initiative (RSGI)' 6 # _citation.id primary _citation.title 'Solution structure of the KH domain of human ribosomal protein S3' _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 'Nameki, N.' 1 ? primary 'Tomizawa, T.' 2 ? primary 'Koshiba, S.' 3 ? primary 'Kigawa, T.' 4 ? primary 'Yokoyama, S.' 5 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description '40S ribosomal protein S3' _entity.formula_weight 9917.071 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment 'KH domain' _entity.details ? # _entity_name_com.entity_id 1 _entity_name_com.name 'ribosomal protein S3' # _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 ;GSSGSSGFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVVQKRFGFPEGSVELYAE KVATRGSGPSSG ; _entity_poly.pdbx_seq_one_letter_code_can ;GSSGSSGFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVVQKRFGFPEGSVELYAE KVATRGSGPSSG ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier hss001000072.1 # 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 PHE n 1 9 LYS n 1 10 ALA n 1 11 GLU n 1 12 LEU n 1 13 ASN n 1 14 GLU n 1 15 PHE n 1 16 LEU n 1 17 THR n 1 18 ARG n 1 19 GLU n 1 20 LEU n 1 21 ALA n 1 22 GLU n 1 23 ASP n 1 24 GLY n 1 25 TYR n 1 26 SER n 1 27 GLY n 1 28 VAL n 1 29 GLU n 1 30 VAL n 1 31 ARG n 1 32 VAL n 1 33 THR n 1 34 PRO n 1 35 THR n 1 36 ARG n 1 37 THR n 1 38 GLU n 1 39 ILE n 1 40 ILE n 1 41 ILE n 1 42 LEU n 1 43 ALA n 1 44 THR n 1 45 ARG n 1 46 THR n 1 47 GLN n 1 48 ASN n 1 49 VAL n 1 50 LEU n 1 51 GLY n 1 52 GLU n 1 53 LYS n 1 54 GLY n 1 55 ARG n 1 56 ARG n 1 57 ILE n 1 58 ARG n 1 59 GLU n 1 60 LEU n 1 61 THR n 1 62 ALA n 1 63 VAL n 1 64 VAL n 1 65 GLN n 1 66 LYS n 1 67 ARG n 1 68 PHE n 1 69 GLY n 1 70 PHE n 1 71 PRO n 1 72 GLU n 1 73 GLY n 1 74 SER n 1 75 VAL n 1 76 GLU n 1 77 LEU n 1 78 TYR n 1 79 ALA n 1 80 GLU n 1 81 LYS n 1 82 VAL n 1 83 ALA n 1 84 THR n 1 85 ARG n 1 86 GLY n 1 87 SER n 1 88 GLY n 1 89 PRO n 1 90 SER n 1 91 SER n 1 92 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 'IMS cDNA adKA01519' _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 P040301-10 _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 RS3_HUMAN _struct_ref.pdbx_db_accession P23396 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code FKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVVQKRFGFPEGSVELYAEKVATRG _struct_ref.pdbx_align_begin 17 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1WH9 _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 86 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession P23396 _struct_ref_seq.db_align_beg 17 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 95 _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 86 # 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 1WH9 GLY A 1 ? UNP P23396 ? ? 'cloning artifact' 1 1 1 1WH9 SER A 2 ? UNP P23396 ? ? 'cloning artifact' 2 2 1 1WH9 SER A 3 ? UNP P23396 ? ? 'cloning artifact' 3 3 1 1WH9 GLY A 4 ? UNP P23396 ? ? 'cloning artifact' 4 4 1 1WH9 SER A 5 ? UNP P23396 ? ? 