data_2ROK # _entry.id 2ROK # _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 2ROK pdb_00002rok 10.2210/pdb2rok/pdb RCSB RCSB150098 ? ? WWPDB D_1000150098 ? ? # loop_ _pdbx_database_related.content_type _pdbx_database_related.db_id _pdbx_database_related.db_name _pdbx_database_related.details unspecified 1WHV PDB . unspecified mmt007011199.1 TargetDB . # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2ROK _pdbx_database_status.process_site PDBJ _pdbx_database_status.recvd_initial_deposition_date 2008-03-28 _pdbx_database_status.SG_entry Y _pdbx_database_status.status_code REL _pdbx_database_status.status_code_mr REL _pdbx_database_status.status_code_sf ? _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 'Nagata, T.' 1 'Suzuki, S.' 2 'Endo, R.' 3 'Shirouzu, M.' 4 'Terada, T.' 5 'Inoue, M.' 6 'Kigawa, T.' 7 'Guntert, P.' 8 'Hayashizaki, Y.' 9 'Muto, Y.' 10 'Yokoyama, S.' 11 'RIKEN Structural Genomics/Proteomics Initiative (RSGI)' 12 # _citation.id primary _citation.title 'The RRM domain of poly(A)-specific ribonuclease has a noncanonical binding site for mRNA cap analog recognition.' _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 36 _citation.page_first 4754 _citation.page_last 4767 _citation.year 2008 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 18641416 _citation.pdbx_database_id_DOI 10.1093/nar/gkn458 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Nagata, T.' 1 ? primary 'Suzuki, S.' 2 ? primary 'Endo, R.' 3 ? primary 'Shirouzu, M.' 4 ? primary 'Terada, T.' 5 ? primary 'Inoue, M.' 6 ? primary 'Kigawa, T.' 7 ? primary 'Kobayashi, N.' 8 ? primary 'Guntert, P.' 9 ? primary 'Tanaka, A.' 10 ? primary 'Hayashizaki, Y.' 11 ? primary 'Muto, Y.' 12 ? primary 'Yokoyama, S.' 13 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'poly(A)-specific ribonuclease' 11013.168 1 3.1.13.4 ? 'cap-binding domain' ? 2 non-polymer syn "7N-METHYL-8-HYDROGUANOSINE-5'-MONOPHOSPHATE" 379.263 1 ? ? ? ? 3 non-polymer syn "GUANOSINE-5'-DIPHOSPHATE" 443.201 1 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Polyadenylate-specific ribonuclease' # _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 ;GSSGSSGGPDLQPKRDHVLHVTFPKEWKTSDLYQLFSAFGNIQISWIDDTSAFVSLSQPEQVQIAVNTSKYAESYRIQTY AEYVGKKQKGKQVKSGPSSG ; _entity_poly.pdbx_seq_one_letter_code_can ;GSSGSSGGPDLQPKRDHVLHVTFPKEWKTSDLYQLFSAFGNIQISWIDDTSAFVSLSQPEQVQIAVNTSKYAESYRIQTY AEYVGKKQKGKQVKSGPSSG ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier mmt007011199.1 # 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 GLY n 1 9 PRO n 1 10 ASP n 1 11 LEU n 1 12 GLN n 1 13 PRO n 1 14 LYS n 1 15 ARG n 1 16 ASP n 1 17 HIS n 1 18 VAL n 1 19 LEU n 1 20 HIS n 1 21 VAL n 1 22 THR n 1 23 PHE n 1 24 PRO n 1 25 LYS n 1 26 GLU n 1 27 TRP n 1 28 LYS n 1 29 THR n 1 30 SER n 1 31 ASP n 1 32 LEU n 1 33 TYR n 1 34 GLN n 1 35 LEU n 1 36 PHE n 1 37 SER n 1 38 ALA n 1 39 PHE n 1 40 GLY n 1 41 ASN n 1 42 ILE n 1 43 GLN n 1 44 ILE n 1 45 SER n 1 46 TRP n 1 47 ILE n 1 48 ASP n 1 49 ASP n 1 50 THR n 1 51 SER n 1 52 ALA n 1 53 PHE n 1 54 VAL