Rv1816 (-)

Current annotations:
- TBCAP: (community-based annotations - see table at bottom of page)
- TBDB: hypothetical protein
- REFSEQ: transcriptional regulatory protein
- PATRIC: Transcriptional regulator TetR family
- TUBERCULIST: Possible transcriptional regulatory protein
- NCBI: Possible transcriptional regulatory protein
- updated information (H37Rv4):
  - gene name: -
  - function:
  - reference:
Type: Not Target
Start: 2058256
End: 2058960
Operon:

Trans-membrane region:
Role: I.J.1 - Repressors/activators
GO terms:
- GO:0016021 - integral component of membrane (Uniprot)
- GO:0016020 - membrane (Uniprot)
- GO:0006355 - regulation of transcription, DNA-templated (Uniprot)
- GO:0006351 - transcription, DNA-templated (Uniprot)
- GO:0003700 - DNA binding transcription factor activity (Uniprot)
- GO:0003677 - 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

5D1R 99% Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh) Crystal structure of Mycobacterium tuberculosis Rv1816 transcriptional regulator.
Links to additional information on Rv1816:
- TBDB (updated)
- Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
- UniProt
- AlphaFold model
- Vulnerability = 1.145 (from Jeremy Rock's lab)
- KEGG - nucleotide and amino acid sequences of gene
- Mycobrowser
- PATRIC
- BioCyc
- Systems Biology

PDB	aa ident	species	PDB title
5D1R	99%	Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)	Crystal structure of Mycobacterium tuberculosis Rv1816 transcriptional regulator.

Amino Acid Sequence

LCQTCRVGKRRDAREQIEAKIVELGRRQLLDHGAAGLSLRAIARNLGMVSSAVYRYVSSRDELLTLLLVDAYSDLADTVDRARDDTVADSWSDDVIAIAR
AVRGWAVTNPARWALLYGSPVPGYHAPPDRTAGVATRVVGAFFDAIAAGIATGDIRLTDDVAPQPMSSDFEKIRQEFGFPGDDRVVTKCFLLWAGVVGAI
SLEVFGQYGADMLTDPGVVFDAQTRLLVAVLAEH