'cloning artifact' 5 5 1 1WH9 SER A 6 ? UNP P23396 ? ? 'cloning artifact' 6 6 1 1WH9 GLY A 7 ? UNP P23396 ? ? 'cloning artifact' 7 7 1 1WH9 SER A 87 ? UNP P23396 ? ? 'cloning artifact' 87 8 1 1WH9 GLY A 88 ? UNP P23396 ? ? 'cloning artifact' 88 9 1 1WH9 PRO A 89 ? UNP P23396 ? ? 'cloning artifact' 89 10 1 1WH9 SER A 90 ? UNP P23396 ? ? 'cloning artifact' 90 11 1 1WH9 SER A 91 ? UNP P23396 ? ? 'cloning artifact' 91 12 1 1WH9 GLY A 92 ? UNP P23396 ? ? 'cloning artifact' 92 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 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 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 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 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.solution_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type 1 1 1 3D_15N-separated_NOESY 2 1 1 3D_13C-separated_NOESY # _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 220mM _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 '0.6mM KH domain U-15N, 13C; d-Tris-HCl(pH 7.0); 200mM 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.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.model AVANCE _pdbx_nmr_spectrometer.field_strength 800 # _pdbx_nmr_refine.entry_id 1WH9 _pdbx_nmr_refine.method 'torsion angle dynamics, restrained molecular dynamics' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.entry_id 1WH9 _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 1WH9 _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal XwinNMR 2.6 collection Bruker 1 NMRPipe 20020425 processing 'Delaglio, F.' 2 NMRView 5.0.4 'data analysis' 'Johnson, B.A.' 3 KUJIRA 0.901 'data analysis' 'Kobayashi, N.' 4 CYANA 1.0.7 'structure solution' 'Guentert, P.' 5 OPALp ? refinement 'Koradi, R.,Billeter, M.,Guentert, P.' 6 # _exptl.entry_id 1WH9 _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type ? # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _struct.entry_id 1WH9 _struct.title 'Solution structure of the KH domain of human ribosomal protein S3' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1WH9 _struct_keywords.pdbx_keywords RIBOSOME _struct_keywords.text 'KH domain, Structural genomics, RIKEN Structural Genomics/Proteomics Initiative, RSGI, RIBOSOME' # _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 GLY A 7 ? LEU A 20 ? GLY A 7 LEU A 20 1 ? 14 HELX_P HELX_P2 2 ARG A 45 ? GLY A 51 ? ARG A 45 GLY A 51 1 ? 7 HELX_P HELX_P3 3 GLY A 54 ? GLY A 69 ? GLY A 54 GLY A 69 1 ? 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 3 _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 ? 