n 1 55 SER n 1 56 LEU n 1 57 SER n 1 58 GLN n 1 59 PRO n 1 60 GLU n 1 61 GLN n 1 62 VAL n 1 63 GLN n 1 64 ILE n 1 65 ALA n 1 66 VAL n 1 67 ASN n 1 68 THR n 1 69 SER n 1 70 LYS n 1 71 TYR n 1 72 ALA n 1 73 GLU n 1 74 SER n 1 75 TYR n 1 76 ARG n 1 77 ILE n 1 78 GLN n 1 79 THR n 1 80 TYR n 1 81 ALA n 1 82 GLU n 1 83 TYR n 1 84 VAL n 1 85 GLY n 1 86 LYS n 1 87 LYS n 1 88 GLN n 1 89 LYS n 1 90 GLY n 1 91 LYS n 1 92 GLN n 1 93 VAL n 1 94 LYS n 1 95 SER n 1 96 GLY n 1 97 PRO n 1 98 SER n 1 99 SER n 1 100 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 Mouse _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene Parn _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 'Mus musculus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 10090 _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 ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q3TUQ8_MOUSE _struct_ref.pdbx_db_accession Q3TUQ8 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;GPDLQPKRDHVLHVTFPKEWKTSDLYQLFSAFGNIQISWIDDTSAFVSLSQPEQVQIAVNTSKYAESYRIQTYAEYVGKK QKGKQVK ; _struct_ref.pdbx_align_begin 430 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2ROK _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 94 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q3TUQ8 _struct_ref_seq.db_align_beg 430 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 516 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 430 _struct_ref_seq.pdbx_auth_seq_align_end 516 # 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 2ROK GLY A 1 ? UNP Q3TUQ8 ? ? 'expression tag' 423 1 1 2ROK SER A 2 ? UNP Q3TUQ8 ? ? 'expression tag' 424 2 1 2ROK SER A 3 ? UNP Q3TUQ8 ? ? 'expression tag' 425 3 1 2ROK GLY A 4 ? UNP Q3TUQ8 ? ? 'expression tag' 426 4 1 2ROK SER A 5 ? UNP Q3TUQ8 ? ? 'expression tag' 427 5 1 2ROK SER A 6 ? UNP Q3TUQ8 ? ? 'expression tag' 428 6 1 2ROK GLY A 7 ? UNP Q3TUQ8 ? ? 'expression tag' 429 7 1 2ROK SER A 95 ? UNP Q3TUQ8 ? ? 'expression tag' 517 8 1 2ROK GLY A 96 ? UNP Q3TUQ8 ? ? 'expression tag' 518 9 1 2ROK PRO A 97 ? UNP Q3TUQ8 ? ? 'expression tag' 519 10 1 2ROK SER A 98 ? UNP Q3TUQ8 ? ? 'expression tag' 520 11 1 2ROK SER A 99 ? UNP Q3TUQ8 ? ? 'expression tag' 521 12 1 2ROK GLY A 100 ? UNP Q3TUQ8 ? ? 'expression tag' 522 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 7MG 'RNA linking' n "7N-METHYL-8-HYDROGUANOSINE-5'-MONOPHOSPHATE" ? 'C11 H18 N5 O8 P' 379.263 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 GDP 'RNA linking' n "GUANOSINE-5'-DIPHOSPHATE" ? 'C10 H15 N5 O11 P2' 443.201 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 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # loop_ _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 1 '3D 1H-13C NOESY' 1 2 1 '3D 1H-15N NOESY' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.ionic_strength 120 _pdbx_nmr_exptl_sample_conditions.pH 7.0 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_sample_details.contents '0.5 mM [U-100% 13C; U-100% 15N] PARN, 2.5 mM M7GpppG, 90% H2O/10% D2O' _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.solvent_system '90% H2O/10% D2O' # _pdbx_nmr_spectrometer.field_strength 800 _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.model AVANCE _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type 'Bruker Avance' # _pdbx_nmr_refine.entry_id 2ROK _pdbx_nmr_refine.method 'torsion angle dynamics, simulated annealing' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy' _pdbx_nmr_ensemble.conformers_calculated_total_number 40 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2ROK _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.entry_id 2ROK _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.ordinal 'Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax' processing NMRPipe 20060702 1 'Johnson, One Moon Scientific' 'data analysis' NMRView 5.0.4 2 'Johnson, One Moon Scientific' 'peak picking' NMRView 5.0.4 3 'Bruker Biospin' collection XwinNMR 3.5 4 'Naohiro Kobayashi' 'data analysis' KUJIRA 0.9825 5 'Naohiro Kobayashi' 'chemical shift assignment' KUJIRA 0.9825 6 'Guntert, Mumenthaler and Wuthrich' 'structure solution' CYANA 2.1 7 'Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, Kollm' refinement Amber 9 8 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.crystals_number ? _exptl.details ? _exptl.entry_id 2ROK _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2ROK _struct.title 'Solution structure of the cap-binding domain of PARN complexed with the cap analog' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2ROK _struct_keywords.pdbx_keywords 'RNA BINDING PROTEIN' _struct_keywords.text ;RRM, RBD, CAP, Structural Genomics, RNA BINDING PROTEIN, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI ; # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 LYS A 28 ? SER A 37 ? LYS A 450 SER A 459 1 ? 10 HELX_P HELX_P2 2 ALA A 38 ? GLY A 40 ? ALA A 460 GLY A 462 5 ? 3 HELX_P HELX_P3 3 GLN A 58 ? SER A 69 ? GLN A 480 SER A 491 1 ? 12 HELX_P HELX_P4 4 LYS A 70 ? ALA A 72 ? LYS A 492 ALA A 494 5 ? 3 HELX_P HELX_P5 5 TYR A 80 ? LYS A 86 ? TYR A 502 LYS A 508 1 ? 7 HELX_P HELX_P6 6 GLY A 96 ? GLY A 100 ? GLY A 518 GLY A 522 5 ? 5 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_conn.id covale1 _struct_conn.conn_type_id covale _struct_conn.pdbx_leaving_atom_flag one _struct_conn.pdbx_PDB_id ? _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_comp_id 7MG _struct_conn.ptnr1_label_seq_id . _struct_conn.ptnr1_label_atom_id P _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id C _struct_conn.ptnr2_label_comp_id GDP _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_label_atom_id O3B _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id 7MG _struct_conn.ptnr1_auth_seq_id 523 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id GDP _struct_conn.ptnr2_auth_seq_id 524 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.details ? _struct_conn.pdbx_dist_value 1.562 _struct_conn.pdbx_value_order ? _struct_conn.pdbx_role ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 4 _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 # 