(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; 4 non-insertions in a row out of 15 sites
Non-Essential	Lignoceric Acid	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 2 non-insertions in a row out of 15 sites
Non-Essential	Phosphatidylcholine	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 1 non-insertions in a row out of 15 sites
Non-Essential	minimal media + 0.1% glycerol	H37RvMA	Gumbel	Griffin et al. (2011)	Probability of Essentiality: 0.000000; 2 non-insertions in a row out of 15 sites
Non-Essential	minimal media + 0.01% cholesterol	H37RvMA	Gumbel	Griffin et al. (2011)	Probability of Essentiality: 0.000000; 2 non-insertions in a row out of 15 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: 1.39
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:
- Rv0008c (-) (Direct binding)
- Rv0053 (rpsF) (Direct binding)
- Rv0065 (vapC1) (Direct binding)
- Rv0117 (oxyS) (Direct binding)
- Rv0127 (mak) (Direct binding)
- Rv0141c (-) (Direct binding)
- Rv0142 (-) (Direct binding)
- Rv0144 (-) (Direct binding)
- Rv0173 (lprK) (Direct binding)
- Rv0179c (lprO) (Direct binding)
- Rv0194 (-) (Direct binding)
- Rv0227c (-) (Direct binding)
- Rv0233 (nrdB) (Direct binding)
- Rv0252 (nirB) (Direct binding)
- Rv0317c (glpQ2) (Direct binding)
- Rv0335c (PE6) (Direct binding)
- Rv0336 (-) (Direct binding)
- Rv0337c (aspC) (Direct binding)
- Rv0360c (-) (Direct binding)
- Rv0444c (rskA) (Direct binding)
- Rv0463 (-) (Direct binding)
- Rv0495c (-) (Direct binding)
- Rv0497 (-) (Direct binding)
- Rv0499 (-) (Direct binding)
- Rv0500 (proC) (Direct binding)
- Rv0501 (galE2) (Direct binding)
- Rv0509 (hemA) (Direct binding)
- Rv0551c (fadD8) (Direct binding)
- Rv0552 (-) (Direct binding)
- Rv0567 (-) (Direct binding)
- Rv0576 (-) (Direct binding)
- Rv0582 (vapC26) (Direct binding)
- Rv0593 (lprL) (Direct binding)
- Rv0631c (recC) (Direct binding)
- Rv0634A (-) (Direct binding)
- Rv0636 (hadB) (Direct binding)
- Rv0637 (hadC) (Direct binding)
- Rv0665 (vapC8) (Direct binding)
- Rv0668 (rpoC) (Direct binding)
- Rv0685 (tuf) (Direct binding)
- Rv0700 (rpsJ) (Direct binding)
- Rv0704 (rplB) (Direct binding)
- Rv0716 (rplE) (Direct binding)
- Rv0722 (rpmD) (Direct binding)
- Rv0723 (rplO) (Direct binding)
- Rv0770 (-) (Direct binding)
- Rv0783c (emrB) (Direct binding)
- Rv0814c (sseC2) (Direct binding)
- Rv0822c (-) (Direct binding)
- Rv0837c (-) (Direct binding)
- Rv0841 (-) (Direct binding)
- Rv0842 (-) (Direct binding)
- Rv0875c (-) (Direct binding)
- Rv0909 (-) (Direct binding)
- Rv0933 (pstB) (Direct binding)
- Rv0968 (-) (Direct binding)
- Rv0969 (ctpV) (Direct binding)
- Rv0991c (-) (Direct binding)
- Rv0996 (-) (Direct binding)
- Rv1064c (lpqV) (Direct binding)
- Rv1065 (-) (Direct binding)
- Rv1094 (desA2) (Direct binding)
- Rv1114 (vapC32) (Direct binding)
- Rv1123c (bpoB) (Direct binding)
- Rv1124 (ephC) (Direct binding)
- Rv1146 (mmpL13b) (Direct binding)
- Rv1225c (-) (Direct binding)
- Rv1270c (lprA) (Direct binding)
- Rv1288 (-) (Direct binding)
- Rv1336 (cysM) (Direct binding)
- Rv1365c (rsfA) (Direct binding)
- Rv1372 (-) (Direct binding)
- Rv1388 (mihF) (Direct binding)
- Rv1414 (-) (Direct binding)
- Rv1458c (-) (Direct binding)
- Rv1459c (-) (Direct binding)
- Rv1461 (-) (Direct binding)
- Rv1501 (-) (Direct binding)
- Rv1517 (-) (Direct binding)
- Rv1528c (papA4) (Direct binding)
