data_1PP5 # _entry.id 1PP5 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.398 _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 1PP5 pdb_00001pp5 10.2210/pdb1pp5/pdb RCSB RCSB019472 ? ? WWPDB D_1000019472 ? ? # 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 2003-10-28 2 'Structure model' 1 1 2008-04-29 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2011-07-27 5 'Structure model' 1 4 2012-12-12 6 'Structure model' 1 5 2024-11-06 # _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' 'Non-polymer description' 4 4 'Structure model' 'Structure summary' 5 5 'Structure model' Other 6 6 'Structure model' 'Data collection' 7 6 'Structure model' 'Database references' 8 6 'Structure model' 'Derived calculations' 9 6 'Structure model' 'Structure summary' # 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 6 'Structure model' chem_comp_atom 2 6 'Structure model' chem_comp_bond 3 6 'Structure model' database_2 4 6 'Structure model' pdbx_entry_details 5 6 'Structure model' pdbx_modification_feature 6 6 'Structure model' pdbx_nmr_software 7 6 'Structure model' struct_conn # 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 6 'Structure model' '_database_2.pdbx_DOI' 2 6 'Structure model' '_database_2.pdbx_database_accession' 3 6 'Structure model' '_pdbx_nmr_software.name' 4 6 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1PP5 _pdbx_database_status.recvd_initial_deposition_date 2003-06-16 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.SG_entry Y _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr REL _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 ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id ER142 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Bayro, M.J.' 1 'Swapna, G.V.T.' 2 'Huang, J.Y.' 3 'Ma, L.-C.' 4 'Mukhopadhyay, J.' 5 'Ebright, R.H.' 6 'Montelione, G.T.' 7 'Northeast Structural Genomics Consortium (NESG)' 8 # _citation.id primary _citation.title 'Structure of Antibacterial Peptide Microcin J25: A 21-Residue Lariat Protoknot.' _citation.journal_abbrev J.Am.Chem.Soc. _citation.journal_volume 125 _citation.page_first 12382 _citation.page_last 12383 _citation.year 2003 _citation.journal_id_ASTM JACSAT _citation.country US _citation.journal_id_ISSN 0002-7863 _citation.journal_id_CSD 0004 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 14531661 _citation.pdbx_database_id_DOI 10.1021/ja036677e # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Bayro, M.J.' 1 ? primary 'Mukhopadhyay, J.' 2 ? primary 'Swapna, G.V.T.' 3 ? primary 'Huang, J.Y.' 4 ? primary 'Ma, L.