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 TYR A 25 ? VAL A 32 ? TYR A 25 VAL A 32 A 2 THR A 37 ? ALA A 43 ? THR A 37 ALA A 43 A 3 VAL A 75 ? LYS A 81 ? VAL A 75 LYS A 81 # 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 GLY A 27 ? N GLY A 27 O LEU A 42 ? O LEU A 42 A 2 3 N ILE A 41 ? N ILE A 41 O GLU A 80 ? O GLU A 80 # _database_PDB_matrix.entry_id 1WH9 _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 1WH9 _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 # 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 PHE 8 8 8 PHE PHE A . n A 1 9 LYS 9 9 9 LYS LYS A . n A 1 10 ALA 10 10 10 ALA ALA A . n A 1 11 GLU 11 11 11 GLU GLU A . n A 1 12 LEU 12 12 12 LEU LEU A . n A 1 13 ASN 13 13 13 ASN ASN A . n A 1 14 GLU 14 14 14 GLU GLU A . n A 1 15 PHE 15 15 15 PHE PHE A . n A 1 16 LEU 16 16 16 LEU LEU A . n A 1 17 THR 17 17 17 THR THR A . n A 1 18 ARG 18 18 18 ARG ARG A . n A 1 19 GLU 19 19 19 GLU GLU A . n A 1 20 LEU 20 20 20 LEU LEU A . n A 1 21 ALA 21 21 21 ALA ALA A . n A 1 22 GLU 22 22 22 GLU GLU A . n A 1 23 ASP 23 23 23 ASP ASP A . n A 1 24 GLY 24 24 24 GLY GLY A . n A 1 25 TYR 25 25 25 TYR TYR A . n A 1 26 SER 26 26 26 SER SER A . n A 1 27 GLY 27 27 27 GLY GLY A . n A 1 28 VAL 28 28 28 VAL VAL A . n A 1 29 GLU 29 29 29 GLU GLU A . n A 1 30 VAL 30 30 30 VAL VAL A . n A 1 31 ARG 31 31 31 ARG ARG A . n A 1 32 VAL 32 32 32 VAL VAL A . n A 1 33 THR 33 33 33 THR THR A . n A 1 34 PRO 34 34 34 PRO PRO A . n A 1 35 THR 35 35 35 THR THR A . n A 1 36 ARG 36 36 36 ARG ARG A . n A 1 37 THR 37 37 37 THR THR A . n A 1 38 GLU 38 38 38 GLU GLU A . n A 1 39 ILE 39 39 39 ILE ILE A . n A 1 40 ILE 40 40 40 ILE ILE A . n A 1 41 ILE 41 41 41 ILE ILE A . n A 1 42 LEU 42 42 42 LEU LEU A . n A 1 43 ALA 43 43 43 ALA ALA A . n A 1 44 THR 44 44 44 THR THR A . n A 1 45 ARG 45 45 45 ARG ARG A . n A 1 46 THR 46 46 46 THR THR A . n A 1 47 GLN 47 47 47 GLN GLN A . n A 1 48 ASN 48 48 48 ASN ASN A . n A 1 49 VAL 49 49 49 VAL VAL A . n A 1 50 LEU 50 50 50 LEU LEU A . n A 1 51 GLY 51 51 51 GLY GLY A . n A 1 52 GLU 52 52 52 GLU GLU A . n A 1 53 LYS 53 53 53 LYS LYS A . n A 1 54 GLY 54 54 54 GLY GLY A . n A 1 55 ARG 55 55 55 ARG ARG A . n A 1 56 ARG 56 56 56 ARG ARG A . n A 1 57 ILE 57 57 57 ILE ILE A . n A 1 58 ARG 58 58 58 ARG ARG A . n A 1 59 GLU 59 59 59 GLU GLU A . n A 1 60 LEU 60 60 60 LEU LEU A . n A 1 61 THR 61 61 61 THR THR A . n A 1 62 ALA 62 62 62 ALA ALA A . n A 1 63 VAL 63 63 63 VAL VAL A . n A 1 64 VAL 64 64 64 VAL VAL A . n A 1 65 GLN 65 65 65 GLN GLN A . n A 1 66 LYS 66 66 66 LYS LYS A . n A 1 67 ARG 67 67 67 ARG ARG A . n A 1 68 PHE 68 68 68 PHE PHE A . n A 1 69 GLY 69 69 69 GLY GLY A . n A 1 70 PHE 70 70 70 PHE PHE A . n A 1 71 PRO 71 71 71 PRO PRO A . n A 1 72 GLU 72 72 72 GLU GLU A . n A 1 73 GLY 73 73 73 GLY GLY A . n A 1 74 SER 74 74 74 SER SER A . n A 1 75 VAL 75 75 75 VAL VAL A . n A 1 76 GLU 76 76 76 GLU GLU A . n A 1 77 LEU 77 77 77 LEU LEU A . n A 1 78 TYR 78 78 78 TYR TYR A . n A 1 79 ALA 79 79 79 ALA ALA A . n A 1 80 GLU 80 80 80 GLU GLU A . n A 1 81 LYS 81 81 81 LYS LYS A . n A 1 82 VAL 82 82 82 VAL VAL A . n A 1 83 ALA 83 83 83 ALA ALA A . n A 1 84 THR 84 84 84 THR THR A . n A 1 85 ARG 85 85 85 ARG ARG A . n A 1 86 GLY 86 86 86 GLY GLY A . n A 1 87 SER 87 87 87 SER SER A . n A 1 88 GLY 88 88 88 GLY GLY A . n A 1 89 PRO 89 89 89 PRO PRO A . n A 1 90 SER 90 90 90 SER SER A . n A 1 91 SER 91 91 91 SER SER A . n A 1 92 GLY 92 92 92 GLY GLY A . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name ? _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 2004-11-28 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-02 # _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' # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 15 NE A ARG 45 ? ? CZ A ARG 45 ? ? NH2 A ARG 45 ? ? 117.26 120.30 -3.04 0.50 N 2 20 CD A ARG 18 ? ? NE A ARG 18 ? ? CZ A ARG 18 ? ? 132.20 123.60 8.60 1.40 N # 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 SER A 6 ? ? 174.35 -8.71 2 1 SER A 26 ? ? -148.12 -44.88 3 1 LYS A 53 ? ? 39.46 46.82 4 1 SER A 87 ? ? 60.12 173.13 5 1 SER A 90 ? ? -142.92 -32.39 6 2 SER A 2 ? ? 38.82 83.27 7 2 SER A 5 ? ? 30.32 74.58 8 2 SER A 26 ? ? -128.96 -57.06 9 2 ALA A 83 ? ? 83.81 84.14 10 2 SER A 87 ? ? 51.42 74.98 11 2 SER A 90 ? ? 39.95 81.86 12 2 SER A 91 ? ? 58.67 89.32 13 3 SER A 26 ? ? -147.35 -29.86 14 3 ALA A 83 ? ? -167.20 92.48 15 3 ARG A 85 ? ? -174.27 142.54 16 3 SER A 91 ? ? 78.36 -3.92 17 4 SER A 3 ? ? -170.98 140.58 18 4 LYS A 53 ? ? 52.68 8.10 19 4 THR A 84 ? ? 59.58 -177.47 20 4 SER A 87 ? ? -104.83 -70.07 21 5 ALA A 83 ? ? -168.85 -168.67 22 5 PRO A 89 ? ? -67.36 96.08 23 5 SER A 90 ? ? -94.58 -66.33 24 5 SER A 91 ? ? 55.87 -175.87 25 6 SER A 3 ? ? 38.67 55.69 26 6 SER A 5 ? ? 69.83 100.62 27 6 SER A 26 ? ? -142.42 -34.35 28 6 PRO A 34 ? ? -70.94 20.67 29 6 GLU A 52 ? ? -54.10 109.44 30 6 ALA A 83 ? ? 54.89 -131.42 31 6 SER A 87 ? ? 56.81 174.53 32 6 SER A 90 ? ? 59.91 169.06 33 7 SER A 3 ? ? 64.92 -71.13 34 7 TYR A 25 ? ? -49.93 154.85 35 7 SER A 26 ? ? -134.25 -45.43 36 7 ARG A 45 ? ? -117.11 64.71 37 7 ALA A 83 ? ? -172.26 -170.75 38 7 SER A 90 ? ? 87.29 161.47 39 8 SER A 26 ? ? -136.73 -60.84 40 8 GLU A 52 ? ? -54.45 109.52 41 8 ARG A 85 ? ? -159.05 29.98 42 8 PRO A 89 ? ? -65.13 97.66 43 9 SER A 2 ? ? 52.35 77.76 44 9 SER A 26 ? ? -164.40 -23.99 45 9 GLU A 52 ? ? -56.23 109.10 46 9 ALA A 83 ? ? 166.47 -37.84 47 9 ARG A 85 ? ? -144.92 -82.21 48 9 SER A 87 ? ? 68.58 128.03 49 9 SER A 91 ? ? -149.88 -9.90 50 10 SER A 26 ? ? -133.27 -30.50 51 10 THR A 35 ? ? -121.48 -58.53 52 10 ARG A 85 ? ? -125.49 -103.68 53 10 PRO A 89 ? ? -65.49 75.03 54 11 SER A 5 ? ? 61.09 96.47 55 11 SER A 26 ? ? -146.97 -52.93 56 11 THR A 35 ? ? -127.70 -50.04 57 11 SER A 87 ? ? 60.11 89.97 58 12 TYR A 25 ? ? -57.72 171.24 59 12 SER A 26 ? ? -147.77 -42.01 60 12 THR A 35 ? ? -127.25 -58.10 61 12 SER A 90 ? ? 51.05 83.13 62 12 SER A 91 ? ? 74.85 -172.95 63 13 SER A 5 ? ? -71.67 -86.10 64 13 SER A 26 ? ? -156.76 -37.35 65 13 LYS A 53 ? ? 39.96 42.30 66 13 ALA A 83 ? ? 65.97 -64.89 67 13 SER A 87 ? ? -61.57 -166.70 68 13 SER A 91 ? ? -170.34 144.86 69 14 SER A 2 ? ? -147.20 -58.80 70 14 TYR A 25 ? ? -57.02 171.43 71 14 SER A 26 ? ? -141.29 -60.77 72 14 PRO A 34 ? ? -69.82 8.65 73 14 THR A 35 ? ? -121.90 -56.31 74 14 GLU A 52 ? ? -59.66 106.17 75 14 SER A 87 ? ? -173.91 115.55 76 14 SER A 90 ? ? -117.92 -167.16 77 15 SER A 3 ? ? -153.10 70.65 78 15 SER A 5 ? ? 