data_2LP5 # _entry.id 2LP5 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.371 _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 2LP5 pdb_00002lp5 10.2210/pdb2lp5/pdb RCSB RCSB102658 ? ? BMRB 17149 ? ? WWPDB D_1000102658 ? ? # loop_ _pdbx_database_related.content_type _pdbx_database_related.db_id _pdbx_database_related.db_name _pdbx_database_related.details unspecified 1SHF PDB 'Structure of the native Fyn SH3 domain from H. sapiens' unspecified 3CQT PDB 'Structure of the native Fyn SH3 domain mutant N53I/V55L from G. gallus' unspecified 2L2P PDB 'Structure of a folding intermediate of the Fyn SH3 domain mutant A39V/N53P/V55L from G. gallus' unspecified 17149 BMRB ;Sequence-specific 1H, 13C, 15N NMR resonance assignments for the native state and a folding intermediate of the Fyn SH3 domain mutant A39V/N53P/V55L from G. gallus ; # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2LP5 _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2012-02-06 _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code REL _pdbx_database_status.status_code_mr REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data REL # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Neudecker, P.' 1 'Robustelli, P.' 2 'Cavalli, A.' 3 'Vendruscolo, M.' 4 'Kay, L.E.' 5 # _citation.id primary _citation.title 'Structure of an intermediate state in protein folding and aggregation.' _citation.journal_abbrev Science _citation.journal_volume 336 _citation.page_first 362 _citation.page_last 366 _citation.year 2012 _citation.journal_id_ASTM SCIEAS _citation.country US _citation.journal_id_ISSN 0036-8075 _citation.journal_id_CSD 0038 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 22517863 _citation.pdbx_database_id_DOI 10.1126/science.1214203 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Neudecker, P.' 1 ? primary 'Robustelli, P.' 2 ? primary 'Cavalli, A.' 3 ? primary 'Walsh, P.' 4 ? primary 'Lundstrom, P.' 5 ? primary 'Zarrine-Afsar, A.' 6 ? primary 'Sharpe, S.' 7 ? primary 'Vendruscolo, M.' 8 ? primary 'Kay, L.E.' 9 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'Tyrosine-protein kinase Fyn' _entity.formula_weight 7538.242 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec 2.7.10.2 _entity.pdbx_mutation 'A39V, N53P, V55L' _entity.pdbx_fragment 'SH3 domain residues 85-142' _entity.details ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Proto-oncogene c-Fyn, p59-Fyn' # _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 GAMVQISTLFEALYDYEARTEDDLSFHKGEKFQILNSSEGDWWEVRSLTTGETGYIPSPYLAPVDR _entity_poly.pdbx_seq_one_letter_code_can GAMVQISTLFEALYDYEARTEDDLSFHKGEKFQILNSSEGDWWEVRSLTTGETGYIPSPYLAPVDR _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # 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 ALA n 1 3 MET n 1 4 VAL n 1 5 GLN n 1 6 ILE n 1 7 SER n 1 8 THR n 1 9 