data_2RR4 # _entry.id 2RR4 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2RR4 RCSB RCSB150185 WWPDB D_1000150185 # _pdbx_database_related.content_type unspecified _pdbx_database_related.db_id 2E61 _pdbx_database_related.db_name PDB _pdbx_database_related.details 'free state structure of zf-CW' # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2RR4 _pdbx_database_status.process_site PDBJ _pdbx_database_status.recvd_initial_deposition_date 2010-03-24 _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.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'He, F.' 1 'Muto, Y.' 2 'Inoue, M.' 3 'Kigawa, T.' 4 'Shirouzu, M.' 5 'Terada, T.' 6 'Yokoyama, S.' 7 'RIKEN Structural Genomics/Proteomics Initiative (RSGI)' 8 # _citation.id primary _citation.title 'Structural insight into the zinc finger CW domain as a histone modification reader' _citation.journal_abbrev Structure _citation.journal_volume 18 _citation.page_first 1127 _citation.page_last 1139 _citation.year 2010 _citation.journal_id_ASTM STRUE6 _citation.country UK _citation.journal_id_ISSN 0969-2126 _citation.journal_id_CSD 2005 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 20826339 _citation.pdbx_database_id_DOI 10.1016/j.str.2010.06.012 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'He, F.' 1 primary 'Umehara, T.' 2 primary 'Saito, K.' 3 primary 'Harada, T.' 4 primary 'Watanabe, S.' 5 primary 'Yabuki, T.' 6 primary 'Kigawa, T.' 7 primary 'Takahashi, M.' 8 primary 'Kuwasako, K.' 9 primary 'Tsuda, K.' 10 primary 'Matsuda, T.' 11 primary 'Aoki, M.' 12 primary 'Seki, E.' 13 primary 'Kobayashi, N.' 14 primary 'Guntert, P.' 15 primary 'Yokoyama, S.' 16 primary 'Muto, Y.' 17 # 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 'Zinc finger CW-type PWWP domain protein 1' 7648.352 1 ? ? 'zf-CW domain, residues 246-307' ? 2 polymer syn 'Histone H3' 1192.412 1 ? ? 'Histone H3 tail, UNP residues 2-11' 'H3K4me3 peptide' 3 non-polymer syn 'ZINC ION' 65.409 1 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name zf-CW # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no no GSSGSSGEISGFGQCLVWVQCSFPNCGKWRRLCGNIDPSVLPDNWSCDQNTDVQYNRCDIPEETWTGLE GSSGSSGEISGFGQCLVWVQCSFPNCGKWRRLCGNIDPSVLPDNWSCDQNTDVQYNRCDIPEETWTGLE A ? 2 'polypeptide(L)' no yes 'ART(M3L)QTARKS' ARTKQTARKS B ? # 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 GLU n 1 9 ILE n 1 10 SER n 1 11 GLY n 1 12 PHE n 1 13 GLY n 1 14 GLN n 1 15 CYS n 1 16 LEU n 1 17 VAL n 1 18 TRP n 1 19 VAL n 1 20 GLN n 1 21 CYS n 1 22 SER n 1 23 PHE n 1 24 PRO n 1 25 ASN n 1 26 CYS n 1 27 GLY n 1 28 LYS n 1 29 TRP n 1 30 ARG n 1 31 ARG n 1 32 LEU n 1 33 CYS n 1 34 GLY n 1 35 ASN n 1 36 ILE n 1 37 ASP n 1 38 PRO n 1 39 SER n 1 40 VAL n 1 41 LEU n 1 42 PRO n 1 43 ASP n 1 44 ASN n 1 45 TRP n 1 46 SER n 1 47 CYS n 1 48 ASP n 1 49 GLN n 1 50 ASN n 1 51 THR n 1 52 ASP n 1 53 VAL n 1 54 GLN n 1 55 TYR n 1 56 ASN n 1 57 ARG n 1 58 CYS n 1 59 ASP n 1 60 ILE n 1 61 PRO n 1 62 GLU n 1 63 GLU n 1 64 THR n 1 65 TRP n 1 66 THR n 1 67 GLY n 1 68 LEU n 1 69 GLU n 2 1 ALA n 2 2 ARG n 2 3 THR n 2 4 M3L n 2 5 GLN n 2 6 THR n 2 7 ALA n 2 8 ARG n 2 9 LYS n 2 10 SER 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 ? _entity_src_gen.pdbx_gene_src_gene ZCWPW1 