-C.' 5 ? primary 'Sineva, E.' 6 ? primary 'Dawson, P.E.' 7 ? primary 'Montelione, G.T.' 8 ? primary 'Ebright, R.H.' 9 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'microcin J25' _entity.formula_weight 2126.348 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _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 GGAGHVPEYFVGIGTPISFYG _entity_poly.pdbx_seq_one_letter_code_can GGAGHVPEYFVGIGTPISFYG _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ER142 # 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 GLY n 1 3 ALA n 1 4 GLY n 1 5 HIS n 1 6 VAL n 1 7 PRO n 1 8 GLU n 1 9 TYR n 1 10 PHE n 1 11 VAL n 1 12 GLY n 1 13 ILE n 1 14 GLY n 1 15 THR n 1 16 PRO n 1 17 ILE n 1 18 SER n 1 19 PHE n 1 20 TYR n 1 21 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 ? _entity_src_gen.gene_src_genus Escherichia _entity_src_gen.pdbx_gene_src_gene MCJA _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 'Escherichia coli' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 562 _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 562 _entity_src_gen.host_org_genus Escherichia _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 DH5alpha _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 pTUC202 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # 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 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 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 GLY 1 1 1 GLY GLY A . n A 1 2 GLY 2 2 2 GLY GLY A . n A 1 3 ALA 3 3 3 ALA ALA A . n A 1 4 GLY 4 4 4 GLY GLY A . n A 1 5 HIS 5 5 5 HIS HIS A . n A 1 6 VAL 6 6 6 VAL VAL A . n A 1 7 PRO 7 7 7 PRO PRO A . n A 1 8 GLU 8 8 8 GLU GLU A . n A 1 9 TYR 9 9 9 TYR TYR A . n A 1 10 PHE 10 10 10 PHE PHE A . n A 1 11 VAL 11 11 11 VAL VAL A . n A 1 12 GLY 12 12 12 GLY GLY A . n A 1 13 ILE 13 13 13 ILE ILE A . n A 1 14 GLY 14 14 14 GLY GLY A . n A 1 15 THR 15 15 15 THR THR A . n A 1 16 PRO 16 16 16 PRO PRO A . n A 1 17 ILE 17 17 17 ILE ILE A . n A 1 18 SER 18 18 18 SER SER A . n A 1 19 PHE 19 19 19 PHE PHE A . n A 1 20 TYR 20 20 20 TYR TYR A . n A 1 21 GLY 21 21 21 GLY GLY A . n # _exptl.entry_id 1PP5 _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 x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _database_PDB_matrix.entry_id 1PP5 _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 # _struct.entry_id 1PP5 _struct.title 'Structure of Antibacterial Peptide Microcin J25: a 21-Residue Lariat Protoknot' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1PP5 _struct_keywords.pdbx_keywords ANTIBIOTIC _struct_keywords.text ;LARIAT, PROTOKNOT, BACKBONE-SIDECHAIN AMIDE LINKAGE, Structural Genomics, PSI, Protein Structure Initiative, Northeast Structural Genomics Consortium, NESG, ANTIBIOTIC ; # _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_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code MCJA_ECOLI _struct_ref.pdbx_db_accession Q9X2V7 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code GGAGHVPEYFVGIGTPISFYG _struct_ref.pdbx_align_begin 38 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1PP5 _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 21 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9X2V7 _struct_ref_seq.db_align_beg 38 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 58 _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 21 # _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 # _struct_biol.id 1 # _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 A _struct_conn.ptnr1_label_comp_id GLY _struct_conn.ptnr1_label_seq_id 1 _struct_conn.ptnr1_label_atom_id N _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 A _struct_conn.ptnr2_label_comp_id GLU _struct_conn.ptnr2_label_seq_id 8 _struct_conn.ptnr2_label_atom_id CD _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 GLY _struct_conn.ptnr1_auth_seq_id 1 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id GLU _struct_conn.ptnr2_auth_seq_id 8 _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 'backbone-sidechain amide linkage' _struct_conn.pdbx_dist_value 1.322 _struct_conn.pdbx_value_order ? _struct_conn.pdbx_role ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_modification_feature.ordinal 1 _pdbx_modification_feature.label_comp_id GLY _pdbx_modification_feature.label_asym_id A _pdbx_modification_feature.label_seq_id 1 _pdbx_modification_feature.label_alt_id ? _pdbx_modification_feature.modified_residue_label_comp_id GLU _pdbx_modification_feature.modified_residue_label_asym_id A _pdbx_modification_feature.modified_residue_label_seq_id 8 _pdbx_modification_feature.modified_residue_label_alt_id ? _pdbx_modification_feature.auth_comp_id GLY _pdbx_modification_feature.auth_asym_id A _pdbx_modification_feature.auth_seq_id 1 _pdbx_modification_feature.PDB_ins_code ? _pdbx_modification_feature.symmetry 1_555 _pdbx_modification_feature.modified_residue_auth_comp_id GLU _pdbx_modification_feature.modified_residue_auth_asym_id A _pdbx_modification_feature.modified_residue_auth_seq_id 8 _pdbx_modification_feature.modified_residue_PDB_ins_code ? _pdbx_modification_feature.modified_residue_symmetry 1_555 _pdbx_modification_feature.comp_id_linking_atom N _pdbx_modification_feature.modified_residue_id_linking_atom CD _pdbx_modification_feature.modified_residue_id . _pdbx_modification_feature.ref_pcm_id . _pdbx_modification_feature.ref_comp_id . _pdbx_modification_feature.type None _pdbx_modification_feature.category 'Isopeptide bond' # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 2 _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 VAL A 6 ? PRO A 7 ? VAL A 6 PRO A 7 A 2 PHE A 19 ? TYR A 20 ? PHE A 19 TYR A 20 # _pdbx_struct_sheet_hbond.sheet_id A _pdbx_struct_sheet_hbond.range_id_1 1 _pdbx_struct_sheet_hbond.range_id_2 2 _pdbx_struct_sheet_hbond.range_1_label_atom_id N _pdbx_struct_sheet_hbond.range_1_label_comp_id VAL _pdbx_struct_sheet_hbond.range_1_label_asym_id A _pdbx_struct_sheet_hbond.range_1_label_seq_id 6 _pdbx_struct_sheet_hbond.range_1_PDB_ins_code ? _pdbx_struct_sheet_hbond.range_1_auth_atom_id N _pdbx_struct_sheet_hbond.range_1_auth_comp_id VAL _pdbx_struct_sheet_hbond.range_1_auth_asym_id A _pdbx_struct_sheet_hbond.range_1_auth_seq_id 6 _pdbx_struct_sheet_hbond.range_2_label_atom_id O _pdbx_struct_sheet_hbond.range_2_label_comp_id TYR _pdbx_struct_sheet_hbond.range_2_label_asym_id A _pdbx_struct_sheet_hbond.range_2_label_seq_id 20 _pdbx_struct_sheet_hbond.range_2_PDB_ins_code ? _pdbx_struct_sheet_hbond.range_2_auth_atom_id O _pdbx_struct_sheet_hbond.range_2_auth_comp_id TYR _pdbx_struct_sheet_hbond.range_2_auth_asym_id A _pdbx_struct_sheet_hbond.range_2_auth_seq_id 20 # _pdbx_entry_details.entry_id 1PP5 _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_ligand_of_interest ? _pdbx_entry_details.has_protein_modification Y # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 10 _pdbx_validate_close_contact.auth_atom_id_1 H _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 HIS _pdbx_validate_close_contact.auth_seq_id_1 5 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 TYR _pdbx_validate_close_contact.auth_seq_id_2 20 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 1.52 # 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 ? ? -152.15 35.07 2 1 GLU A 8 ? ? -94.31 33.56 3 1 ILE A 13 ? ? -56.05 -157.84 4 2 HIS A 5 ? ? -130.79 -47.49 5 2 GLU A 8 ? ? -89.58 32.10 6 2 ILE A 13 ? ? -64.20 -146.80 7 2 ILE A 17 ? ? -93.97 57.25 8 3 ALA A 3 ? ? 44.31 82.87 9 3 HIS A 5 ? ? -127.48 -52.08 10 3 TYR A 9 ? ? -18.04 89.38 11 3 ILE A 17 ? ? -107.23 52.40 12 4 GLU A 8 ? ? -86.87 39.29 13 4 ILE A 13 ? ? 35.67 -152.55 14 4 THR A 15 ? ? -101.84 -64.70 15 4 ILE A 17 ? ? -119.35 57.01 16 5 ALA A 3 ? ? 55.68 105.20 17 5 HIS A 5 ? ? -124.03 -50.83 18 5 GLU A 8 ? ? -90.28 33.06 19 5 VAL A 11 ? ? -126.17 -166.91 20 5 ILE A 13 ? ? 54.88 12.72 21 6 ALA A 3 ? ? -68.91 84.19 22 6 TYR A 9 ? ? -60.67 72.69 23 7 ALA A 3 ? ? -119.87 62.15 24 7 ILE A 13 ? ? -49.64 161.44 25 7 ILE A 17 ? ? -95.58 58.08 26 7 SER A 18 ? ? -162.83 -164.45 27 8 TYR A 9 ? ? 3.76 84.94 28 8 VAL A 11 ? ? -48.44 167.88 29 8 ILE A 13 ? ? -139.56 -145.37 30 9 HIS A 5 ? ? -141.05 -51.86 31 9 TYR A 9 ? ? -48.64 92.39 32 9 PHE A 10 ? ? -152.23 19.17 33 9 ILE A 13 ? ? -60.81 -141.21 34 10 ALA A 3 ? ? 58.34 -85.83 35 10 HIS A 5 ? ? -137.88 -49.63 36 10 ILE A 13 ? ? -133.92 -152.05 37 10 THR A 15 ? ? -90.10 -61.80 38 10 TYR A 20 ? ? -117.99 -169.74 # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'Northeast Structural Genomics Consortium' _pdbx_SG_project.initial_of_center NESG # _pdbx_molecule_features.prd_id PRD_000184 _pdbx_molecule_features.name 'Microcin J25' _pdbx_molecule_features.type Polypeptide _pdbx_molecule_features.class Inhibitor _pdbx_molecule_features.details ? # _pdbx_molecule.instance_id 1 _pdbx_molecule.prd_id PRD_000184 _pdbx_molecule.asym_id A # _pdbx_nmr_ensemble.entry_id 1PP5 _pdbx_nmr_ensemble.conformers_calculated_total_number 60 _pdbx_nmr_ensemble.conformers_submitted_total_number 10 _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 1PP5 _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'lowest energy' # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '2mM Microcin J25 U-13C,15N; 99.5% CD3OH, 0.5% H2O' _pdbx_nmr_sample_details.solvent_system '99.5% CD3OH, 0.5% H2O' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pH . _pdbx_nmr_exptl_sample_conditions.ionic_strength NA _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type 1 1 1 3D_15N-separated_NOESY 2 1 1 3D_13C-separated_NOESY 3 1 1 HNHA 4 1 1 HNCACB 5 1 1 CBCAcoNH 6 1 1 ? # _pdbx_nmr_details.entry_id 1PP5 _pdbx_nmr_details.text 'The structure was determined using triple-resonance NMR spectroscopy.' # _pdbx_nmr_refine.entry_id 1PP5 _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ;The ensemble of structures is based on a total of 198 conformationally restraining constraints, 179 are NOE-derived distance constraints, 13 are dihedral angle constraints, 6 are distance constraints from hydrogen bonds. ; _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.classification _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal AutoProc 0.8 processing 'Bayro, M.J.; Monleon, D.; Baran, M.C.; Sahota, G.; Paranji, R.; Moseley, H.N.B.; Aramini, J.M.; Swapna, G.V.T.; Montelione, G.T.' 1 NMRPipe 1.4 processing 'Delaglio, F.; Grzesiek, S.; Vuister, G.; Zhu, G.; Pfeifer, J.; Bax, A.' 2 AutoStructure 1.1.2 'structure solution' 'Huang, Y.J., Tejero, R., Montelione, G.T.' 3 DYANA 1.5 'structure solution' 'Guntert, P.; Mumenthaler, C.; Wuthrich, K.' 4 PdbStat 3.25 refinement 'Tejero, R.; Montelione, G.T.' 5 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 GLU N N N N 14 GLU CA C N S 15 GLU C C N N 16 GLU O O N N 17 GLU CB C N N 18 GLU CG C N N 19 GLU CD C N N 20 GLU OE1 O N N 21 GLU OE2 O N N 22 GLU OXT O N N 23 GLU H H N N 24 GLU H2 H N N 25 GLU HA H N N 26 GLU HB2 H N N 27 GLU HB3 H N N 28 GLU HG2 H N N 29 GLU HG3 H N N 30 GLU HE2 H N N 31 GLU HXT H N N 32 GLY N N N N 33 GLY CA C N N 34 GLY C C N N 35 GLY O O N N 36 GLY OXT O N N 37 GLY H H N N 38 GLY H2 H N N 39 GLY HA2 H N N 40 GLY HA3 H N N 41 GLY HXT H N N 42 HIS N N N N 43 HIS CA C N S 44 HIS C C N N 45 HIS O O N N 46 HIS CB C N N 47 HIS CG C Y N 48 HIS ND1 N Y N 49 HIS CD2 C Y N 50 HIS CE1 C Y N 51 HIS NE2 N Y N 52 HIS OXT O N N 53 HIS H H N N 54 HIS H2 H N N 55 HIS HA H N N 56 HIS HB2 H N N 57 HIS HB3 H N N 58 HIS HD1 H N N 59 HIS HD2 H N N 60 HIS HE1 H N N 61 HIS HE2 H N N 62 HIS HXT H N N 63 ILE N N N N 64 ILE CA C N S 65 ILE C C N N 66 ILE O O N N 67 ILE CB C N S 68 ILE CG1 C N N 69 ILE CG2 C N N 70 ILE CD1 C N N 71 ILE OXT O N N 72 ILE H H N N 73 ILE H2 H N N 74 ILE HA H N N 75 ILE HB H N N 76 ILE HG12 H N N 77 ILE HG13 H N N 78 ILE HG21 H N N 79 ILE HG22 H N N 80 ILE HG23 H N N 81 ILE HD11 H N N 82 ILE HD12 H N N 83 ILE HD13 H N N 84 ILE HXT H N N 85 PHE N N N N 86 PHE CA C N S 87 PHE C C N N 88 PHE O O N N 89 PHE CB C N N 90 PHE CG C Y N 91 PHE CD1 C Y N 92 PHE CD2 C Y N 93 PHE CE1 C Y N 94 PHE CE2 C Y N 95 PHE CZ C Y N 96 PHE OXT O N N 97 PHE H H N N 98 PHE H2 H N N 99 PHE HA H N N 100 PHE HB2 H N N 101 PHE HB3 H N N 102 PHE HD1 H N N 103 PHE HD2 H N N 104 PHE HE1 H N N 105 PHE HE2 H N N 106 PHE HZ H N N 107 PHE HXT H N N 108 PRO N N N N 109 PRO CA C N S 110 PRO C C N N 111 PRO O O N N 112 PRO CB C N N 113 PRO CG C N N 114 PRO CD C