LEU n 1 10 PHE n 1 11 GLU n 1 12 ALA n 1 13 LEU n 1 14 TYR n 1 15 ASP n 1 16 TYR n 1 17 GLU n 1 18 ALA n 1 19 ARG n 1 20 THR n 1 21 GLU n 1 22 ASP n 1 23 ASP n 1 24 LEU n 1 25 SER n 1 26 PHE n 1 27 HIS n 1 28 LYS n 1 29 GLY n 1 30 GLU n 1 31 LYS n 1 32 PHE n 1 33 GLN n 1 34 ILE n 1 35 LEU n 1 36 ASN n 1 37 SER n 1 38 SER n 1 39 GLU n 1 40 GLY n 1 41 ASP n 1 42 TRP n 1 43 TRP n 1 44 GLU n 1 45 VAL n 1 46 ARG n 1 47 SER n 1 48 LEU n 1 49 THR n 1 50 THR n 1 51 GLY n 1 52 GLU n 1 53 THR n 1 54 GLY n 1 55 TYR n 1 56 ILE n 1 57 PRO n 1 58 SER n 1 59 PRO n 1 60 TYR n 1 61 LEU n 1 62 ALA n 1 63 PRO n 1 64 VAL n 1 65 ASP n 1 66 ARG 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 bantam,chickens _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene FYN _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 'Gallus gallus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9031 _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 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008 _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 'BL21(DE3)' _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 pET _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 FYN_CHICK _struct_ref.pdbx_db_accession Q05876 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code TLFEALYDYEARTEDDLSFHKGEKFQILNSSEGDWWEARSLTTGETGYIPSNYVAPVD _struct_ref.pdbx_align_begin 85 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2LP5 _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 65 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q05876 _struct_ref_seq.db_align_beg 85 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 142 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 2 _struct_ref_seq.pdbx_auth_seq_align_end 59 # 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 2LP5 GLY A 1 ? UNP Q05876 ? ? 'expression tag' -5 1 1 2LP5 ALA A 2 ? UNP Q05876 ? ? 'expression tag' -4 2 1 2LP5 MET A 3 ? UNP Q05876 ? ? 'expression tag' -3 3 1 2LP5 VAL A 4 ? UNP Q05876 ? ? 'expression tag' -2 4 1 2LP5 GLN A 5 ? UNP Q05876 ? ? 'expression tag' -1 5 1 2LP5 ILE A 6 ? UNP Q05876 ? ? 'expression tag' 0 6 1 2LP5 SER A 7 ? UNP Q05876 ? ? 'expression tag' 1 7 1 2LP5 VAL A 45 ? UNP Q05876 ALA 122 'engineered mutation' 39 8 1 2LP5 PRO A 59 ? UNP Q05876 ASN 136 'engineered mutation' 53 9 1 2LP5 LEU A 61 ? UNP Q05876 VAL 138 'engineered mutation' 55 10 1 2LP5 ARG A 66 ? UNP Q05876 ? ? 'expression tag' 60 11 # 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 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # loop_ _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 2 '2D 1H-15N HSQC' 1 2 1 '3D 1H-15N NOESY-HSQC' 1 3 7 '3D HNCO' 1 4 7 '3D HNCA' 1 5 7 '3D C(CO)NH' 1 6 8 '2D 1H-13C CTHSQC' 1 7 10 '2D 1H-13C HSQC' 1 8 2 '15N SQ CPMG' 1 9 2 '15N SQ CPMG' 1 10 2 '15N TROSY/AntiTROSY CPMG' 1 11 2 '15N