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'cell free synthsis' _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 P060116-12 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description 'E. coli - cell free' # _pdbx_entity_src_syn.entity_id 2 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name human _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details 'chemical synthesized, purchased' # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_isoform 1 UNP ZCPW1_HUMAN Q9H0M4 1 EISGFGQCLVWVQCSFPNCGKWRRLCGNIDPSVLPDNWSCDQNTDVQYNRCDIPEETWTGLE 246 ? 2 UNP A8K4Y7_HUMAN A8K4Y7 2 ARTKQTARKS 2 ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 2RR4 A 8 ? 69 ? Q9H0M4 246 ? 307 ? 246 307 2 2 2RR4 B 1 ? 10 ? A8K4Y7 2 ? 11 ? 1 10 # 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 2RR4 GLY A 1 ? UNP Q9H0M4 ? ? 'EXPRESSION TAG' 239 1 1 2RR4 SER A 2 ? UNP Q9H0M4 ? ? 'EXPRESSION TAG' 240 2 1 2RR4 SER A 3 ? UNP Q9H0M4 ? ? 'EXPRESSION TAG' 241 3 1 2RR4 GLY A 4 ? UNP Q9H0M4 ? ? 'EXPRESSION TAG' 242 4 1 2RR4 SER A 5 ? UNP Q9H0M4 ? ? 'EXPRESSION TAG' 243 5 1 2RR4 SER A 6 ? UNP Q9H0M4 ? ? 'EXPRESSION TAG' 244 6 1 2RR4 GLY A 7 ? UNP Q9H0M4 ? ? 'EXPRESSION TAG' 245 7 # 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 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 M3L 'L-peptide linking' n N-TRIMETHYLLYSINE ? 'C9 H21 N2 O2 1' 189.275 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 ZN non-polymer . 'ZINC ION' ? 'Zn 2' 65.409 # 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-15N NOESY' 1 2 1 '3D 1H-13C 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 '20mM D-tris-HCl(PH 7.0); 100mM NaCl; 0.02% D-DTT; 50micro-M ZNCl2+1mM IDA; 10% D2O, 90% H2O' _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.solvent_system '90% H2O/10% D2O' # loop_ _pdbx_nmr_spectrometer.field_strength _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type 800 Bruker Avance 1 'Bruker Avance' 800 Bruker DRX 2 'Bruker DRX' # _pdbx_nmr_refine.entry_id 2RR4 _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 least restraint violations' _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2RR4 _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.representative_conformer 1 _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.entry_id 2RR4 _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 5.0 1 'Guntert, Mumenthaler and Wuthrich' 'structure solution' CYANA 2.1 2 'Guntert, Mumenthaler and Wuthrich' refinement CYANA 2.1 3 'Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollm' refinement AMBER 9.0 4 'Johnson, One Moon Scientific' 'data analysis' NMRView 5.0 5 'Bruker Biospin' collection xwinnmr 3.0 6 'Naohiro Kobayashi' 'data analysis' Kujira 0.9839 7 # _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 2RR4 _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2RR4 _struct.title 'Complex structure of the zf-CW domain and the H3K4me3 peptide' _struct.pdbx_descriptor 'Zinc finger CW-type PWWP domain protein 1, Histone H3' _struct.pdbx_model_details 'lowest energy, model 1' _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2RR4 _struct_keywords.pdbx_keywords 'Metal-binding protein/nuclear Protein' _struct_keywords.text ;zf-CW domain, ZCWPW1, Zinc-finger, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, Metal-binding protein-nuclear Protein complex ; # 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 PRO A 38 ? VAL A 40 ? PRO A 276 VAL A 278 5 ? 