- Rv1541c (lprI) (Direct binding)
- Rv1634 (-) (Direct binding)
- Rv1640c (lysX) (Direct binding)
- Rv1669 (-) (Direct binding)
- Rv1670 (-) (Direct binding)
- Rv1816 (-) (Direct binding)
- Rv1883c (-) (Direct binding)
- Rv1884c (rpfC) (Direct binding)
- Rv1896c (-) (Direct binding)
- Rv1927 (-) (Direct binding)
- Rv1951c (-) (Direct binding)
- Rv1981c (nrdF1) (Direct binding)
- Rv1989c (-) (Direct binding)
- Rv1990A (-) (Direct binding)
- Rv1993c (-) (Direct binding)
- Rv2054 (-) (Direct binding)
- Rv2082 (-) (Direct binding)
- Rv2102 (-) (Direct binding)
- Rv2118c (-) (Direct binding)
- Rv2119 (-) (Direct binding)
- Rv2136c (-) (Direct binding)
- Rv2137c (-) (Direct binding)
- Rv2159c (-) (Direct binding)
- Rv2163c (pbpB) (Direct binding)
- Rv2174 (mptA) (Direct binding)
- Rv2177c (-) (Direct binding)
- Rv2195 (qcrA) (Direct binding)
- Rv2196 (qcrB) (Direct binding)
- Rv2197c (-) (Direct binding)
- Rv2277c (-) (Direct binding)
- Rv2320c (rocE) (Direct binding)
- Rv2360c (-) (Direct binding)
- Rv2361c (-) (Direct binding)
- Rv2377c (mbtH) (Direct binding)
- Rv2382c (mbtC) (Direct binding)
- Rv2459 (-) (Direct binding)
- Rv2495c (bkdC) (Direct binding)
- Rv2496c (bkdB) (Direct binding)
- Rv2497c (bkdA) (Direct binding)
- Rv2504c (scoA) (Direct binding)
- Rv2558 (-) (Direct binding)
- Rv2617c (-) (Direct binding)
- Rv2629 (-) (Direct binding)
- Rv2655c (-) (Direct binding)
- Rv2837c (-) (Direct binding)
- Rv2851c (-) (Direct binding)
- Rv2884 (-) (Direct binding)
- Rv2904c (rplS) (Direct binding)
- Rv2907c (rimM) (Direct binding)
- Rv2919c (glnB) (Direct binding)
- Rv2920c (amt) (Direct binding)
- Rv2923c (-) (Direct binding)
- Rv2925c (rnc) (Direct binding)
- Rv2933 (ppsC) (Direct binding)
- Rv2934 (ppsD) (Direct binding)
- Rv2942 (mmpL7) (Direct binding)
- Rv2966c (-) (Direct binding)
- Rv2974c (-) (Direct binding)
- Rv2985 (mutT1) (Direct binding)
- Rv3014c (ligA) (Direct binding)
- Rv3042c (serB2) (Direct binding)
- Rv3116 (moeB2) (Direct binding)
- Rv3118 (sseC1) (Direct binding)
- Rv3120 (-) (Direct binding)
- Rv3194c (-) (Direct binding)
- Rv3195 (-) (Direct binding)
- Rv3213c (-) (Direct binding)
- Rv3214 (gpm2) (Direct binding)
- Rv3273 (-) (Direct binding)
- Rv3384c (vapC46) (Direct binding)
- Rv3405c (-) (Direct binding)
- Rv3440c (-) (Direct binding)
- Rv3450c (eccB4) (Direct binding)
- Rv3462c (infA) (Direct binding)
- Rv3463 (-) (Direct binding)
- Rv3479 (-) (Direct binding)
- Rv3492c (-) (Direct binding)
- Rv3496c (mce4D) (Direct binding)
- Rv3504 (fadE26) (Direct binding)
- Rv3509c (ilvX) (Direct binding)
- Rv3535c (hsaG) (Direct binding)
- Rv3582c (ispD) (Direct binding)
- Rv3596c (clpC1) (Direct binding)
- Rv3612c (-) (Direct binding)
- Rv3644c (-) (Direct binding)
- Rv3645 (-) (Direct binding)
- Rv3661 (-) (Direct binding)
- Rv3682 (ponA2) (Direct binding)
- Rv3694c (-) (Direct binding)
- Rv3695 (-) (Direct binding)
- Rv3704c (gshA) (Direct binding)
- Rv3705c (-) (Direct binding)
- Rv3714c (-) (Direct binding)
- Rv3725 (-) (Direct binding)
- Rv3740c (-) (Direct binding)
- Rv3753c (-) (Direct binding)
- Rv3790 (dprE1) (Direct binding)
- Rv3807c (-) (Direct binding)
- Rv3812 (PE_PGRS62) (Direct binding)
- Rv3851 (-) (Direct binding)
- Rv3886c (mycP2) (Direct binding)
- Rv3903c (-) (Direct binding)
- Rv3919c (gid) (Direct binding)
- Rv0226c (-) (Upstream of operon)
- Rv0253 (nirD) (Upstream of operon)