TROSY/AntiTROSY CPMG' 1 12 3 '15N SQ CPMG' 1 13 3 '15N SQ CPMG' 1 14 3 '15N TROSY/AntiTROSY CPMG' 1 15 3 '15N TROSY/AntiTROSY CPMG' 1 16 4 '15N SQ CPMG' 1 17 4 '15N SQ CPMG' 1 18 4 '15N TROSY/AntiTROSY CPMG' 1 19 4 '15N TROSY/AntiTROSY CPMG' 1 20 2 '1HN SQ CPMG' 1 21 2 '1HN SQ CPMG' 1 22 7 '15N SQ CPMG' 1 23 7 '13CO SQ CPMG' 1 24 7 '13CO SQ CPMG' 1 25 5 '15N SQ CPMG' 1 26 5 '13CO SQ CPMG' 1 27 5 '13CO SQ CPMG' 1 28 6 '15N SQ CPMG' 1 29 6 '13CO SQ CPMG' 1 30 6 '13CO SQ CPMG' 1 31 9 '13CA SQ CPMG' 1 32 9 '13CA SQ CPMG' 1 33 11 '13CA SQ CPMG' 1 34 11 '13CA SQ CPMG' 1 35 8 '1HA SQ CPMG' 1 36 8 '1HA SQ CPMG' 1 37 10 '13CH3 SQ CPMG' 1 38 10 '13CH3 SQ CPMG' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.ionic_strength 50 _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 293.15 _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_sample_details.contents _pdbx_nmr_sample_details.solution_id _pdbx_nmr_sample_details.solvent_system '0.7 mM [U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 90% H2O/10% D2O' 1 '90% H2O/10% D2O' '1.0 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 90% H2O/10% D2O' 2 '90% H2O/10% D2O' ;0.8 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 24 mg/ml Pf1 phage, 90% H2O/10% D2O ; 3 '90% H2O/10% D2O' ;0.5 mM [U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, uncertain v/v PEG/hexanol, 90% H2O/10% D2O ; 4 '90% H2O/10% D2O' '1.2 mM [U-13C; U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 90% H2O/10% D2O' 5 '90% H2O/10% D2O' ;0.8 mM [U-13C; U-15N; U-2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 36 mg/ml Pf1 phage, 90% H2O/10% D2O ; 6 '90% H2O/10% D2O' ;1.0 mM [U-13C; U-15N; U-50% 2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 90% H2O/10% D2O ; 7 '90% H2O/10% D2O' '1.0 mM [U-13C; U-15N; U-50% 2H] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 100% D2O' 8 '100% D2O' ;1.0 mM [2'-13C glucose; U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 100% D2O ; 9 '100% D2O' ;1.0 mM [1'-13C glucose; U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 90% H2O/10% D2O ; 10 '90% H2O/10% D2O' ;1.2 mM [1'-13C glucose; U-15N] Fyn SH3 A39V/N53P/V55L, 0.2 mM EDTA, 0.05 % sodium azide, 50 mM potassium phosphate, 100% D2O ; 11 '100% 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 Varian INOVA 1 'Varian INOVA' 600 Varian INOVA 2 'Varian INOVA' 500 Varian INOVA 3 'Varian INOVA' 500 Varian INOVA 4 'Varian INOVA' # _pdbx_nmr_refine.entry_id 2LP5 _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ;Torsion angle molecular dynamics simulated annealing refinement of an initial model based on the crystal structure of the Fyn SH3 domain mutant N53I/V55L (PDB 3CQT) with NOE distance, chemical shift derived backbone torsion dihedral, and RDC restraints ; _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_details.entry_id 2LP5 _pdbx_nmr_details.text 'The CPMG NMR relaxation dispersion experiments were supplemented with sign determination experiments as appropriate.' # _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 1000 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2LP5 _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 2LP5 _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 '3.0 Rev 2007.068.09.07' 1 'Johnson, One Moon Scientific' 'spectra analysis' NMRViewJ 8.0.rc4 2 'Orekhov, Ibraghimov, Billeter' 'peak picking' MUNIN 1.0 3 Hansen 'cpmg analysis' CATIA 0.52p 4 Cavalli 'structure solution' ALMOST 2.0 5 'Shen, Delaglio, Cornilescu, Bax' 'backbone torsion dihedral angle restraints' TALOS+ 1.01F 6 Cavalli refinement ALMOST 2.0 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 'Solution structure of the native Fyn SH3 domain mutant A39V/N53P/V55L from G. gallus' _exptl.entry_id 2LP5 _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2LP5 _struct.title 'Native Structure of the Fyn SH3 A39V/N53P/V55L' _struct.pdbx_model_details 'lowest energy, model 1' _struct.pdbx_CASP_flag N _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2LP5 _struct_keywords.pdbx_keywords TRANSFERASE _struct_keywords.text 'amyloid fibril, protein folding intermediate, TRANSFERASE' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _struct_biol.id 1 _struct_biol.details ? # _struct_conf.conf_type_id HELX_P _struct_conf.id HELX_P1 _struct_conf.pdbx_PDB_helix_id 1 _struct_conf.beg_label_comp_id PRO _struct_conf.beg_label_asym_id A _struct_conf.beg_label_seq_id 57 _struct_conf.pdbx_beg_PDB_ins_code ? _struct_conf.end_label_comp_id TYR _struct_conf.end_label_asym_id A _struct_conf.end_label_seq_id 60 _struct_conf.pdbx_end_PDB_ins_code ? _struct_conf.beg_auth_comp_id PRO _struct_conf.beg_auth_asym_id A _struct_conf.beg_auth_seq_id 51 _struct_conf.end_auth_comp_id TYR _struct_conf.end_auth_asym_id A _struct_conf.end_auth_seq_id 54 _struct_conf.pdbx_PDB_helix_class 4 _struct_conf.details ? _struct_conf.pdbx_PDB_helix_length 4 # _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 5 _struct_sheet.details ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel # 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 THR A 53 ? PRO A 57 ? THR A 47 PRO A 51 A 2 TRP A 42 ? SER A 47 ? TRP A 36 SER A 41 A 3 LYS A 31 ? ASN A 36 ? LYS A 25 ASN A 30 A 4 PHE A 10 ? ALA A 12 ? PHE A 4 ALA A 6 A 5 LEU A 61 ? PRO A 63 ? LEU A 55 PRO A 57 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 O GLY A 54 ? O GLY A 48 N VAL A 45 ? N VAL A 39 A 2 3 O GLU A 44 ? O GLU A 38 N ASN A 36 ? N ASN A 30 A 3 4 O PHE A 32 ? O PHE A 26 N PHE A 10 ? N PHE A 4 A 4 5 N GLU A 11 ? N GLU A 5 O ALA A 62 ? O ALA A 56 # _atom_sites.entry_id 2LP5 _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 -5 ? ? ? A . n A 1 2 ALA 2 -4 ? ? ? A . n A 1 3 MET 