3 HELX_P HELX_P2 2 CYS A 47 ? GLN A 49 ? CYS A 285 GLN A 287 5 ? 3 HELX_P HELX_P3 3 VAL A 53 ? TYR A 55 ? VAL A 291 TYR A 293 5 ? 3 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _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 _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _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 _struct_conn.pdbx_value_order covale1 covale ? ? B THR 3 C ? ? ? 1_555 B M3L 4 N ? ? B THR 3 B M3L 4 1_555 ? ? ? ? ? ? ? 1.331 ? covale2 covale ? ? B M3L 4 C ? ? ? 1_555 B GLN 5 N ? ? B M3L 4 B GLN 5 1_555 ? ? ? ? ? ? ? 1.327 ? metalc1 metalc ? ? A CYS 26 SG ? ? ? 1_555 C ZN . ZN ? ? A CYS 264 A ZN 501 1_555 ? ? ? ? ? ? ? 2.225 ? metalc2 metalc ? ? A CYS 58 SG ? ? ? 1_555 C ZN . ZN ? ? A CYS 296 A ZN 501 1_555 ? ? ? ? ? ? ? 2.226 ? metalc3 metalc ? ? A CYS 21 SG ? ? ? 1_555 C ZN . ZN ? ? A CYS 259 A ZN 501 1_555 ? ? ? ? ? ? ? 2.228 ? metalc4 metalc ? ? A CYS 47 SG ? ? ? 1_555 C ZN . ZN ? ? A CYS 285 A ZN 501 1_555 ? ? ? ? ? ? ? 2.232 ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 3 _struct_sheet.details ? # _struct_sheet_order.sheet_id A _struct_sheet_order.range_id_1 1 _struct_sheet_order.range_id_2 2 _struct_sheet_order.offset ? _struct_sheet_order.sense 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 TRP A 29 ? ARG A 31 ? TRP A 267 ARG A 269 A 2 TRP A 18 ? GLN A 20 ? TRP A 256 GLN A 258 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _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 4 _struct_site.details 'BINDING SITE FOR RESIDUE ZN A 501' # 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 4 CYS A 21 ? CYS A 259 . ? 1_555 ? 2 AC1 4 CYS A 26 ? CYS A 264 . ? 1_555 ? 3 AC1 4 CYS A 47 ? CYS A 285 . ? 1_555 ? 4 AC1 4 CYS A 58 ? CYS A 296 . ? 1_555 ? # _atom_sites.entry_id 2RR4 _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 ZN # 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 1 239 239 GLY GLY A . n A 1 2 SER 2 240 240 SER SER A . n A 1 3 SER 3 241 241 SER SER A . n A 1 4 GLY 4 242 242 GLY GLY A . n A 1 5 SER 5 243 243 SER SER A . n A 1 6 SER 6 244 244 SER SER A . n A 1 7 GLY 7 245 245 GLY GLY A . n A 1 8 GLU 8 246 246 GLU GLU A . n A 1 9 ILE 9 247 247 ILE ILE A . n A 1 10 SER 10 248 248 SER SER A . n A 1 11 GLY 11 249 249 GLY GLY A . n A 1 12 PHE 12 250 250 PHE PHE A . n A 1 13 GLY 13 251 251 GLY GLY A . n A 1 14 GLN 14 252 252 GLN GLN A . n A 1 15 CYS 15 253 253 CYS CYS A . n A 1 16 LEU 16 254 254 LEU LEU A . n A 1 17 VAL 17 255 255 VAL VAL A . n A 1 18 TRP 18 256 256 TRP TRP A . n A 1 19 VAL 19 257 257 VAL VAL A . n A 1 20 GLN 20 258 258 GLN GLN A . n A 1 21 CYS 21 259 259 CYS CYS A . n A 1 22 SER 22 260 260 SER SER A . n A 1 23 PHE 23 261 261 PHE PHE A . n A 1 24 PRO 24 262 262 PRO PRO A . n A 1 25 ASN 25 263 263 ASN ASN A . n A 1 26 CYS 26 264 264 CYS CYS A . n A 1 27 GLY 27 265 265 GLY GLY A . n A 1 28 LYS 28 266 266 LYS LYS A . n A 1 29 TRP 29 267 267 TRP TRP A . n A 1 30 ARG 30 268 268 ARG ARG A . n A 1 31 ARG 31 269 269 ARG ARG A . n A 1 32 LEU 32 270 270 LEU LEU A . n A 1 33 CYS 33 271 271 CYS CYS A . n A 1 34 GLY 34 272 272 GLY