Rv0302 (-)

Current annotations:
- TBCAP: (community-based annotations - see table at bottom of page)
- TBDB: transcriptional regulator tetR/acrR-family
- REFSEQ: TetR/ACRR family transcriptional regulator
- PATRIC: TetR/ACRR family transcriptional regulator
- TUBERCULIST: Probable transcriptional regulatory protein (probably TetR/AcrR-family)
- NCBI: Probable transcriptional regulatory protein (probably TetR/AcrR-family)
- updated information (H37Rv4):
  - gene name: -
  - function:
  - reference:
Type: Not Target
Start: 364605
End: 365237
Operon:

Trans-membrane region:
Role: I.J.1 - Repressors/activators
GO terms:
- GO:0006355 - regulation of transcription, DNA-templated (Uniprot)
- GO:0005829 - cytosol (Uniprot)
- GO:0003700 - DNA binding transcription factor activity (Uniprot)
- GO:0003677 - DNA binding (Uniprot)
- GO:0000976 - transcription regulatory region sequence-specific DNA binding (Uniprot)
Reaction(s) (based on iSM810 metabolic model):
Gene Expression Profile (Transcriptional Responses to Drugs; Boshoff et al, 2004)
Gene Modules extracted from cluster analysis of 249 transcriptomic datasets using ICA
Orthologs among selected mycobacteria
Protein structure:
Search for Homologs in PDB

Top 10 Homologs in PDB (as of Nov 2020):

PDB	aa ident	species	PDB title
6A4W	99%	Mycobacterium tuberculosis	AcrR from Mycobacterium tuberculosis
6A4L	99%	Mycobacterium tuberculosis	AcrR from Mycobacterium tuberculosis
5D19	99%	Mycobacterium tuberculosis	Crystal structure of Mycobacterium tuberculosis Rv0302, form II
5D18	99%	Mycobacterium tuberculosis	Crystal structure of Mycobacterium tuberculosis Rv0302, form I
3VPR	45%	Thermus thermophilus	Crystal Structure of a TetR Family Transcriptional Regulator PfmR from Thermus thermophilus HB8
2IBD	42%	Rhodococcus sp.	Crystal structure of Probable transcriptional regulatory protein RHA5900
6EN8	41%	Sulfolobus acidocaldarius	SaFadR in complex with dsDNA
6EL2	41%	Sulfolobus acidocaldarius	SaFadR_lauroyl_CoA complex
5E57	41%	Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)	Crystal structure of Mycobacterium smegmatis AmtR
3CCY	40%	Bordetella parapertussis 12822	Crystal structure of a TetR-family transcriptional regulator from Bordetella parapertussis 12822

Links to additional information on Rv0302:
- TBDB (updated)
- Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
- UniProt
- AlphaFold model
- Vulnerability = 0.909 (from Jeremy Rock's lab)
- KEGG - nucleotide and amino acid sequences of gene
- Mycobrowser
- PATRIC
- BioCyc
- Systems Biology

Amino Acid Sequence

VGVPAKKKQQQGERSRESILDATERLMATKGYAATSISDIRDACGLAPSSIYWHFGSKEGVLAAMMERGAQRFFAAIPTWDEAHGPVEQRSERQLTELVS
LQSQHPDFLRLFYLLSMERSQDPAVAAVVRRVRNTAIARFRDSITHLLPSDIPPGKADLVVAELTAFAVALSDGVYFAGHLEPDTTDVERMYRRLRQALE
ALIPVLLEET

(Nucleotide sequence available on KEGG)

Additional Information

ESSENTIALITY

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

TnSeqCorr - genes with correlated TnSeq profiles across >100 conditions *new*

Classification	Condition	Strain	Method	Reference	Notes
Non-Essential	Sodium Oleate	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 2 non-insertions in a row out of 8 sites
Non-Essential	Lignoceric Acid	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 1 non-insertions in a row out of 8 sites
Non-Essential	Phosphatidylcholine	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 1 non-insertions in a row out of 8 sites
Non-Essential	minimal media + 0.1% glycerol	H37RvMA	Gumbel	Griffin et al. (2011)	Probability of Essentiality: 0.000000; 1 non-insertions in a row out of 8 sites
Non-Essential	minimal media + 0.01% cholesterol	H37RvMA	Gumbel	Griffin et al. (2011)	Probability of Essentiality: 0.000000; 1 non-insertions in a row out of 8 sites
Non-Essential	7H10-glycerol	H37RvMA	TraSH	Sassetti et al. (2003a)
Non-Essential	C57BL/6J mice (8 weeks)	H37RvMA	TraSH	Sassetti et al. (2003b)	Hybridization Ratio: 1.05
Non-Essential	7H09/7H10 + rich media	H37RvMA	MotifHMM	DeJesus et al. (2017)	Fully saturated (14 reps).

