data_1S4H # _entry.id 1S4H # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.355 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 1S4H pdb_00001s4h 10.2210/pdb1s4h/pdb RCSB RCSB021355 ? ? WWPDB D_1000021355 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 1S4J _pdbx_database_related.details 'cross-reactive peptides from Homo sapiens' _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1S4H _pdbx_database_status.recvd_initial_deposition_date 2004-01-16 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_mr REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Soares, M.R.' 1 'Bisch, P.M.' 2 'Campos de Carvalho, A.C.' 3 'Valente, A.P.' 4 'Almeida, F.C.L.' 5 # _citation.id primary _citation.title ;Correlation between conformation and antibody binding: NMR structure of cross-reactive peptides from T. cruzi, human and L. braziliensis ; _citation.journal_abbrev 'Febs Lett.' _citation.journal_volume 560 _citation.page_first 134 _citation.page_last 140 _citation.year 2004 _citation.journal_id_ASTM FEBLAL _citation.country NE _citation.journal_id_ISSN 0014-5793 _citation.journal_id_CSD 0165 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 14988012 _citation.pdbx_database_id_DOI '10.1016/S0014-5793(04)00088-2' # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Soares, M.R.' 1 ? primary 'Bisch, P.M.' 2 ? primary 'Campos De Carvalho, A.C.' 3 ? primary 'Valente, A.P.' 4 ? primary 'Almeida, F.C.L.' 5 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description '60S acidic ribosomal protein P2' _entity.formula_weight 1460.477 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment 'a13 - C-terminal domain' _entity.details ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Acidic ribosomal P2 beta protein, P2B-protein, Ribosomal P protein' # _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 EEADDDMGFGLFD _entity_poly.pdbx_seq_one_letter_code_can EEADDDMGFGLFD _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 GLU n 1 2 GLU n 1 3 ALA n 1 4 ASP n 1 5 ASP n 1 6 ASP n 1 7 MET n 1 8 GLY n 1 9 PHE n 1 10 GLY n 1 11 LEU n 1 12 PHE n 1 13 ASP n # _pdbx_entity_src_syn.entity_id 1 _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 ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'peptide obtained by solid phase synthesis. the sequence is naturally found in Leishmania braziliensis.' # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code RLA2_LEIBR _struct_ref.pdbx_db_accession O44010 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code EEADDDMGFGLFD _struct_ref.pdbx_align_begin 93 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1S4H _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 13 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession O44010 _struct_ref_seq.db_align_beg 93 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 105 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 13 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 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 # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type 1 1 1 '2D NOESY' 2 1 1 '2D TOCSY' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 278 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pH 5.5 _pdbx_nmr_exptl_sample_conditions.ionic_strength '10mM phosphate buffer' _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '2mM of peptide; 10% D2O; 10mM phosphate buffer at pH 5.5' _pdbx_nmr_sample_details.solvent_system '90% H2O/10% D2O' # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.field_strength 1 ? Bruker DRX 600 2 ? Bruker DRX 400 # _pdbx_nmr_refine.entry_id 1S4H _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_details.entry_id 1S4H _pdbx_nmr_details.text 'This structure was determined using standard 2D homonuclear techniques.' # _pdbx_nmr_ensemble.entry_id 1S4H _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy' _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.entry_id 1S4H _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal NMRPipe 2.1 processing Delaglio 1 NMRView 5.03 'data analysis' 'Bruce A. Johnson' 2 CNS 1.1 'structure solution' Brunger 3 CNS 1.1 refinement