123.58 -159.88 79 15 SER A 26 ? ? -158.96 -27.06 80 15 PRO A 34 ? ? -69.64 3.72 81 15 ALA A 83 ? ? 66.79 -3.94 82 15 THR A 84 ? ? 16.67 75.52 83 15 SER A 91 ? ? 79.81 129.96 84 16 SER A 2 ? ? 90.82 96.34 85 16 THR A 35 ? ? -127.24 -52.19 86 16 ALA A 83 ? ? 71.37 -47.83 87 16 THR A 84 ? ? 62.74 169.65 88 16 SER A 87 ? ? 65.20 -173.79 89 16 SER A 90 ? ? 71.04 170.61 90 16 SER A 91 ? ? -161.77 85.66 91 17 SER A 2 ? ? -177.77 -24.66 92 17 SER A 26 ? ? -159.03 -31.02 93 17 GLU A 52 ? ? -54.97 107.28 94 17 ARG A 55 ? ? -93.57 -68.39 95 17 GLU A 72 ? ? -65.72 99.94 96 17 ALA A 83 ? ? 140.36 176.90 97 17 THR A 84 ? ? 58.38 -148.21 98 17 ARG A 85 ? ? -161.76 -60.77 99 17 SER A 87 ? ? -132.96 -103.40 100 18 SER A 5 ? ? -126.17 -98.65 101 18 SER A 26 ? ? -153.93 -43.21 102 18 THR A 84 ? ? -75.82 -85.22 103 18 SER A 87 ? ? 60.68 174.96 104 18 SER A 90 ? ? -144.32 -13.19 105 19 SER A 5 ? ? 73.06 107.96 106 19 SER A 6 ? ? 49.31 78.62 107 19 SER A 26 ? ? -154.24 -43.44 108 19 PRO A 34 ? ? -78.35 22.89 109 19 THR A 35 ? ? -127.61 -53.03 110 19 ALA A 83 ? ? 74.16 99.76 111 19 ARG A 85 ? ? -154.97 -23.12 112 19 SER A 90 ? ? -157.25 -20.99 113 20 SER A 5 ? ? -106.42 -63.06 114 20 SER A 6 ? ? -145.82 -44.39 115 20 SER A 26 ? ? -157.16 -26.21 116 20 LYS A 53 ? ? 56.41 3.13 117 20 ALA A 83 ? ? -146.63 -44.85 118 20 THR A 84 ? ? 32.67 64.80 119 20 ARG A 85 ? ? 57.07 83.03 120 20 SER A 91 ? ? -137.36 -78.56 # loop_ _pdbx_validate_peptide_omega.id _pdbx_validate_peptide_omega.PDB_model_num _pdbx_validate_peptide_omega.auth_comp_id_1 _pdbx_validate_peptide_omega.auth_asym_id_1 _pdbx_validate_peptide_omega.auth_seq_id_1 _pdbx_validate_peptide_omega.PDB_ins_code_1 _pdbx_validate_peptide_omega.label_alt_id_1 _pdbx_validate_peptide_omega.auth_comp_id_2 _pdbx_validate_peptide_omega.auth_asym_id_2 _pdbx_validate_peptide_omega.auth_seq_id_2 _pdbx_validate_peptide_omega.PDB_ins_code_2 _pdbx_validate_peptide_omega.label_alt_id_2 _pdbx_validate_peptide_omega.omega 1 5 ARG A 85 ? ? GLY A 86 ? ? 142.81 2 18 GLY A 4 ? ? SER A 5 ? ? 136.66 3 20 SER A 91 ? ? GLY A 92 ? ? -149.98 # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 ARG A 45 ? ? 0.107 'SIDE CHAIN' 2 1 ARG A 67 ? ? 0.134 'SIDE CHAIN' 3 2 ARG A 18 ? ? 0.079 'SIDE CHAIN' 4 2 ARG A 31 ? ? 0.080 'SIDE CHAIN' 5 2 ARG A 55 ? ? 0.090 'SIDE CHAIN' 6 4 ARG A 45 ? ? 0.087 'SIDE CHAIN' 7 5 ARG A 55 ? ? 0.131 'SIDE CHAIN' 8 5 TYR A 78 ? ? 0.115 'SIDE CHAIN' 9 6 ARG A 56 ? ? 0.077 'SIDE CHAIN' 10 7 ARG A 58 ? ? 0.091 'SIDE CHAIN' 11 7 ARG A 67 ? ? 0.074 'SIDE CHAIN' 12 8 ARG A 31 ? ? 0.123 'SIDE CHAIN' 13 10 ARG A 58 ? ? 0.112 'SIDE CHAIN' 14 12 ARG A 45 ? ? 0.073 'SIDE CHAIN' 15 13 ARG A 67 ? ? 0.126 'SIDE CHAIN' 16 14 ARG A 56 ? ? 0.100 'SIDE CHAIN' 17 16 TYR A 78 ? ? 0.076 'SIDE CHAIN' 18 17 TYR A 78 ? ? 0.077 'SIDE CHAIN' 19 18 ARG A 45 ? ? 0.078 'SIDE CHAIN' 20 18 ARG A 67 ? ? 0.104 'SIDE CHAIN' 21 19 ARG A 36 ? ? 0.088 'SIDE CHAIN' 22 19 ARG A 55 ? ? 0.076 'SIDE CHAIN' 23 19 ARG A 58 ? ? 0.129 'SIDE CHAIN' 24 20 ARG A 31 ? ? 0.096 'SIDE CHAIN' #