GLY A . n A 1 35 ASN 35 273 273 ASN ASN A . n A 1 36 ILE 36 274 274 ILE ILE A . n A 1 37 ASP 37 275 275 ASP ASP A . n A 1 38 PRO 38 276 276 PRO PRO A . n A 1 39 SER 39 277 277 SER SER A . n A 1 40 VAL 40 278 278 VAL VAL A . n A 1 41 LEU 41 279 279 LEU LEU A . n A 1 42 PRO 42 280 280 PRO PRO A . n A 1 43 ASP 43 281 281 ASP ASP A . n A 1 44 ASN 44 282 282 ASN ASN A . n A 1 45 TRP 45 283 283 TRP TRP A . n A 1 46 SER 46 284 284 SER SER A . n A 1 47 CYS 47 285 285 CYS CYS A . n A 1 48 ASP 48 286 286 ASP ASP A . n A 1 49 GLN 49 287 287 GLN GLN A . n A 1 50 ASN 50 288 288 ASN ASN A . n A 1 51 THR 51 289 289 THR THR A . n A 1 52 ASP 52 290 290 ASP ASP A . n A 1 53 VAL 53 291 291 VAL VAL A . n A 1 54 GLN 54 292 292 GLN GLN A . n A 1 55 TYR 55 293 293 TYR TYR A . n A 1 56 ASN 56 294 294 ASN ASN A . n A 1 57 ARG 57 295 295 ARG ARG A . n A 1 58 CYS 58 296 296 CYS CYS A . n A 1 59 ASP 59 297 297 ASP ASP A . n A 1 60 ILE 60 298 298 ILE ILE A . n A 1 61 PRO 61 299 299 PRO PRO A . n A 1 62 GLU 62 300 300 GLU GLU A . n A 1 63 GLU 63 301 301 GLU GLU A . n A 1 64 THR 64 302 302 THR THR A . n A 1 65 TRP 65 303 303 TRP TRP A . n A 1 66 THR 66 304 304 THR THR A . n A 1 67 GLY 67 305 305 GLY GLY A . n A 1 68 LEU 68 306 306 LEU LEU A . n A 1 69 GLU 69 307 307 GLU GLU A . n B 2 1 ALA 1 1 1 ALA ALA B . n B 2 2 ARG 2 2 2 ARG ARG B . n B 2 3 THR 3 3 3 THR THR B . n B 2 4 M3L 4 4 4 M3L M3L B . n B 2 5 GLN 5 5 5 GLN GLN B . n B 2 6 THR 6 6 6 THR THR B . n B 2 7 ALA 7 7 7 ALA ALA B . n B 2 8 ARG 8 8 8 ARG ARG B . n B 2 9 LYS 9 9 9 LYS LYS B . n B 2 10 SER 10 10 10 SER SER B . 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_nonpoly_scheme.asym_id C _pdbx_nonpoly_scheme.entity_id 3 _pdbx_nonpoly_scheme.mon_id ZN _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 501 _pdbx_nonpoly_scheme.auth_seq_num 501 _pdbx_nonpoly_scheme.pdb_mon_id ZN _pdbx_nonpoly_scheme.auth_mon_id ZN _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.pdb_ins_code . # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id B _pdbx_struct_mod_residue.label_comp_id M3L _pdbx_struct_mod_residue.label_seq_id 4 _pdbx_struct_mod_residue.auth_asym_id B _pdbx_struct_mod_residue.auth_comp_id M3L _pdbx_struct_mod_residue.auth_seq_id 4 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id LYS _pdbx_struct_mod_residue.details N-TRIMETHYLLYSINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 1306.4 ? 1 MORE -7.0 ? 1 'SSA (A^2)' 6380.7 ? # _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_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 SG ? A CYS 26 ? A CYS 264 ? 1_555 ZN ? C ZN . ? A ZN 501 ? 1_555 SG ? A CYS 58 ? A CYS 296 ? 1_555 109.7 ? 2 SG ? A CYS 26 ? A CYS 264 ? 1_555 ZN ? C ZN . ? A ZN 501 ? 1_555 SG ? A CYS 21 ? A CYS 259 ? 1_555 109.7 ? 3 SG ? A CYS 58 ? A CYS 296 ? 1_555 ZN ? C ZN . ? A ZN 501 ? 1_555 SG ? A CYS 21 ? A CYS 259 ? 1_555 109.4 ? 4 SG ? A CYS 26 ? A CYS 264 ? 1_555 ZN ? C ZN . ? A ZN 501 ? 1_555 SG ? A CYS 47 ? A CYS 285 ? 1_555 109.4 ? 5 SG ? A CYS 58 ? A CYS 296 ? 1_555 ZN ? C ZN . ? A ZN 501 ? 1_555 SG ? A CYS 47 ? A CYS 285 ? 1_555 109.5 ? 6 SG ? A CYS 21 ? A CYS 259 ? 1_555 ZN ? C ZN . ? A ZN 501 ? 1_555 SG ? A CYS 47 ? A CYS 285 ? 