TB Genome Annotation Portal

Rv3659c (-)

Amino Acid Sequence

MLGDTEVLANLRVLQTELTGAGILEPLLSADGTTDVLVTAPDSVWVDDGNGLRRSQIRFADESAVRRLAQRLALAAGRRLDDAQPWVDGQLTGIGVGGFA
VRLHAVLPPVATQGTCLSLRVLRPATQDLAALAAAGAIDPAAAALVADIVTARLAFLVCGGTGAGKTTLLAAMLGAVSPDERIVCVEDAAELAPRHPHLV
KLVARRANVEGIGEVTVRQLVRQALRMRPDRIVVGEVRGAEVVDLLAALNTGHEGGAGTVHANNPGEVPARMEALGALGGLDRAALHSQLAAAVQVLLHV
ARDRAGRRRLAEIAVLRQAEGRVQAVTVWHADRGMSDDAAALHDLLRSRASA
(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?NOYES
omega peak height (95%CI lower bound)1.46 (0.21)2.3 (1.16)
codons under selection317, 318, 319, 320, 321, 322, 323, 324, 325, 326, 327, 328, 329, 330
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

Rv3659c/-, gene len: 1058 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=0.25)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=0.342)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, vitamins)
differentially essential in YM rich mediumMinato 2019 mSysNO (LFC=-0.48)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

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

    • Binds To:

      • No bindings to other targets were found.
    • Bound By:

      • No bindings to other targets were found.

    Interactions based on TFOE data (Rustad et al. 2014)



    TBCAP

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

    Rv3659c (-)

    PropertyValueCreatorEvidencePMIDComment
    InteractionActivates Rv3658cshivikgargIMPOperon (Functional linkage)
    authors,PJ. Christie,K. Atmakuri,V. Krishnamoorthy,S. Jakubowski,E. Cascales Biogenesis, architecture, and function of bacterial type IV secretion systems. Annu. Rev. Microbiol. 2005
    InteractionActivates Rv3656cshivikgargIMPOperon (Functional linkage)
    L. Danelishvili, Y. Yamazaki et al. Secreted Mycobacterium tuberculosis Rv3654c and Rv3655c proteins participate in the suppression of macrophage apoptosis. PLoS ONE 2010
    InteractionActivates Rv3657cshivikgargIMPOperon (Functional linkage)
    L. Danelishvili, Y. Yamazaki et al. Secreted Mycobacterium tuberculosis Rv3654c and Rv3655c proteins participate in the suppression of macrophage apoptosis. PLoS ONE 2010
    InteractionActivates Rv3658cshivikgargIMPOperon (Functional linkage)
    L. Danelishvili, Y. Yamazaki et al. Secreted Mycobacterium tuberculosis Rv3654c and Rv3655c proteins participate in the suppression of macrophage apoptosis. PLoS ONE 2010
    CitationBiogenesis, architecture, and function of bacterial type IV secretion systems. authors,PJ. Christie,K. Atmakuri,V. Krishnamoorthy,S. Jakubowski,E. Cascales Annu. Rev. Microbiol. 2005shivikgargIMP16153176Operon (Functional linkage)
    InteractionActivates Rv3654cshivikgargIMPOperon (Functional linkage)
    authors,PJ. Christie,K. Atmakuri,V. Krishnamoorthy,S. Jakubowski,E. Cascales Biogenesis, architecture, and function of bacterial type IV secretion systems. Annu. Rev. Microbiol. 2005
    InteractionActivates Rv3655cshivikgargIMPOperon (Functional linkage)
    authors,PJ. Christie,K. Atmakuri,V. Krishnamoorthy,S. Jakubowski,E. Cascales Biogenesis, architecture, and function of bacterial type IV secretion systems. Annu. Rev. Microbiol. 2005
    InteractionActivates Rv3656cshivikgargIMPOperon (Functional linkage)
    authors,PJ. Christie,K. Atmakuri,V. Krishnamoorthy,S. Jakubowski,E. Cascales Biogenesis, architecture, and function of bacterial type IV secretion systems. Annu. Rev. Microbiol. 2005
    InteractionActivates Rv3657cshivikgargIMPOperon (Functional linkage)
    authors,PJ. Christie,K. Atmakuri,V. Krishnamoorthy,S. Jakubowski,E. Cascales Biogenesis, architecture, and function of bacterial type IV secretion systems. Annu. Rev. Microbiol. 2005
    CitationSecreted Mycobacterium tuberculosis Rv3654c and Rv3655c proteins participate in the suppression of macrophage apoptosis. L. Danelishvili, Y. Yamazaki et al. PLoS ONE 2010shivikgargIMP20454556Operon (Functional linkage)
    InteractionActivates Rv3654cshivikgargIMPOperon (Functional linkage)
    L. Danelishvili, Y. Yamazaki et al. Secreted Mycobacterium tuberculosis Rv3654c and Rv3655c proteins participate in the suppression of macrophage apoptosis. PLoS ONE 2010
    InteractionActivates Rv3655cshivikgargIMPOperon (Functional linkage)
    L. Danelishvili, Y. Yamazaki et al. Secreted Mycobacterium tuberculosis Rv3654c and Rv3655c proteins participate in the suppression of macrophage apoptosis. PLoS ONE 2010
    InteractionRegulatedBy Rv0757yamir.morenoIEPMicroarrays. mRNA levels of regulated element measured and compared between wild-type and trans-element mutation (knockout, over expression etc.) performed by using microarray (or macroarray) experiments..
    SB. Walters, E. Dubnau et al. The Mycobacterium tuberculosis PhoPR two-component system regulates genes essential for virulence and complex lipid biosynthesis. Mol. Microbiol. 2006

    Comments