3 -3 ? ? ? A . n A 1 4 VAL 4 -2 ? ? ? A . n A 1 5 GLN 5 -1 ? ? ? A . n A 1 6 ILE 6 0 ? ? ? A . n A 1 7 SER 7 1 1 SER SER A . n A 1 8 THR 8 2 2 THR THR A . n A 1 9 LEU 9 3 3 LEU LEU A . n A 1 10 PHE 10 4 4 PHE PHE A . n A 1 11 GLU 11 5 5 GLU GLU A . n A 1 12 ALA 12 6 6 ALA ALA A . n A 1 13 LEU 13 7 7 LEU LEU A . n A 1 14 TYR 14 8 8 TYR TYR A . n A 1 15 ASP 15 9 9 ASP ASP A . n A 1 16 TYR 16 10 10 TYR TYR A . n A 1 17 GLU 17 11 11 GLU GLU A . n A 1 18 ALA 18 12 12 ALA ALA A . n A 1 19 ARG 19 13 13 ARG ARG A . n A 1 20 THR 20 14 14 THR THR A . n A 1 21 GLU 21 15 15 GLU GLU A . n A 1 22 ASP 22 16 16 ASP ASP A . n A 1 23 ASP 23 17 17 ASP ASP A . n A 1 24 LEU 24 18 18 LEU LEU A . n A 1 25 SER 25 19 19 SER SER A . n A 1 26 PHE 26 20 20 PHE PHE A . n A 1 27 HIS 27 21 21 HIS HIS A . n A 1 28 LYS 28 22 22 LYS LYS A . n A 1 29 GLY 29 23 23 GLY GLY A . n A 1 30 GLU 30 24 24 GLU GLU A . n A 1 31 LYS 31 25 25 LYS LYS A . n A 1 32 PHE 32 26 26 PHE PHE A . n A 1 33 GLN 33 27 27 GLN GLN A . n A 1 34 ILE 34 28 28 ILE ILE A . n A 1 35 LEU 35 29 29 LEU LEU A . n A 1 36 ASN 36 30 30 ASN ASN A . n A 1 37 SER 37 31 31 SER SER A . n A 1 38 SER 38 32 32 SER SER A . n A 1 39 GLU 39 33 33 GLU GLU A . n A 1 40 GLY 40 34 34 GLY GLY A . n A 1 41 ASP 41 35 35 ASP ASP A . n A 1 42 TRP 42 36 36 TRP TRP A . n A 1 43 TRP 43 37 37 TRP TRP A . n A 1 44 GLU 44 38 38 GLU GLU A . n A 1 45 VAL 45 39 39 VAL VAL A . n A 1 46 ARG 46 40 40 ARG ARG A . n A 1 47 SER 47 41 41 SER SER A . n A 1 48 LEU 48 42 42 LEU LEU A . n A 1 49 THR 49 43 43 THR THR A . n A 1 50 THR 50 44 44 THR THR A . n A 1 51 GLY 51 45 45 GLY GLY A . n A 1 52 GLU 52 46 46 GLU GLU A . n A 1 53 THR 53 47 47 THR THR A . n A 1 54 GLY 54 48 48 GLY GLY A . n A 1 55 TYR 55 49 49 TYR TYR A . n A 1 56 ILE 56 50 50 ILE ILE A . n A 1 57 PRO 57 51 51 PRO PRO A . n A 1 58 SER 58 52 52 SER SER A . n A 1 59 PRO 59 53 53 PRO PRO A . n A 1 60 TYR 60 54 54 TYR TYR A . n A 1 61 LEU 61 55 55 LEU LEU A . n A 1 62 ALA 62 56 56 ALA ALA A . n A 1 63 PRO 63 57 57 PRO PRO A . n A 1 64 VAL 64 58 58 VAL VAL A . n A 1 65 ASP 65 59 59 ASP ASP A . n A 1 66 ARG 66 60 ? ? ? A . n # _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 2012-05-16 2 'Structure model' 1 1 2023-06-14 # _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' Advisory 2 2 'Structure model' 'Data collection' 3 2 'Structure model' 'Database references' 4 2 'Structure model' Other # 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 2 'Structure model' database_2 2 2 'Structure model' pdbx_database_remark 3 2 'Structure model' pdbx_database_status 4 2 'Structure model' pdbx_nmr_software 5 2 '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 2 'Structure model' '_database_2.pdbx_DOI' 2 2 'Structure model' '_database_2.pdbx_database_accession' 3 2 'Structure model' '_pdbx_database_remark.text' 4 2 'Structure model' '_pdbx_database_status.status_code_nmr_data' 5 2 'Structure model' '_pdbx_nmr_software.name' 6 2 'Structure model' '_struct_ref_seq_dif.details' # 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 'Fyn SH3 A39V/N53P/V55L-1' 0.7 ? mM '[U-15N]' 1 EDTA-2 0.2 ? mM ? 