N N 115 PRO OXT O N N 116 PRO H H N N 117 PRO HA H N N 118 PRO HB2 H N N 119 PRO HB3 H N N 120 PRO HG2 H N N 121 PRO HG3 H N N 122 PRO HD2 H N N 123 PRO HD3 H N N 124 PRO HXT H N N 125 SER N N N N 126 SER CA C N S 127 SER C C N N 128 SER O O N N 129 SER CB C N N 130 SER OG O N N 131 SER OXT O N N 132 SER H H N N 133 SER H2 H N N 134 SER HA H N N 135 SER HB2 H N N 136 SER HB3 H N N 137 SER HG H N N 138 SER HXT H N N 139 THR N N N N 140 THR CA C N S 141 THR C C N N 142 THR O O N N 143 THR CB C N R 144 THR OG1 O N N 145 THR CG2 C N N 146 THR OXT O N N 147 THR H H N N 148 THR H2 H N N 149 THR HA H N N 150 THR HB H N N 151 THR HG1 H N N 152 THR HG21 H N N 153 THR HG22 H N N 154 THR HG23 H N N 155 THR HXT H N N 156 TYR N N N N 157 TYR CA C N S 158 TYR C C N N 159 TYR O O N N 160 TYR CB C N N 161 TYR CG C Y N 162 TYR CD1 C Y N 163 TYR CD2 C Y N 164 TYR CE1 C Y N 165 TYR CE2 C Y N 166 TYR CZ C Y N 167 TYR OH O N N 168 TYR OXT O N N 169 TYR H H N N 170 TYR H2 H N N 171 TYR HA H N N 172 TYR HB2 H N N 173 TYR HB3 H N N 174 TYR HD1 H N N 175 TYR HD2 H N N 176 TYR HE1 H N N 177 TYR HE2 H N N 178 TYR HH H N N 179 TYR HXT H N N 180 VAL N N N N 181 VAL CA C N S 182 VAL C C N N 183 VAL O O N N 184 VAL CB C N N 185 VAL CG1 C N N 186 VAL CG2 C N N 187 VAL OXT O N N 188 VAL H H N N 189 VAL H2 H N N 190 VAL HA H N N 191 VAL HB H N N 192 VAL HG11 H N N 193 VAL HG12 H N N 194 VAL HG13 H N N 195 VAL HG21 H N N 196 VAL HG22 H N N 197 VAL HG23 H N N 198 VAL HXT H N N 199 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 GLU N CA sing N N 13 GLU N H sing N N 14 GLU N H2 sing N N 15 GLU CA C sing N N 16 GLU CA CB sing N N 17 GLU CA HA sing N N 18 GLU C O doub N N 19 GLU C OXT sing N N 20 GLU CB CG sing N N 21 GLU CB HB2 sing N N 22 GLU CB HB3 sing N N 23 GLU CG CD sing N N 24 GLU CG HG2 sing N N 25 GLU CG HG3 sing N N 26 GLU CD OE1 doub N N 27 GLU CD OE2 sing N N 28 GLU OE2 HE2 sing N N 29 GLU OXT HXT sing N N 30 GLY N CA sing N N 31 GLY N H sing N N 32 GLY N H2 sing N N 33 GLY CA C sing N N 34 GLY CA HA2 sing N N 35 GLY CA HA3 sing N N 36 GLY C O doub N N 37 GLY C OXT sing N N 38 GLY OXT HXT sing N N 39 HIS N CA sing N N 40 HIS N H sing N N 41 HIS N H2 sing N N 42 HIS CA C sing N N 43 HIS CA CB sing N N 44 HIS CA HA sing N N 45 HIS C O doub N N 46 HIS C OXT sing N N 47 HIS CB CG sing N N 48 HIS CB HB2 sing N N 49 HIS CB HB3 sing N N 50 HIS CG ND1 sing Y N 51 HIS CG CD2 doub Y N 52 HIS ND1 CE1 doub Y N 53 HIS ND1 HD1 sing N N 54 HIS CD2 NE2 sing Y N 55 HIS CD2 HD2 sing N N 56 HIS CE1 NE2 sing Y N 57 HIS CE1 HE1 sing N N 58 HIS NE2 HE2 sing N N 59 HIS OXT HXT sing N N 60 ILE N CA sing N N 61 ILE N H sing N N 62 ILE N H2 sing N N 63 ILE CA C sing N N 64 ILE CA CB sing N N 65 ILE CA HA sing N N 66 ILE C O doub N N 67 ILE C OXT sing N N 68 ILE CB CG1 sing N N 69 ILE CB CG2 sing N N 70 ILE CB HB sing N N 71 ILE CG1 CD1 sing N N 72 ILE CG1 HG12 sing N N 73 ILE CG1 HG13 sing N N 74 ILE CG2 HG21 sing N N 75 ILE CG2 HG22 sing N N 76 ILE CG2 HG23 sing N N 77 ILE