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:
- Rv0040c (mtc28) (Direct binding)
- Rv0041 (leuS) (Direct binding)
- Rv0093c (-) (Direct binding)
- Rv0119 (fadD7) (Direct binding)
- Rv0170 (mce1B) (Direct binding)
- Rv0203 (-) (Direct binding)
- Rv0208c (-) (Direct binding)
- Rv0209 (-) (Direct binding)
- Rv0213c (-) (Direct binding)
- Rv0214 (fadD4) (Direct binding)
- Rv0261c (narK3) (Direct binding)
- Rv0302 (-) (Direct binding)
- Rv0373c (-) (Direct binding)
- Rv0433 (-) (Direct binding)
- Rv0446c (-) (Direct binding)
- Rv0447c (ufaA1) (Direct binding)
- Rv0555 (menD) (Direct binding)
- Rv0600c (-) (Direct binding)
- Rv0625c (-) (Direct binding)
- Rv0695 (-) (Direct binding)
- Rv0712 (-) (Direct binding)
- Rv0716 (rplE) (Direct binding)
- Rv0722 (rpmD) (Direct binding)
- Rv0756c (-) (Direct binding)
- Rv0757 (phoP) (Direct binding)
- Rv0789c (-) (Direct binding)
- Rv0807 (-) (Direct binding)
- Rv1032c (trcS) (Direct binding)
- Rv1176c (-) (Direct binding)
- Rv1205 (-) (Direct binding)
- Rv1206 (fadD6) (Direct binding)
- Rv1314c (-) (Direct binding)
- Rv1315 (murA) (Direct binding)
- Rv1327c (glgE) (Direct binding)
- Rv1328 (glgP) (Direct binding)
- Rv1336 (cysM) (Direct binding)
- Rv1337 (-) (Direct binding)
- Rv1357c (-) (Direct binding)
- Rv1363c (-) (Direct binding)
- Rv1409 (ribG) (Direct binding)
- Rv1421 (-) (Direct binding)
- Rv1511 (gmdA) (Direct binding)
- Rv1683 (-) (Direct binding)
- Rv1684 (-) (Direct binding)
- Rv1762c (-) (Direct binding)
- Rv1832 (gcvB) (Direct binding)
- Rv1850 (ureC) (Direct binding)
- Rv1908c (katG) (Direct binding)
- Rv1921c (lppF) (Direct binding)
- Rv1985c (-) (Direct binding)
- Rv1989c (-) (Direct binding)
- Rv2005c (-) (Direct binding)
- Rv2006 (otsB1) (Direct binding)
- Rv2101 (helZ) (Direct binding)
- Rv2107 (PE22) (Direct binding)
- Rv2132 (-) (Direct binding)
- Rv2148c (-) (Direct binding)
- Rv2216 (-) (Direct binding)
- Rv2225 (panB) (Direct binding)
- Rv2246 (kasB) (Direct binding)
- Rv2296 (-) (Direct binding)
- Rv2391 (sirA) (Direct binding)
- Rv2410c (-) (Direct binding)
- Rv2421c (nadD) (Direct binding)
- Rv2524c (fas) (Direct binding)
- Rv2569c (-) (Direct binding)
- Rv2570 (-) (Direct binding)
- Rv2690c (-) (Direct binding)
- Rv2691 (ceoB) (Direct binding)
- Rv2728c (-) (Direct binding)
- Rv2742c (-) (Direct binding)
- Rv2876 (-) (Direct binding)
- Rv2890c (rpsB) (Direct binding)
- Rv2909c (rpsP) (Direct binding)
- Rv2951c (-) (Direct binding)
- Rv2952 (-) (Direct binding)
- Rv3047c (-) (Direct binding)
- Rv3051c (nrdE) (Direct binding)
- Rv3099c (-) (Direct binding)
- Rv3101c (ftsX) (Direct binding)
- Rv3172c (-) (Direct binding)
- Rv3179 (-) (Direct binding)
- Rv3239c (-) (Direct binding)
- Rv3290c (lat) (Direct binding)
- Rv3301c (phoY1) (Direct binding)
- Rv3350c (PPE56) (Direct binding)
- Rv3411c (guaB2) (Direct binding)
- Rv3479 (-) (Direct binding)
- Rv3593 (lpqF) (Direct binding)
- Rv3637 (-) (Direct binding)
- Rv3643 (-) (Direct binding)
- Rv3725 (-) (Direct binding)
- Rv3750c (-) (Direct binding)
- Rv3763 (lpqH) (Direct binding)
- Rv3794 (embA) (Direct binding)
- Rv3843c (-) (Direct binding)
- Rv3866 (espG1) (Direct binding)
- Rv3867 (espH) (Direct binding)
- Rv3870 (eccCa1) (Direct binding)
- Rv3873 (PPE68) (Direct binding)
- Rv0207c (-) (Upstream of operon)
- Rv0210 (-) (Upstream of operon)
- Rv0212c (nadR) (Upstream of operon)
- Rv0303 (-) (Upstream of operon)
- Rv0556 (-) (Upstream of operon)
- Rv1175c (fadH) (Upstream of operon)
- Rv1326c (glgB) (Upstream of operon)
- Rv1362c (-) (Upstream of operon)
- Rv1512 (epiA) (Upstream of operon)
- Rv1513 (-) (Upstream of operon)
- Rv1761c (-) (Upstream of operon)
- Rv2004c (-) (Upstream of operon)
- Rv2297 (-) (Upstream of operon)
- Rv2392 (cysH) (Upstream of operon)
- Rv2393 (che1) (Upstream of operon)
- Rv2394 (ggtB) (Upstream of operon)
- Rv2418c (-) (Upstream of operon)
- Rv2419c (gpgP) (Upstream of operon)
- Rv2420c (-) (Upstream of operon)
- Rv2568c (-) (Upstream of operon)
- Rv2692 (ceoC) (Upstream of operon)
- Rv2725c (hflX) (Upstream of operon)
- Rv2726c (dapF) (Upstream of operon)
- Rv2727c (miaA) (Upstream of operon)
- Rv2888c (amiC) (Upstream of operon)
- Rv2889c (tsf) (Upstream of operon)
- Rv2906c (trmD) (Upstream of operon)
- Rv2907c (rimM) (Upstream of operon)
- Rv2908c (-) (Upstream of operon)
- Rv2953 (-) (Upstream of operon)
- Rv3288c (usfY) (Upstream of operon)
- Rv3289c (-) (Upstream of operon)
- Rv3298c (lpqC) (Upstream of operon)
- Rv3299c (atsB) (Upstream of operon)
- Rv3300c (-) (Upstream of operon)
- Rv3410c (guaB3) (Upstream of operon)
- Rv3638 (-) (Upstream of operon)
- Rv3795 (embB) (Upstream of operon)
- Rv3842c (glpQ1) (Upstream of operon)
Bound By:
- Rv0302 (-) (Direct binding)
- Rv0576 (-) (Direct binding)
- Rv1219c (-) (Direct binding)
- Rv1353c (-) (Direct binding)

