TB Genome Annotation Portal

Rv1247c (relB)

Amino Acid Sequence

MAVVPLGEVRNRLSEYVAEVELTHERITITRHGHPAAVLISADDLASIEETLEVLRTPGASEAIREGLADVAAGRFVSNDEIRNRYTAR
(Nucleotide sequence available on KEGG)

Additional Information
















Analysis of Positive Selection in Clinical Isolates
*new*






Moldova (2,057)global set (5,195)

under significant positive selection?NONO

omega peak height (95%CI lower bound)0.91 (0.05)1.28 (0.44)

codons under selection

omega plots

genetic variants*linklink

statistics at each codonlinklink



* example format for variants: "D27 (GAC): D27H (CAC,11)" means "Asp27 (native codon GAC) mutated to His (codon CAC) in 11 isolates"











    ESSENTIALITY 

    







    



MtbTnDB - interactive tool for exploring a database of published TnSeq datasets for Mtb


TnSeqCorr - genes with correlated TnSeq profiles across ~100 conditions

Rv1247c/relB,
gene len: 269 bp, num TA sites: 6



conditiondatasetcallmediummethodnotes

in-vitroDeJesus 2017 mBionon-essential7H9HMMfully saturated, 14 TnSeq libraries combined

in-vitroSassetti 2003 Mol Micronon-essential 7H9TRASHessential if hybridization ratio<0.2

in-vivo (mice)Sassetti 2003 PNASnon-essential BL6 miceTRASHessential if hybridization ratio<0.4, min over 4 timepoints (1-8 weeks)

in-vitro (glycerol)Griffin 2011 PPathnon-essentialM9 minimal+glycerolGumbel2 replicates; Padj<0.05

in-vitro (cholesterol)Griffin 2011 PPathnon-essentialM9 minimal+cholesterolGumbel3 replicates; Padj<0.05

differentially essential in cholesterol Griffin 2011 PPathNO (LFC=0.83)cholesterol vs glycerolresampling-SRYES if Padj<0.05, else not significant; LFC<0 means less insertions/more essential in cholesterol

in-vitroSmith 2022 eLifenon-essential7H9HMM6 replicates (raw data in Subramaniam 2017, PMID 31752678)

in-vivo (mice)Smith 2022 eLifenon-essentialBL6 miceHMM6 replicates (raw data in Subramaniam 2017, PMID 31752678)

differentially essential in miceSmith 2022 eLifeNO (LFC=-0.086)in-vivo vs in-vitroZINBYES if Padj<0.05, else not significant; LFC<0 means less insertions/more essential in mice

in-vitro (minimal)Minato 2019 mSysnon-essentialminimal mediumHMM

in-vitro (YM rich medium)Minato 2019 mSysnon-essentialYM rich mediumHMM7H9 supplemented with ~20 metabolites (amino acids, cofactors)

differentially essential in YM rich mediumMinato 2019 mSysNO (LFC=0.94)YM rich vs minimal mediumresampling







    












 





    TnSeq Data    No data currently available.

    




    



        
  •  No TnSeq data currently available for this Target.



















    RNASeq Data   No data currently available.

    





    



        
  •  No RNA-Seq data currently available for this Target.




















    Metabolomic Profiles    No data currently available.

    





    




        
  •  No Metabolomic data currently available for this Target.




















    Proteomic Data   No data currently available. 

    






    



        
  •  No Proteomic data currently available for this Target.


















 





    Regulatory Relationships from Systems Biology 

    




    






                
  • BioCyc


    Gene interactions based on ChIPSeq and Transcription Factor Over-Expression (TFOE) (Systems Biology)
    

    NOTE: 
    Green edges represent the connected genes being classified as differentially essential as a result of the middle gene being knocked out. These interactions are inferred based on RNASeq.




    Interactions based on ChIPSeq data
    

    
    

    
    
    

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    Interactions based on ChIPSeq data (Minch et al. 2014)
    

      

    
    • Binds To:
      
    
        

            
      •  No bindings to other targets were found.

    
      
    
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    • Bound By:
      
    
    
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    Interactions based on TFOE data (Rustad et al. 2014)
    






      
    
    • Upregulates:
      
    
        

        
      •  Does not upregulate other genes.

    
      

    
    • Upregulated by:
      
    
        

        
      •  Not upregulated by other genes.

    
      


    
    • Downregulates:
      
    
        

        
      •  Does not downregulate other genes.

    
      

    
    • Downregulated by:
      
    


    








    

    






    


    


    


    TBCAP
    
Tubculosis Community Annotation Project (    Slayden et al., 2013)
    
Rv1247c (relB)

    

    PropertyValueCreatorEvidencePMIDComment
    
InteractionInhibits Rv1246caparna.vchalamIPIAffinity purification (Physical interaction)
    ZL. Shang, L. Bao et al. [Protein-protein interaction between hypothetical protein Rv1246c and Rv1247c of Mycobacterium tuberculosis] Sichuan Da Xue Xue Bao Yi Xue Ban 2007
    
InteractionInhibits Rv1246caparna.vchalamIPIAffinity purification (Physical interaction)
    SB. Korch, H. Contreras et al. Three Mycobacterium tuberculosis Rel toxin:antitoxin modules inhibit mycobacterial growth and are expressed in human-infected macrophages. J. Bacteriol. 2008
    
