GPMDB00193OtherStrader MB, et ak,InstrumentNot AvailableNot availableEscherichia_coli_k_12_substr__dh10b, Escherichia_coli_k_12_substr__mg1655, Enterobacteria_phage_13a, Enterobacteria_phage_933w, Enterobacteria_phage_alpha3, Enterobacteria_phage_ba14, Enterobacteria_phage_bp_4795, Enterobacteria_phage_bz13, Enterobacteria_phage_cdti, Enterobacteria_phage_ecods1, Enterobacteria_phage_eps7, Enterobacteria_phage_epsilon15, Enterobacteria_phage_es18, Enterobacteria_phage_felix_01, Enterobacteria_phage_fels_2, Enterobacteria_phage_fi_sensu_lato, Enterobacteria_phage_g4_sensu_lato, Enterobacteria_phage_hk022, Enterobacteria_phage_hk620, Enterobacteria_phage_hk97, Enterobacteria_phage_i2_2, Enterobacteria_phage_id18_sensu_lato, Enterobacteria_phage_id2, Enterobacteria_phage_if1, Enterobacteria_phage_ike, Enterobacteria_phage_jk06, Enterobacteria_phage_js10, Enterobacteria_phage_js98, Enterobacteria_phage_jse, Enterobacteria_phage_k1e, Enterobacteria_phage_k1f, Enterobacteria_phage_k1_5, Enterobacteria_phage_lambda, Enterobacteria_phage_m13, Enterobacteria_phage_min27, Enterobacteria_phage_ms2, Enterobacteria_phage_mu, Enterobacteria_phage_n15, Enterobacteria_phage_n4, Enterobacteria_phage_p1, Enterobacteria_phage_p2, Enterobacteria_phage_p22, Enterobacteria_phage_p4, Enterobacteria_phage_phi1, Enterobacteria_phage_phieco32, Enterobacteria_phage_phiecom_gj1, Enterobacteria_phage_phip27, Enterobacteria_phage_phiv10, Enterobacteria_phage_phix174_sensu_lato, Enterobacteria_phage_prd1, Enterobacteria_phage_psp3, Enterobacteria_phage_rb14, Enterobacteria_phage_rb32, Enterobacteria_phage_rb43, Enterobacteria_phage_rb49, Enterobacteria_phage_rb51, Enterobacteria_phage_rb69, Enterobacteria_phage_rtp, Enterobacteria_phage_sf6, Enterobacteria_phage_sfv, Enterobacteria_phage_sp6, Enterobacteria_phage_ssl_2009a, Enterobacteria_phage_st104, Enterobacteria_phage_st64t, Enterobacteria_phage_st_1, Enterobacteria_phage_t1, Enterobacteria_phage_t3, Enterobacteria_phage_t4, Enterobacteria_phage_t5, Enterobacteria_phage_t7, Enterobacteria_phage_tls, Enterobacteria_phage_vt2_sakai, Enterobacteria_phage_wa13_sensu_lato, Enterobacteria_phage_wv8, Enterobacteria_phage_yyz_2008, Enterobacteriophage_qbetaNot 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mnum=GPM11210013346http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013345http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013344http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013343http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013342http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013341http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013340http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013480http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013460http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013461http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013462http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013463http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013464http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013465http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013466http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013467http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013468http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013469http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013359http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013358http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013357http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013356http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013355http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013354http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013353http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013352http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013351http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013350http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013450http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013451http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013452http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013453http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013454http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013455http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013456http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013457http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013458http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013459http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013329http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013328http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013327http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013326http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013325http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013324http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013323http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013322http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013321http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013320http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013440http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013441http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013442http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013443http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013444http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013445http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013446http