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

Upregulates:
- Rv0302 (-)
Upregulated by:
- Rv0302 (-)
- Rv2884 (-)
Downregulates:
Downregulated by:

Property	Value	Creator	Evidence	PMID	Comment
Citation	The temporal response of the Mycobacterium tuberculosis gene regulatory network during growth arrest. G. Balzsi, AP. Heath et al. Mol. Syst. Biol. 2008	yamir.moreno	ISO	18985025	E.coli orthology based inference. Orthologous pair regulator-target found in E.coli.
Interaction	Regulates Rv0262c	yamir.moreno	ISO		E.coli orthology based inference. Orthologous pair regulator-target found in E.coli. G. Balzsi, AP. Heath et al. The temporal response of the Mycobacterium tuberculosis gene regulatory network during growth arrest. Mol. Syst. Biol. 2008
Citation	The temporal response of the Mycobacterium tuberculosis gene regulatory network during growth arrest. G. Balzsi, AP. Heath et al. Mol. Syst. Biol. 2008	yamir.moreno	ISO	18985025	E.coli orthology based inference. Orthologous pair regulator-target found in E.coli.
Interaction	Regulates Rv1522c	yamir.moreno	ISO		E.coli orthology based inference. Orthologous pair regulator-target found in E.coli. G. Balzsi, AP. Heath et al. The temporal response of the Mycobacterium tuberculosis gene regulatory network during growth arrest. Mol. Syst. Biol. 2008
Citation	Evolutionary dynamics of prokaryotic transcriptional regulatory networks. authors,M. Madan Babu,SA. Teichmann,L. Aravind J. Mol. Biol. 2006	yamir.moreno	ISO	16530225	E.coli orthology based inference. Orthologous pair regulator-target found in E.coli.
Interaction	Regulates Rv1522c	yamir.moreno	ISO		E.coli orthology based inference. Orthologous pair regulator-target found in E.coli. authors,M. Madan Babu,SA. Teichmann,L. Aravind Evolutionary dynamics of prokaryotic transcriptional regulatory networks. J. Mol. Biol. 2006
Citation	Evolutionary dynamics of prokaryotic transcriptional regulatory networks. authors,M. Madan Babu,SA. Teichmann,L. Aravind J. Mol. Biol. 2006	yamir.moreno	ISO	16530225	E.coli orthology based inference. Orthologous pair regulator-target found in E.coli.
Interaction	Regulates Rv0262c	yamir.moreno	ISO		E.coli orthology based inference. Orthologous pair regulator-target found in E.coli. authors,M. Madan Babu,SA. Teichmann,L. Aravind Evolutionary dynamics of prokaryotic transcriptional regulatory networks. J. Mol. Biol. 2006

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