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 GLN A 43 ? TRP A 46 ? GLN A 465 TRP A 468 A 2 SER A 51 ? SER A 55 ? SER A 473 SER A 477 A 3 VAL A 18 ? THR A 22 ? VAL A 440 THR A 444 A 4 ARG A 76 ? THR A 79 ? ARG A 498 THR A 501 # 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 SER A 45 ? N SER A 467 O PHE A 53 ? O PHE A 475 A 2 3 O VAL A 54 ? O VAL A 476 N LEU A 19 ? N LEU A 441 A 3 4 N HIS A 20 ? N HIS A 442 O GLN A 78 ? O GLN A 500 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A 7MG 523 ? 8 'BINDING SITE FOR RESIDUE 7MG A 523' AC2 Software A GDP 524 ? 5 'BINDING SITE FOR RESIDUE GDP A 524' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 8 PHE A 23 ? PHE A 445 . ? 1_555 ? 2 AC1 8 LYS A 25 ? LYS A 447 . ? 1_555 ? 3 AC1 8 TRP A 27 ? TRP A 449 . ? 1_555 ? 4 AC1 8 LYS A 28 ? LYS A 450 . ? 1_555 ? 5 AC1 8 THR A 29 ? THR A 451 . ? 1_555 ? 6 AC1 8 TRP A 46 ? TRP A 468 . ? 1_555 ? 7 AC1 8 ASP A 48 ? ASP A 470 . ? 1_555 ? 8 AC1 8 ASP A 49 ? ASP A 471 . ? 1_555 ? 9 AC2 5 LYS A 25 ? LYS A 447 . ? 1_555 ? 10 AC2 5 TRP A 27 ? TRP A 449 . ? 1_555 ? 11 AC2 5 LYS A 28 ? LYS A 450 . ? 1_555 ? 12 AC2 5 TRP A 46 ? TRP A 468 . ? 1_555 ? 13 AC2 5 ASP A 49 ? ASP A 471 . ? 1_555 ? # _atom_sites.entry_id 2ROK _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 P # 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 1 423 423 GLY GLY A . n A 1 2 SER 2 424 424 SER SER A . n A 1 3 SER 3 425 425 SER SER A . n A 1 4 GLY 4 426 426 GLY GLY A . n A 1 5 SER 5 427 427 SER SER A . n A 1 6 SER 6 428 428 SER SER A . n A 1 7 GLY 7 429 429 GLY GLY A . n A 1 8 GLY 8 430 430 GLY GLY A . n A 1 9 PRO 9 431 431 PRO PRO A . n A 1 10 ASP 10 432 432 ASP ASP A . n A 1 11 LEU 11 433 433 LEU LEU A . n A 1 12 GLN 12 434 434 GLN GLN A . n A 1 13 PRO 13 435 435 PRO PRO A . n A 1 14 LYS 14 436 436 LYS LYS A . n A 1 15 ARG 15 437 437 ARG ARG A . n A 1 16 ASP 16 438 438 ASP ASP A . n A 1 17 HIS 17 439 439 HIS HIS A . n A 1 18 VAL 18 440 440 VAL VAL A . n A 1 19 LEU 19 441 441 LEU LEU A . n A 1 20 HIS 20 442 442 HIS HIS A . n A 1 21 VAL 21 443 443 VAL VAL A . n A 1 22 THR 22 444 444 THR THR A . n A 1 23 PHE 23 445 445 PHE PHE A . n A 1 24 PRO 24 446 446 PRO PRO A . n A 1 25 LYS 25 447 447 LYS LYS A . n A 1 26 GLU 26 448 448 GLU GLU A . n A 1 27 TRP 27 449 449 TRP TRP A . n A 1 28 LYS 28 450 450 LYS LYS A . n A 1 29 THR 29 451 451 THR THR A . n A 1 30 SER 30 452 452 SER SER A . n A 1 31 ASP 31 453 453 ASP ASP A . n A 1 32 LEU 32 454 454 LEU LEU A . n A 1 33 TYR 33 455 455 TYR TYR A . n A 1 34 GLN 34 456 456 GLN GLN A . n A 1 35 LEU 35 457 457 LEU LEU A . n A 1 36 PHE 36 458 458 PHE PHE A . n A 1 37 SER 37 459 459 SER SER A . n A 1 38 ALA 38 460 460 ALA ALA A . n A 1 39 PHE 39 461 461 PHE PHE A . n A 1 40 GLY 40 462 462 GLY GLY A . n A 1 41 ASN 41 463 463 ASN ASN A . n A 1 42 ILE 42 464 464 ILE ILE A . n A 1 43 GLN 43 465 465 GLN GLN A . n A 1 44 ILE 44 466 466 ILE ILE A . n A 1 45 SER 45 467 467 SER SER A . n A 1 46 TRP 46 468 468 TRP TRP A . n A 1 47 ILE 47 469 469 ILE ILE A . n A 1 48 ASP 48 470 470 ASP ASP A . n A 1 49 ASP 49 471 471 ASP ASP A . n A 1 50 THR 50 472 472 THR THR A . n A 1 51 SER 51 473 473 SER SER A . n A 1 52 ALA 52 474 474 ALA ALA A . n A 1 53 PHE 53 475 475 PHE PHE A . n A 1 54 VAL 54 476 476 VAL VAL A . n A 1 55 SER 55 477 477 SER SER A . n A 1 56 LEU 56 478 478 LEU LEU A . n A 1 57 SER 57 479 479 SER SER A . n A 1 58 GLN 58 480 480 GLN GLN A . n A 1 59 PRO 59 481 481 PRO PRO A . n A 1 60 GLU 60 482 482 GLU GLU A . n A 1 61 GLN 61 483 483 GLN GLN A . n A 1 62 VAL 62 484 484 VAL VAL A . n A 1 63 GLN 63 485 485 GLN GLN A . n A 1 64 ILE 64 486 486 ILE ILE A . n A 1 65 ALA 65 487 487 ALA ALA A . n A 1 66 VAL 66 488 488 VAL VAL A . n A 1 67 ASN 67 489 489 ASN ASN A . n A 1 68 THR 68 490 490 THR THR A . n A 1 69 SER 69 491 491 SER SER A . n A 1 70 LYS 70 492 492 LYS LYS A . n A 1 71 TYR 71 493 493 TYR TYR A . n A 1 72 ALA 72 494 494 ALA ALA A . n A 1 73 GLU 73 495 495 GLU GLU A . n A 1 74 SER 74 496 496 SER SER A . n A 1 75 TYR 75 497 497 TYR TYR A . n A 1 76 ARG 76 498 498 ARG ARG A . n A 1 77 ILE 77 499 499 ILE ILE A . n A 1 78 GLN 78 500 500 GLN GLN A . n A 1 79 THR 79 501 501 THR THR A . n A 1 80 TYR 80 502 502 TYR TYR A . n A 1 81 ALA 81 503 503 ALA ALA A . n A 1 82 GLU 82 504 504 GLU GLU A . n A 1 83 TYR 83 505 505 TYR TYR A . n A 1 84 VAL 84 506 506 VAL VAL A . n A 1 85 GLY 85 507 507 GLY GLY A . n A 1 86 LYS 86 508 508 LYS LYS A . n A 1 87 LYS 87 509 509 LYS LYS A . n A 1 88 GLN 88 510 510 GLN GLN A . n A 1 89 LYS 89 511 511 LYS LYS A . n A 1 90 GLY 90 512 512 GLY GLY A . n A 1 91 LYS 91 513 513 LYS LYS A . n A 1 92 GLN 92 514 514 GLN GLN A . n A 1 93 VAL 93 515 515 VAL VAL A . n A 1 94 LYS 94 516 516 LYS LYS A . n A 1 95 SER 95 517 517 SER SER A . n A 1 96 GLY 96 518 518 GLY GLY A . n A 1 97 PRO 97 519 519 PRO PRO A . n A 1 98 SER 98 520 520 SER SER A . n A 1 99 SER 99 521 521 SER SER A . n A 1 100 GLY 100 522 522 GLY GLY A . n # _pdbx_SG_project.full_name_of_center 'RIKEN Structural Genomics/Proteomics Initiative' _pdbx_SG_project.id 1 _pdbx_SG_project.initial_of_center RSGI _pdbx_SG_project.project_name 'NPPSFA, National Project on Protein Structural and Functional Analyses' # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 7MG 1 523 523 7MG 7MG A . C 3 GDP 1 524 524 GDP GDP A . # _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,B,C # _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 2009-02-10 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2022-03-16 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' database_2 2 3 'Structure model' pdbx_nmr_software 3 3 'Structure model' pdbx_nmr_spectrometer 4 3 'Structure model' pdbx_struct_assembly 5 3 'Structure model' pdbx_struct_oper_list 6 3 'Structure model' struct_conn 7 3 'Structure model' struct_ref_seq_dif 8 3 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_pdbx_nmr_software.name' 4 3 'Structure model' '_pdbx_nmr_spectrometer.model' 5 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 3 'Structure model' '_struct_ref_seq_dif.details' 7 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 8 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 9 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling _pdbx_nmr_exptl_sample.solution_id PARN 0.5 mM '[U-100% 13C; U-100% 15N]' 1 M7GpppG 2.5 mM ? 