Citation[Protein-protein interaction between hypothetical protein Rv1246c and Rv1247c of Mycobacterium tuberculosis] ZL. Shang, L. Bao et al. Sichuan Da Xue Xue Bao Yi Xue Ban 2007aparna.vchalamIPI17441326Affinity purification (Physical interaction)
    
InteractionInhibits Rv1246caparna.vchalamIPIAffinity purification (Physical interaction)
    ZL. Shang, L. Bao et al. [Protein-protein interaction between hypothetical protein Rv1246c and Rv1247c of Mycobacterium tuberculosis] Sichuan Da Xue Xue Bao Yi Xue Ban 2007
    
CitationThree Mycobacterium tuberculosis Rel toxin:antitoxin modules inhibit mycobacterial growth and are expressed in human-infected macrophages. SB. Korch, H. Contreras et al. J. Bacteriol. 2008aparna.vchalamIPI19114484Affinity purification (Physical interaction)
    
InteractionInhibits Rv1246caparna.vchalamIPIAffinity purification (Physical interaction)
    SB. Korch, H. Contreras et al. Three Mycobacterium tuberculosis Rel toxin:antitoxin modules inhibit mycobacterial growth and are expressed in human-infected macrophages. J. Bacteriol. 2008
    
SymbolrelBjlewEach pair shows interaction by two-hybrid and GST pulldown. F and B each interact with E, G, K, and itself.
    authors,M. Yang,C. Gao,Y. Wang,H. Zhang,ZG. He Characterization of the interaction and cross-regulation of three Mycobacterium tuberculosis RelBE modules. PLoS ONE 2010
    
CitationCharacterization of the interaction and cross-regulation of three Mycobacterium tuberculosis RelBE modules. authors,M. Yang,C. Gao,Y. Wang,H. Zhang,ZG. He PLoS ONE 2010jlew20498855Each pair shows interaction by two-hybrid and GST pulldown. F and B each interact with E, G, K, and itself.
    
SymbolrelB1jlewEach toxin individually arrests growth of both M. tuberculosis and E. coli, an effect that is neutralized by coexpression of the cognate antitoxin.
    authors,R. Singh,CE. Barry,HI. Boshoff The three RelE homologs of Mycobacterium tuberculosis have individual, drug-specific effects on bacterial antibiotic tolerance. J. Bacteriol. 2010
    
CitationThe three RelE homologs of Mycobacterium tuberculosis have individual, drug-specific effects on bacterial antibiotic tolerance. authors,R. Singh,CE. Barry,HI. Boshoff J. Bacteriol. 2010jlew20061486Each toxin individually arrests growth of both M. tuberculosis and E. coli, an effect that is neutralized by coexpression of the cognate antitoxin.
    
SymbolrelBjlewrelB and relE interact directly. Overexpression of Mtb relE, relG and relK induces growth arrest in Msmeg; reversed by expression of relB, relF and relJ
    SB. Korch, H. Contreras et al. Three Mycobacterium tuberculosis Rel toxin:antitoxin modules inhibit mycobacterial growth and are expressed in human-infected macrophages. J. Bacteriol. 2008
    
CitationThree Mycobacterium tuberculosis Rel toxin:antitoxin modules inhibit mycobacterial growth and are expressed in human-infected macrophages. SB. Korch, H. Contreras et al. J. Bacteriol. 2008jlew19114484relB and relE interact directly. Overexpression of Mtb relE, relG and relK induces growth arrest in Msmeg; reversed by expression of relB, relF and relJ
    
SymbolRelB1jlewWe report the heterologous toxicity of these TA loci in Escherichia coli and show that only a few of the M. tuberculosis-encoded toxins can inhibit E. coli growth and have a killing effect. This killing effect can be suppressed by coexpression of the cognate antitoxin.
    authors,A. Gupta Killing activity and rescue function of genome-wide toxin-antitoxin loci of Mycobacterium tuberculosis. FEMS Microbiol. Lett. 2009
    
CitationKilling activity and rescue function of genome-wide toxin-antitoxin loci of Mycobacterium tuberculosis. authors,A. Gupta FEMS Microbiol. Lett. 2009jlew19016878We report the heterologous toxicity of these TA loci in Escherichia coli and show that only a few of the M. tuberculosis-encoded toxins can inhibit E. coli growth and have a killing effect. This killing effect can be suppressed by coexpression of the cognate antitoxin.
    
Otherstrand:+rslaydenMTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268
    
Symbolrel BE-1rslaydenZ86089
    
Otherstart:1388975rslaydenZ86089
    
Otherstop:1389244rslaydenZ86089
    
Otherstrand:+rslaydenZ86089
    
Symbolrel BE-1rslaydenP95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293
    
Otherstart:1388975rslaydenP95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293
    
Otherstop:1389244rslaydenP95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293
    
Otherstrand:+rslaydenP95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293
    
Symbolrel BE-1rslaydenECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.
    
Otherstart:1388975rslaydenECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.
    
Otherstop:1389244rslaydenECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.
    
Otherstrand:+rslaydenECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.
    
Symbolrel BE-1rslaydenConserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865
    
Otherstart:1388975rslaydenConserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865
    
Otherstop:1389244rslaydenConserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865
    
Otherstrand:+rslaydenConserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865
    
Symbolrel BE-1rslaydenMTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268
    
Otherstart:1388975rslaydenMTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268
    
Otherstop:1389244rslaydenMTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268
    

    


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