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013447http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013448http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013449http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013339http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013337http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013336http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013335http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013334http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013333http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013332http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013331http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013330http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013430http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013431http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013432http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013433http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013434http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013435http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013436http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013437http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013438http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013439http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013309http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013308http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013307http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013306http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013305http://gpmdb.thegpm.org/~/dblist_gpmnum/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of Neurotoxicology, National Institute of Mental HealthNot availableGPMDBThe bacterial ribosomal protein S12 contains a universally conserved D88 residue on a loop region thought to be critically involved in translation due to its proximal location to the A site of the 30S subunit. While D88 mutants are lethal this residue has been found to be post-translationally modified to β-methylthioaspartic acid, a post-translational modification (PTM) identified in S12 orthologs from several phylogenetically distinct bacteria. In a previous report focused on characterizing this PTM, our results provided evidence that this conserved loop region might be involved in forming multiple proteins-protein interactions ( Strader , M. B. ; Costantino , N. ; Elkins , C. A. ; Chen , C. Y. ; Patel , I. ; Makusky , A. J. ; Choy , J. S. ; Court , D. L. ; Markey , S. P. ; Kowalak , J. A. A proteomic and transcriptomic approach reveals new insight into betamethylthiolation of Escherichia coli ribosomal protein S12. Mol. Cell. Proteomics 2011 , 10 , M110 005199 ). To follow-up on this study, the D88 containing loop was probed to identify candidate binders employing a two-step complementary affinity purification strategy. The first involved an endogenously expressed S12 protein containing a C-terminal tag for capturing S12 binding partners. The second strategy utilized a synthetic biotinylated peptide representing the D88 conserved loop region for capturing S12 loop interaction partners. Captured proteins from both approaches were detected by utilizing SDS-PAGE and one-dimensional liquid chromatography-tandem mass spectrometry. The results presented in this report revealed proteins that form direct interactions with the 30S subunit and elucidated which are likely to interact with S12. In addition, we provide evidence that two proteins involved in regulating ribosome and/or mRNA transcript levels under stress conditions, RNase R and Hfq, form direct interactions with the S12 conserved loop, suggesting that it is likely part of a protein binding interface.A coordinated proteomic approach for identifying proteins that interact with the E. coli ribosomal protein S12.Strader Michael Brad MB,Hervey William Judson WJ 4th,Costantino Nina N,Fujigaki Suwako S,Chen Cai Yun CY,Akal-Strader Ayca A,Ihunnah Chibueze A CA,Makusky Anthony J AJ,Court Donald L DL,Markey Sanford P SP,Kowalak Jeffrey A JA,Strader Michael Brad MB,Hervey William Judson WJ,Costantino Nina N,Fujigaki Suwako S,Chen Cai Yun CY,Akal-Strader Ayca A,Ihunnah Chibueze A CA,Makusky Anthony J AJ,Court Donald L DL,Markey Sanford P SP,Kowalak Jeffrey A JA,Strader Michael Brad MB, Hervey William Judson WJ, Costantino Nina N, Fujigaki Suwako S, Chen Cai Yun CY, Akal-Strader Ayca A, Ihunnah Chibueze A CA, Makusky Anthony J AJ, Court Donald L DL, Markey Sanford P SP, Kowalak Jeffrey A JAProtein Gene Products, Gene Products, Proteins, protein S12, Gene Proteins, polypeptide, Gene, proteins, Protein, ribosomal.liquid chromatography tandem mass spectroscopy, AW488255, artificial sequence, Slf, Somatomedin-C, D430049E23Rik, SLEV1, Gene, FPH2, electronic data file, A230106A15Rik, peptide, SDS, Hek6, LC-MSMS, Gene Products, Cek6, MOV34, synthetic genetic interaction (sensu inequality), ENSMUSG00000074119, ERP, Erp, study, Elkh, LCMSMS, HTR1DB, Rpn8, ligand, PTPSTEP, 5-HT-1D-beta, EK6, Tyrosine-protein kinase receptor EPH-2, somatomedin-C, SF, synthetic genetic interaction defined by inequality, 4733401P19Rik, Kitl, proteins, Sap-2, DEFCAP, Mast cell growth factor, Serotonin 1D beta receptor, 2.7.10.1, Neural-specific protein-tyrosine phosphatase, Solute carrier family 6 member 2, IGF1, 5-HT-1B, Etrp, KX, CIDED, Mechano growth factor, SLC6A5, NET1, s, LC-MS-MS., NAT1, Ptc1, MKS, NACA, Soluble KIT ligand, Sl, XKR1, HTR1D2, Serotonin receptor 1B, NET, Net, CLR17.1, LC-MS2, close to, IGF-I, data, ELK, Elk, VAMAS1, C130099E04Rik, steel