1 'sodium azide-3' 0.05 ? % ? 1 'potassium phosphate-4' 50 ? mM ? 1 H2O-5 90 ? % ? 1 D2O-6 10 ? % ? 1 'Fyn SH3 A39V/N53P/V55L-7' 1.0 ? mM '[U-15N; U-2H]' 2 EDTA-8 0.2 ? mM ? 2 'sodium azide-9' 0.05 ? % ? 2 'potassium phosphate-10' 50 ? mM ? 2 H2O-11 90 ? % ? 2 D2O-12 10 ? % ? 2 'Fyn SH3 A39V/N53P/V55L-13' 0.8 ? mM '[U-15N; U-2H]' 3 EDTA-14 0.2 ? mM ? 3 'sodium azide-15' 0.05 ? % ? 3 'potassium phosphate-16' 50 ? mM ? 3 'Pf1 phage-17' 24 ? mg/mL ? 3 H2O-18 90 ? % ? 3 D2O-19 10 ? % ? 3 'Fyn SH3 A39V/N53P/V55L-20' 0.5 ? mM '[U-15N; U-2H]' 4 EDTA-21 0.2 ? mM ? 4 'sodium azide-22' 0.05 ? % ? 4 'potassium phosphate-23' 50 ? mM ? 4 PEG/hexanol-24 . ? v/v ? 4 H2O-25 90 ? % ? 4 D2O-26 10 ? % ? 4 'Fyn SH3 A39V/N53P/V55L-27' 1.2 ? mM '[U-13C; U-15N; U-2H]' 5 EDTA-28 0.2 ? mM ? 5 'sodium azide-29' 0.05 ? % ? 5 'potassium phosphate-30' 50 ? mM ? 5 H2O-31 90 ? % ? 5 D2O-32 10 ? % ? 5 'Fyn SH3 A39V/N53P/V55L-33' 0.8 ? mM '[U-13C; U-15N; U-2H]' 6 EDTA-34 0.2 ? mM ? 6 'sodium azide-35' 0.05 ? % ? 6 'potassium phosphate-36' 50 ? mM ? 6 'Pf1 phage-37' 36 ? mg/mL ? 6 H2O-38 90 ? % ? 6 D2O-39 10 ? % ? 6 'Fyn SH3 A39V/N53P/V55L-40' 1.0 ? mM '[U-13C; U-15N; U-50% 2H]' 7 EDTA-41 0.2 ? mM ? 7 'sodium azide-42' 0.05 ? % ? 7 'potassium phosphate-43' 50 ? mM ? 7 H2O-44 90 ? % ? 7 D2O-45 10 ? % ? 7 'Fyn SH3 A39V/N53P/V55L-46' 1.0 ? mM '[U-13C; U-15N; U-50% 2H]' 8 EDTA-47 0.2 ? mM ? 8 'sodium azide-48' 0.05 ? % ? 8 'potassium phosphate-49' 50 ? mM ? 8 D2O-50 100 ? % ? 8 'Fyn SH3 A39V/N53P/V55L-51' 1.0 ? mM ;[2'-13C glucose; U-15N] ; 9 EDTA-52 0.2 ? mM ? 9 'sodium azide-53' 0.05 ? % ? 9 'potassium phosphate-54' 50 ? mM ? 9 D2O-55 100 ? % ? 9 'Fyn SH3 A39V/N53P/V55L-56' 1.0 ? mM ;[1'-13C glucose; U-15N] ; 10 EDTA-57 0.2 ? mM ? 10 'sodium azide-58' 0.05 ? % ? 10 'potassium phosphate-59' 50 ? mM ? 10 H2O-60 90 ? % ? 10 D2O-61 10 ? % ? 10 'Fyn SH3 A39V/N53P/V55L-62' 1.2 ? mM ;[1'-13C glucose; U-15N] ; 11 EDTA-63 0.2 ? mM ? 11 'sodium azide-64' 0.05 ? % ? 11 'potassium phosphate-65' 50 ? mM ? 11 D2O-66 10 ? % ? 11 # _pdbx_nmr_constraints.disulfide_bond_constraints_total_count ? _pdbx_nmr_constraints.entry_id 2LP5 _pdbx_nmr_constraints.hydrogen_bond_constraints_total_count ? _pdbx_nmr_constraints.NA_alpha-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_beta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_chi-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_delta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_epsilon-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_gamma-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_other-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_sugar_pucker_constraints_total_count ? _pdbx_nmr_constraints.NOE_constraints_total 416 _pdbx_nmr_constraints.NOE_interentity_total_count ? _pdbx_nmr_constraints.NOE_interproton_distance_evaluation ? _pdbx_nmr_constraints.NOE_intraresidue_total_count 116 _pdbx_nmr_constraints.NOE_long_range_total_count 82 _pdbx_nmr_constraints.NOE_medium_range_total_count 42 _pdbx_nmr_constraints.NOE_motional_averaging_correction ? _pdbx_nmr_constraints.NOE_pseudoatom_corrections ? _pdbx_nmr_constraints.NOE_sequential_total_count 176 _pdbx_nmr_constraints.protein_chi_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_other_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_phi_angle_constraints_total_count 35 _pdbx_nmr_constraints.protein_psi_angle_constraints_total_count 38 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A GLY -5 ? A GLY 1 2 1 Y 1 A ALA -4 ? A ALA 2 3 1 Y 1 A MET -3 ? A MET 3 4 1 Y 1 A VAL -2 ? A VAL 4 5 1 Y 1 A GLN -1 ? A GLN 5 6 1 Y 1 A ILE 0 ? A ILE 6 7 1 Y 1 A ARG 60 ? A ARG 66 8 2 Y 1 A GLY -5 ? A GLY 1 9 2 Y 1 A ALA -4 ? A ALA 2 10 2 Y 1 A MET -3 ? A MET 3 11 2 Y 1 A VAL -2 ? A VAL 4 12 2 Y 1 A GLN -1 ? A GLN 5 13 2 Y 1 A ILE 0 ? A ILE 6 14 2 Y 1 A ARG 60 ? A ARG 66 15 3 Y 1 A GLY -5 ? A GLY 1 16 3 Y 1 A ALA -4 ? A ALA 2 17 3 Y 1 A MET -3 ? A MET 3 18 3 Y 1 A VAL -2 ? A VAL 4 19 3 Y 1 A GLN -1 ? A GLN 5 20 3 Y 1 A ILE 0 ? A ILE 6 21 3 Y 1 A ARG 60 ? A ARG 66 22 4 Y 1 A GLY -5 ? A GLY 1 23 4 Y 1 A ALA -4 ? A ALA 2 24 4 Y 1 A MET -3 ? A MET 3 25 4 Y 1 A VAL -2 ? A VAL 4 26 4 Y 1 A GLN -1 ? A GLN 5 27 4 Y 1 A ILE 0 ? A ILE 6 28 4 Y 1 A ARG 60 ? A ARG 66 29 5 Y 1 A GLY -5 ? A GLY 1 30 5 Y 1 A ALA -4 ? A ALA 2 31 5 Y 1 A MET -3 ? A MET 3 32 5 Y 1 A VAL -2 ? A VAL 4 33 5 Y 1 A GLN -1 ? A GLN 5 34 5 Y 1 A ILE 0 ? A ILE 6 35 5 Y 1 A ARG 60 ? A ARG 66 36 6 Y 1 A GLY -5 ? A GLY 1 37 6 Y 1 A ALA -4 ? A ALA 2 38 6 Y 1 A MET -3 ? A MET 3 39 6 Y 1 A VAL -2 ? A VAL 4 40 6 Y 1 A GLN -1 ? A GLN 5 41 6 Y 1 A ILE 0 ? A ILE 6 42 6 Y 1 A ARG 60 ? A ARG 66 43 7 Y 1 A GLY -5 ? A GLY 1 44 7 Y 1 A ALA -4 ? A ALA 2 45 7 Y 1 A MET -3 ? A MET 3 46 7 Y 1 A VAL -2 ? A VAL 4 47 7 Y 1 A GLN -1 ? A GLN 5 48 7 Y 1 A ILE 0 ? A ILE 6 49 7 Y 1 A ARG 60 ? A ARG 66 50 8 Y 1 A GLY -5 ? A GLY 1 51 8 Y 1 A ALA -4 ? A ALA 2 52 8 Y 1 A MET -3 ? A MET 3 53 8 Y 1 A VAL -2 ? A VAL 4 54 8 Y 1 A GLN -1 ? A GLN 5 55 8 Y 1 A ILE 0 ? A ILE 6 56 8 Y 1 A ARG 60 ? A ARG 66 57 9 Y 1 A GLY -5 ? A GLY 1 58 9 Y 1 A ALA -4 ? A ALA 2 59 9 Y 1 A MET -3 ? A MET 3 60 9 Y 1 A VAL -2 ? A VAL 4 61 9 Y 1 A GLN -1 ? A GLN 5 62 9 Y 1 A ILE 0 ? A ILE 6 63 9 Y 1 A ARG 60 ? A ARG 66 64 10 Y 1 A GLY -5 ? A GLY 1 65 10 Y 1 A ALA -4 ? A ALA 2 66 10 Y 1 A MET -3 ? A MET 3 67 10 Y 1 A VAL -2 ? A VAL 4 68 10 Y 1 A GLN -1 ? A GLN 5 69 10 Y 1 A ILE 0 ? A ILE 6 70 10 Y 1 A ARG 60 ? A ARG 66 #