CD1 HD11 sing N N 78 ILE CD1 HD12 sing N N 79 ILE CD1 HD13 sing N N 80 ILE OXT HXT sing N N 81 PHE N CA sing N N 82 PHE N H sing N N 83 PHE N H2 sing N N 84 PHE CA C sing N N 85 PHE CA CB sing N N 86 PHE CA HA sing N N 87 PHE C O doub N N 88 PHE C OXT sing N N 89 PHE CB CG sing N N 90 PHE CB HB2 sing N N 91 PHE CB HB3 sing N N 92 PHE CG CD1 doub Y N 93 PHE CG CD2 sing Y N 94 PHE CD1 CE1 sing Y N 95 PHE CD1 HD1 sing N N 96 PHE CD2 CE2 doub Y N 97 PHE CD2 HD2 sing N N 98 PHE CE1 CZ doub Y N 99 PHE CE1 HE1 sing N N 100 PHE CE2 CZ sing Y N 101 PHE CE2 HE2 sing N N 102 PHE CZ HZ sing N N 103 PHE OXT HXT sing N N 104 PRO N CA sing N N 105 PRO N CD sing N N 106 PRO N H sing N N 107 PRO CA C sing N N 108 PRO CA CB sing N N 109 PRO CA HA sing N N 110 PRO C O doub N N 111 PRO C OXT sing N N 112 PRO CB CG sing N N 113 PRO CB HB2 sing N N 114 PRO CB HB3 sing N N 115 PRO CG CD sing N N 116 PRO CG HG2 sing N N 117 PRO CG HG3 sing N N 118 PRO CD HD2 sing N N 119 PRO CD HD3 sing N N 120 PRO OXT HXT sing N N 121 SER N CA sing N N 122 SER N H sing N N 123 SER N H2 sing N N 124 SER CA C sing N N 125 SER CA CB sing N N 126 SER CA HA sing N N 127 SER C O doub N N 128 SER C OXT sing N N 129 SER CB OG sing N N 130 SER CB HB2 sing N N 131 SER CB HB3 sing N N 132 SER OG HG sing N N 133 SER OXT HXT sing N N 134 THR N CA sing N N 135 THR N H sing N N 136 THR N H2 sing N N 137 THR CA C sing N N 138 THR CA CB sing N N 139 THR CA HA sing N N 140 THR C O doub N N 141 THR C OXT sing N N 142 THR CB OG1 sing N N 143 THR CB CG2 sing N N 144 THR CB HB sing N N 145 THR OG1 HG1 sing N N 146 THR CG2 HG21 sing N N 147 THR CG2 HG22 sing N N 148 THR CG2 HG23 sing N N 149 THR OXT HXT sing N N 150 TYR N CA sing N N 151 TYR N H sing N N 152 TYR N H2 sing N N 153 TYR CA C sing N N 154 TYR CA CB sing N N 155 TYR CA HA sing N N 156 TYR C O doub N N 157 TYR C OXT sing N N 158 TYR CB CG sing N N 159 TYR CB HB2 sing N N 160 TYR CB HB3 sing N N 161 TYR CG CD1 doub Y N 162 TYR CG CD2 sing Y N 163 TYR CD1 CE1 sing Y N 164 TYR CD1 HD1 sing N N 165 TYR CD2 CE2 doub Y N 166 TYR CD2 HD2 sing N N 167 TYR CE1 CZ doub Y N 168 TYR CE1 HE1 sing N N 169 TYR CE2 CZ sing Y N 170 TYR CE2 HE2 sing N N 171 TYR CZ OH sing N N 172 TYR OH HH sing N N 173 TYR OXT HXT sing N N 174 VAL N CA sing N N 175 VAL N H sing N N 176 VAL N H2 sing N N 177 VAL CA C sing N N 178 VAL CA CB sing N N 179 VAL CA HA sing N N 180 VAL C O doub N N 181 VAL C OXT sing N N 182 VAL CB CG1 sing N N 183 VAL CB CG2 sing N N 184 VAL CB HB sing N N 185 VAL CG1 HG11 sing N N 186 VAL CG1 HG12 sing N N 187 VAL CG1 HG13 sing N N 188 VAL CG2 HG21 sing N N 189 VAL CG2 HG22 sing N N 190 VAL CG2 HG23 sing N N 191 VAL OXT HXT sing N N 192 # loop_ _pdbx_nmr_spectrometer.spectrometer_id _pdbx_nmr_spectrometer.type _pdbx_nmr_spectrometer.manufacturer _pdbx_nmr_spectrometer.model _pdbx_nmr_spectrometer.field_strength 1 ? Varian INOVA 500 2 ? Varian INOVA 600 # _atom_sites.entry_id 1PP5 _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_