factor, Neuronally-expressed EPH-related tyrosine kinase, hematopoietic growth factor KL, Proteins, EPH tyrosine kinase 2, LC-MS/MS, somatomedin, AI836084, artificial gene, SAP2, 9330129L11, synthetic DNA, sKITLG, near to, polypeptide, LC/MS/MS, Experiment, Norepinephrine transporter, DEFCAP-L|S, mechano growth factor, Protein, Ptch, 3.1.3.48, computer data file, synthetic, sequence, EPH-like kinase 6, X1k, NA, BBS13, S12, Igf-1, MES, Ptc, SHEP7, POC12, mast cell growth factor, Step, P40, Stem cell factor, SWDS, Shwachman-Bodian-Diamond syndrome, Striatum-enriched protein-tyrosine phosphatase, Shwachman syndrome, hEK6, MCLDS, STAT5, 5-HT1B, CGI-97, mes, 5-HT1DB, synthetic constructs, PP1044, primary structure of sequence macromolecule, Protein Gene Products, Gene Proteins, stem cell factor, SYNTHETIC CONSTRUCT sequences, KL-1, CARD7, EPHT2, STEP, approaches, Pancreatic insufficiency and bone marrow dysfunction, liquid chromatography-tandem mass spectroscopy, MGF, c-Kit ligand, vicinity of, NAC, KITLG, artificial, liquid chromatography tandem mass spectrometry, NALP1, SCF, ProteomesProtein Gene Products, Gene Products, Proteins, protein S12, Gene Proteins, polypeptide, Gene, proteins, Protein, ribosomal.protein S12, liquid chromatography tandem mass spectroscopy, protein translation, posttranslational modification, artificial sequence, mol, Gene, bacterium E3, Mypt1, ribosomal RNA, eubacteria, Plasma Protein Binding Capacity, LC-MS-MS, protein amino acid binding, peptide, SDS, Escherchia coli, LC-MSMS, Gene Products, Enteroinvasive Escherichia coli, Enterococcus coli, MOV34, synthetic genetic interaction (sensu inequality), placement, study, posttranslational amino acid modification, Eubacteria, LCMSMS, Bacteria <prokaryotes>, Escherichia/Shigella coli, HTR1DB, cell, Rpn8, ligand, 5-HT-1D-beta, PTPSTEP, E coli, synthetic genetic interaction defined by inequality, 4733401P19Rik, messenger RNA, proteins, posttranslational protein modification, Monera, E. coli, Serotonin 1D beta receptor, Eschericia coli, Enteroaggregative Escherichia coli, glycoprotein binding., template RNA, Neural-specific protein-tyrosine phosphatase, 5-HT-1B, Prokaryotae, s, Procaryotae, HTR1D2, Serotonin receptor 1B, Alkalescens-Dispar Group, M110, LC-MS2, close to, protein anabolism, bacteria, Bacterium coli, protein biosynthetic process, Proteins, LC-MS/MS, AI836084, artificial gene, MBSP, EAggEC, synthetic DNA, Enteroaggregative E. coli, INSDC_feature:misc_RNA, results, Cell, Binding, near to, polypeptide, Bacteria <prokaryote>, LC/MS/MS, Diffusely Adherent E. coli, Bacillus coli, Protein, bact-, 3.1.3.48, protein formation, sequence, synthetic, INSDC_feature:mRNA, protein biosynthesis, prokaryotes, relational spatial quality, S12, membrane bound ribosome, free ribosome, Ribosome, Diffusely Adherent Escherichia coli, PTM, protein_coding_transcript, distinct, Enteroinvasive E. coli, mRNA, Step, P40, not Bacteria Haeckel 1894, ribosomal, SWDS, Shwachman-Bodian-Diamond syndrome, Striatum-enriched protein-tyrosine phosphatase, Shwachman syndrome, 5-HT1B, CGI-97, 5-HT1DB, synthetic constructs, primary structure of sequence macromolecule, post-translational amino acid modification, Protein Gene Products, Gene Proteins, SYNTHETIC CONSTRUCT sequences, Bacterium coli commune, protein synthesis, STEP, post-translational modification, prokaryote, approaches, Pancreatic insufficiency and bone marrow dysfunction, liquid chromatography-tandem mass spectroscopy, vicinity of, artificial, liquid chromatography tandem mass spectrometry, location, Prokaryota1903http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210013346dbgap_ncbi~0patentfamilies~0rfam~0merops~0complex-portal~0uniprot~0wormbaseparasite~0embl-covid19~0reactome~0emdb~0wgs_masters~0ebiweb_resources~0opentargets_genetics~0biomodels_all~0ipd-mhc~0ebiweb_teams~0taxonomy~0genome_assembly~0sc-experiments~0ebiweb_people~0enzymeportal_enzymes~0ipd-nhkir~0cellosaurus~0pdbe~0chebi~0patentproteins~0interpro7~0uniref~0chembl~0pdbekb~0gpcrdb~0hgnc~0sc-genes~0intact~0rhea~0ebiweb_training~0alphafold~0imgt-hla~0patentnucleotides~0ensemblroot~0eva_studies~0non-coding~0europepmc~0pubmed~1identifiers_registry~0pdbechem~0hpa-covid19~0eva-variants-covid19~0biosamples~0gwas_catalog~0biotools~0tls_masters~0mesh~0coding~0sra~0opentargets~0efo~0embl-pathogen~0project~0human_diseases~0geo_datasets~0embl~0treefam~0uniparc~0ols~0dgva~0intenz~0go~0tsa_masters~0biosamples-covid19~0ebiweb_corporate~0omim~0lrg~0earlycause-molecular-sequences~0ipd-kir~0empiar~0rnacentral~0orcid_data_claims~0gpmdb~2lineage-covid19~0metagenomics~0pfam~0varsite~00.00.00.0058605798889574340.001.0falseA Coordinated Proteomic Approach for Identifying Proteins that Interact with the E. coli Ribosomal Protein S12.Data from PASSEL: [[https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/PASS_View?datasetPassword=IR4769n&identifier=PASS00136 PASS00136]]. Experiment: 1st exerimental NAc pQ MeS, data file: F571953.mgf. Data published as part of J Proteome Res. 2013 12:1289-99 . From the Abstract: {{i}} ... To follow-up on this study, the D88 containing loop was probed to identify candidate binders employing a two-step complementary affinity purification strategy. The first involved an endogenously expressed S12 protein containing a C-terminal tag for capturing S12 binding partners. The second strategy utilized a synthetic biotinylated peptide representing the D88 conserved loop region for capturing S12 loop interaction partners. Captured proteins from both approaches were detected by utilizing SDS-PAGE and one-dimensional liquid chromatography-tandem mass spectrometry. ...{{/i}}2013-03-28GPM1121001334623305560