1_555 109.1 ? # 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 2010-09-15 2 'Structure model' 1 1 2011-07-13 # _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_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Version format compliance' # loop_ _pdbx_database_remark.id _pdbx_database_remark.text 650 ;HELIX DETERMINATION METHOD: AUTHOR DETERMINED ; 700 ;SHEET DETERMINATION METHOD: AUTHOR DETERMINED ; # loop_ _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_range _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling _pdbx_nmr_exptl_sample.solution_id entity_1-1 1.1 ? mM '[U-13C; U-15N]' 1 N-TRIMETHYLLYSINE-2 1.1 ? mM ? 1 'ZINC ION-3' 50 ? uM ? 1 # 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 11 NE A ARG 269 ? ? CZ A ARG 269 ? ? NH1 A ARG 269 ? ? 123.81 120.30 3.51 0.50 N 2 14 NE A ARG 268 ? ? CZ A ARG 268 ? ? NH1 A ARG 268 ? ? 123.45 120.30 3.15 0.50 N 3 19 NE A ARG 269 ? ? CZ A ARG 269 ? ? NH1 A ARG 269 ? ? 123.97 120.30 3.67 0.50 N 4 19 NE A ARG 269 ? ? CZ A ARG 269 ? ? NH2 A ARG 269 ? ? 116.57 120.30 -3.73 0.50 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 PHE A 250 ? ? 70.20 -14.47 2 1 CYS A 264 ? ? -102.66 -79.68 3 1 TYR A 293 ? ? -143.04 25.03 4 2 GLN A 252 ? ? -160.40 34.76 5 2 CYS A 264 ? ? -104.86 -80.12 6 2 THR A 304 ? ? -77.78 30.57 7 3 CYS A 264 ? ? -102.28 -80.33 8 3 TYR A 293 ? ? -140.02 28.34 9 3 TRP A 303 ? ? -142.79 14.89 10 4 SER A 240 ? ? -166.83 -165.93 11 4 CYS A 264 ? ? -100.53 -80.73 12 4 TYR A 293 ? ? -141.36 27.51 13 5 SER A 240 ? ? 69.56 -2.55 14 5 CYS A 264 ? ? -102.28 -82.06 15 5 TYR A 293 ? ? -140.98 29.78 16 6 CYS A 264 ? ? -100.62 -81.57 17 6 TYR A 293 ? ? -142.98 26.74 18 7 CYS A 264 ? ? -103.82 -79.72 19 7 TYR A 293 ? ? -143.07 26.56 20 8 SER A 243 ? ? 58.09 17.01 21 8 CYS A 264 ? ? -101.33 -80.23 22 8 TYR A 293 ? ? -143.48 26.71 23 8 LYS B 9 ? ? -145.38 47.36 24 9 SER A 243 ? ? -144.91 50.16 25 9 CYS A 264 ? ? -102.16 -81.69 26 9 TYR A 293 ? ? -142.73 27.29 27 10 CYS A 264 ? ? -101.50 -80.48 28 10 TYR A 293 ? ? -142.84 28.61 29 11 CYS A 264 ? ? -101.46 -81.38 30 11 TYR A 293 ? ? -141.95 26.70 31 11 TRP A 303 ? ? -141.33 12.79 32 12 CYS A 264 ? ? -100.83 -81.14 33 12 TYR A 293 ? ? -142.78 27.96 34 12 TRP A 303 ? ? -147.35 16.12 35 13 SER A 248 ? ? -65.30 22.59 36 13 CYS A 264 ? ? -99.65 -79.57 37 13 TYR A 293 ? ? -142.92 26.70 38 14 CYS A 264 ? ? -102.16 -81.81 39 14 TRP A 303 ? ? -142.85 20.16 40 15 LEU A 254 ? ? -161.11 118.45 41 15 CYS A 264 ? ? -100.07 -80.64 42 15 TYR A 293 ? ? -144.03 25.66 43 15 THR A 302 ? ? -69.31 98.61 44 16 CYS A 264 ? ? -100.14 -79.12 45 16 TYR A 293 ? ? -140.57 26.79 46 16 THR A 304 ? ? -148.18 49.73 47 17 CYS A 264 ? ? -101.41 -80.76 48 18 CYS A 264 ? ? -101.54 -79.46 49 18 TYR A 293 ? ? -143.54 27.63 50 19 SER A 240 ? ? -77.46 48.28 51 19 CYS A 264 ? ? -101.34 -80.13 52 19 TYR A 293 ? ? -142.10 27.60 53 20 SER A 241 ? ? 57.29 -14.86 54 20 CYS A 264 ? ? -99.25 -79.17 55 20 TYR A 293 ? ? -143.76 26.72 # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 4 _pdbx_validate_planes.auth_comp_id ARG _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 269 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.082 _pdbx_validate_planes.type 'SIDE CHAIN' # _pdbx_entity_nonpoly.entity_id 3 _pdbx_entity_nonpoly.name 'ZINC ION' _pdbx_entity_nonpoly.comp_id ZN #