Brunger 4 # _exptl.entry_id 1S4H _exptl.method 'SOLUTION NMR' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type ? # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _struct.entry_id 1S4H _struct.title 'NMR structure of cross-reactive peptides from L. braziliensis' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1S4H _struct_keywords.pdbx_keywords RIBOSOME _struct_keywords.text 'Leishmania brazilienses, antigenic peptide, ribosomal p2 protein, RIBOSOME' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _struct_biol.id 1 # _database_PDB_matrix.entry_id 1S4H _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 1S4H _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C H N O S # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 GLU 1 1 1 GLU GLU A . n A 1 2 GLU 2 2 2 GLU GLU A . n A 1 3 ALA 3 3 3 ALA ALA A . n A 1 4 ASP 4 4 4 ASP ASP A . n A 1 5 ASP 5 5 5 ASP ASP A . n A 1 6 ASP 6 6 6 ASP ASP A . n A 1 7 MET 7 7 7 MET MET A . n A 1 8 GLY 8 8 8 GLY GLY A . n A 1 9 PHE 9 9 9 PHE PHE A . n A 1 10 GLY 10 10 10 GLY GLY A . n A 1 11 LEU 11 11 11 LEU LEU A . n A 1 12 PHE 12 12 12 PHE PHE A . n A 1 13 ASP 13 13 13 ASP ASP 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 2004-03-16 2 'Structure model' 1 1 2008-04-29 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2022-03-02 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Database references' 4 4 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' database_2 2 4 'Structure model' pdbx_struct_assembly 3 4 'Structure model' pdbx_struct_oper_list # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' # 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 ALA A 3 ? ? -162.06 31.22 2 1 ASP A 4 ? ? -96.11 44.04 3 1 ASP A 5 ? ? -111.90 54.98 4 1 ASP A 6 ? ? 48.29 86.37 5 1 MET A 7 ? ? -176.70 147.76 6 1 PHE A 9 ? ? -160.92 -163.92 7 1 LEU A 11 ? ? -174.49 -60.23 8 2 ALA A 3 ? ? -175.63 77.47 9 2 ASP A 6 ? ? -56.72 89.36 10 2 MET A 7 ? ? -175.66 146.87 11 2 PHE A 9 ? ? -161.32 -163.93 12 2 LEU A 11 ? ? -174.42 -58.59 13 3 ALA A 3 ? ? -175.63 77.48 14 3 ASP A 6 ? ? -56.78 89.30 15 3 MET A 7 ? ? -175.43 147.67 16 3 PHE A 9 ? ? -161.19 -164.03 17 3 LEU A 11 ? ? -174.84 -65.82 18 4 ALA A 3 ? ? -175.33 72.24 19 4 PHE A 9 ? ? -154.83 -146.84 20 4 PHE A 12 ? ? -146.30 19.96 21 5 ALA A 3 ? ? -175.26 72.45 22 5 ASP A 6 ? ? -59.80 87.15 23 5 PHE A 9 ? ? -154.82 -146.86 24 5 PHE A 12 ? ? -146.31 19.90 25 6 ALA A 3 ? ? -175.32 72.51 26 6 ASP A 6 ? ? -59.79 87.01 27 6 PHE A 9 ? ? -154.81 -146.79 28 6 PHE A 12 ? ? -146.28 19.83 29 7 ALA A 3 ? ? -175.27 72.44 30 7 ASP A 6 ? ? -59.94 87.07 31 7 PHE A 9 ? ? -154.80 -146.90 32 7 PHE A 12 ? ? -146.34 19.96 33 8 ALA A 3 ? ? -175.27 72.49 34 8 ASP A 6 ? ? -59.82 87.02 35 8 PHE A 9 ? ? -154.82 -146.86 36 8 PHE A 12 ? ? -146.37 20.01 37 9 ALA A 3 ? ? -175.29 72.36 38 9 ASP A 6 ? ? -59.73 94.56 39 9 PHE A 9 ? ? -154.88 -146.88 40 9 PHE A 12 ? ? -146.33 19.99 41 10 ALA A 3 ? ? -175.32 72.30 42 10 ASP A 6 ? ? -59.69 87.03 43 10 PHE A 9 ? ? -154.85 -146.83 44 10 PHE A 12 ? ? -146.27 19.91 45 11 ALA A 3 ? ? -175.53 77.12 46 11 ASP A 6 ? ? -61.42 84.56 47 11 PHE A 12 ? ? -148.29 16.86 48 12 ALA A 3 ? ? -175.20 107.68 49 12 ASP A 5 ? ? -97.90 34.84 50 12 ASP A 6 ? ? 44.92 90.92 51 12 MET A 7 ? ? -178.15 135.76 52 12 PHE A 12 ? ? -143.82 16.45 53 13 ALA A 3 ? ? -175.21 107.69 54 13 ASP A 5 ? ? -97.90 34.90 55 13 ASP A 6 ? ? 44.88 90.95 56 13 MET A 7 ? ? -178.18 135.62 57 13 PHE A 12 ? ? -143.92 16.36 58 14 ALA A 3 ? ? -175.50 75.69 59 14 ASP A 6 ? ? -63.35 81.58 60 14 PHE A 12 ? ? -143.52 16.16 61 15 ALA A 3 ? ? -175.51 75.71 62 15 ASP A 6 ? ? -63.45 81.62 63 15 PHE A 12 ? ? -143.49 16.27 64 16 ALA A 3 ? ? -175.50 75.71 65 16 ASP A 6 ? ? -63.24 81.50 66 16 PHE A 12 ? ? -143.46 16.18 67 17 ALA A 3 ? ? -175.52 75.82 68 17 ASP A 6 ? ? -63.29 81.50 69 17 PHE A 12 ? ? -143.47 16.19 70 18 ALA A 3 ? ? -175.51 75.75 71 18 ASP A 6 ? ? -63.41 81.63 72 18 PHE A 12 ? ? -143.54 16.36 73 19 ALA A 3 ? ? -175.56 75.68 74 19 ASP A 6 ? ? -63.40 81.61 75 19 PHE A 12 ? ? -143.63 16.26 76 20 ALA A 3 ? ? -175.53 75.80 77 20 ASP A 6 ? ? -63.42 81.57 78 20 PHE A 12 ? ? -143.51 16.27 #