1 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 3 _pdbx_validate_rmsd_angle.auth_atom_id_1 NE _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 ARG _pdbx_validate_rmsd_angle.auth_seq_id_1 437 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 CZ _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 ARG _pdbx_validate_rmsd_angle.auth_seq_id_2 437 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 NH1 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 ARG _pdbx_validate_rmsd_angle.auth_seq_id_3 437 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 123.48 _pdbx_validate_rmsd_angle.angle_target_value 120.30 _pdbx_validate_rmsd_angle.angle_deviation 3.18 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.50 _pdbx_validate_rmsd_angle.linker_flag 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 GLN A 510 ? ? -70.62 47.38 2 1 SER A 517 ? ? -145.05 -39.62 3 3 GLN A 510 ? ? -145.98 -48.81 4 4 LYS A 513 ? ? -146.63 -35.20 5 4 GLN A 514 ? ? -77.41 29.66 6 5 SER A 424 ? ? -153.55 -40.17 7 5 LEU A 433 ? ? -58.90 -3.94 8 5 LYS A 436 ? ? -57.74 -6.14 9 5 GLN A 514 ? ? -153.88 6.09 10 6 SER A 424 ? ? -140.73 -2.40 11 6 LYS A 436 ? ? -140.41 31.34 12 6 ASP A 438 ? ? -156.13 -43.07 13 6 HIS A 439 ? ? -70.26 38.19 14 6 ASN A 463 ? ? -143.06 17.61 15 6 ILE A 469 ? ? -132.89 -42.93 16 6 LYS A 516 ? ? -146.46 -45.77 17 7 LEU A 433 ? ? -141.80 26.50 18 7 LYS A 436 ? ? -63.89 11.31 19 7 GLU A 495 ? ? -140.55 -5.46 20 7 LYS A 511 ? ? -148.08 19.15 21 7 GLN A 514 ? ? -73.58 25.48 22 7 LYS A 516 ? ? -75.88 46.87 23 8 LYS A 511 ? ? -145.53 20.55 24 8 SER A 517 ? ? 65.39 -31.76 25 9 SER A 425 ? ? -78.46 35.42 26 9 ARG A 437 ? ? 28.95 52.04 27 9 GLU A 495 ? ? 52.68 -18.65 28 9 LYS A 511 ? ? -147.62 -18.76 29 9 LYS A 516 ? ? -140.94 -21.09 30 10 SER A 424 ? ? -140.41 10.57 31 10 LEU A 433 ? ? -148.88 17.11 32 10 GLU A 495 ? ? -140.43 -5.10 33 10 LYS A 509 ? ? -20.82 84.57 34 12 SER A 424 ? ? -140.65 10.52 35 12 SER A 425 ? ? -75.22 25.20 36 12 ASP A 432 ? ? -63.74 1.40 37 13 SER A 428 ? ? -143.04 21.97 38 13 GLN A 434 ? ? 37.48 65.40 39 14 ARG A 437 ? ? -141.23 -12.25 40 14 ILE A 469 ? ? -131.72 -41.10 41 14 SER A 517 ? ? -150.67 -51.73 42 15 GLN A 434 ? ? 35.09 52.58 43 15 ILE A 469 ? ? -132.68 -44.34 44 15 ASP A 471 ? ? -67.26 1.13 45 15 GLN A 510 ? ? 55.44 -179.27 46 16 GLU A 495 ? ? -140.66 -7.82 47 16 GLN A 514 ? ? -157.49 27.58 48 17 LYS A 436 ? ? -71.30 26.83 49 17 GLU A 495 ? ? 52.91 -20.68 50 17 LYS A 509 ? ? -49.85 -17.16 51 18 SER A 496 ? ? -154.95 10.93 52 19 SER A 427 ? ? -141.33 -0.05 53 20 SER A 427 ? ? -141.28 -0.17 54 20 SER A 496 ? ? -164.46 -39.86 55 20 GLN A 514 ? ? -72.63 37.02 56 20 SER A 521 ? ? -143.51 -0.76 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 "7N-METHYL-8-HYDROGUANOSINE-5'-MONOPHOSPHATE" 7MG 3 "GUANOSINE-5'-DIPHOSPHATE" GDP #