- Rv0502 (-) (Upstream of operon)
- Rv0510 (hemC) (Upstream of operon)
- Rv0511 (hemD) (Upstream of operon)
- Rv0553 (menC) (Upstream of operon)
- Rv0554 (bpoC) (Upstream of operon)
- Rv0577 (TB27.3) (Upstream of operon)
- Rv0629c (recD) (Upstream of operon)
- Rv0630c (recB) (Upstream of operon)
- Rv0701 (rplC) (Upstream of operon)
- Rv0702 (rplD) (Upstream of operon)
- Rv0703 (rplW) (Upstream of operon)
- Rv0771 (-) (Upstream of operon)
- Rv0772 (purD) (Upstream of operon)
- Rv0843 (-) (Upstream of operon)
- Rv0910 (-) (Upstream of operon)
- Rv0934 (pstS1) (Upstream of operon)
- Rv0970 (-) (Upstream of operon)
- Rv1066 (-) (Upstream of operon)
- Rv1125 (-) (Upstream of operon)
- Rv1457c (-) (Upstream of operon)
- Rv1518 (-) (Upstream of operon)
- Rv1671 (-) (Upstream of operon)
- Rv1948c (-) (Upstream of operon)
- Rv1949c (-) (Upstream of operon)
- Rv1950c (-) (Upstream of operon)
- Rv1992c (ctpG) (Upstream of operon)
- Rv2083 (-) (Upstream of operon)
- Rv2084 (-) (Upstream of operon)
- Rv2135c (-) (Upstream of operon)
- Rv2151c (ftsQ) (Upstream of operon)
- Rv2152c (murC) (Upstream of operon)
- Rv2153c (murG) (Upstream of operon)
- Rv2154c (ftsW) (Upstream of operon)
- Rv2155c (murD) (Upstream of operon)
- Rv2156c (murX) (Upstream of operon)
- Rv2157c (murF) (Upstream of operon)
- Rv2158c (murE) (Upstream of operon)
- Rv2498c (citE) (Upstream of operon)
- Rv2499c (-) (Upstream of operon)
- Rv2500c (fadE19) (Upstream of operon)
- Rv2501c (accA1) (Upstream of operon)
- Rv2502c (accD1) (Upstream of operon)
- Rv2503c (scoB) (Upstream of operon)
- Rv2630 (-) (Upstream of operon)
- Rv2848c (cobB) (Upstream of operon)
- Rv2849c (cobO) (Upstream of operon)
- Rv2850c (-) (Upstream of operon)
- Rv2922c (smc) (Upstream of operon)
- Rv3117 (cysA3) (Upstream of operon)
- Rv3119 (moaE1) (Upstream of operon)
- Rv3196 (-) (Upstream of operon)
- Rv3215 (entC) (Upstream of operon)
- Rv3439c (-) (Upstream of operon)
- Rv3461c (rpmJ) (Upstream of operon)
- Rv3505 (fadE27) (Upstream of operon)
- Rv3700c (-) (Upstream of operon)
- Rv3701c (-) (Upstream of operon)
- Rv3702c (-) (Upstream of operon)
- Rv3703c (-) (Upstream of operon)
- Rv3752c (-) (Upstream of operon)
- Rv3917c (parB) (Upstream of operon)
- Rv3918c (parA) (Upstream of operon)
Bound By:
- Rv1719 (-) (Direct binding)
- Rv1816 (-) (Direct binding)
- Rv2034 (-) (Direct binding)
- Rv3830c (-) (Direct binding)
- Rv3849 (espR) (Direct binding)

Property	Value	Creator	Evidence	PMID	Comment
Citation	Transcription regulation by the Mycobacterium tuberculosis alternative sigma factor SigD and its role in virulence. S. Raman, R. Hazra et al. J. Bacteriol. 2004	madhulsbu	IEP	15375142	Co-expression (Functional linkage)
Interaction	Regulatory Rv3414c	madhulsbu	IEP		Co-expression (Functional linkage) S. Raman, R. Hazra et al. Transcription regulation by the Mycobacterium tuberculosis alternative sigma factor SigD and its role in virulence. J. Bacteriol. 2004
Interaction	RegulatedBy Rv0757	yamir.moreno	IEP		Microarrays. 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

TB Genome Annotation Portal

Rv1816 (-)

Amino Acid Sequence

Additional Information

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

Interactions based on ChIPSeq data

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

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

TBCAP

Comments