Rv1952 (vapB14)

Current annotations:
- TBCAP: (community-based annotations - see table at bottom of page)
- TBDB: antitoxin
- REFSEQ: hypothetical protein
- PATRIC: FIG00820949: hypothetical protein
- TUBERCULIST: Possible antitoxin VapB14
- NCBI: Possible antitoxin VapB14
- updated information (H37Rv4):
  - gene name: vapB14
  - function:
  - reference:
Type: Not Target
Start: 2200726
End: 2200941
Operon:

Trans-membrane region:
Role: V - Conserved hypotheticals
GO terms:
- GO:0006355 - regulation of transcription, DNA-templated (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): (none with >35% aa id)
Links to additional information on vapB14:
- TBDB (updated)
- Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
- UniProt
- AlphaFold model
- Vulnerability = 0.528 (from Jeremy Rock's lab)
- KEGG - nucleotide and amino acid sequences of gene
- BioCyc
- Systems Biology
- Mycobrowser
- PATRIC

Amino Acid Sequence

VIRNLPEGTKAALRVRAARHHHSVEAEARAILTAGLLGEEVPMPVLLAADSGHDIDFEPERLGLIARTPQL

(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
Too-Short	Sodium Oleate	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: -1.000000; 0 non-insertions in a row out of 2 sites
Too-Short	Lignoceric Acid	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: -1.000000; 1 non-insertions in a row out of 2 sites
Too-Short	Phosphatidylcholine	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: -1.000000; 0 non-insertions in a row out of 2 sites
Too-Short	minimal media + 0.1% glycerol	H37RvMA	Gumbel	Griffin et al. (2011)	Probability of Essentiality: -1.000000; 0 non-insertions in a row out of 2 sites
Too-Short	minimal media + 0.01% cholesterol	H37RvMA	Gumbel	Griffin et al. (2011)	Probability of Essentiality: -1.000000; 1 non-insertions in a row out of 2 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: 0.57
Growth-Advantage	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

Binds To:
- No bindings to other targets were found.
Bound By:

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

Binds To:
- No bindings to other targets were found.
Bound By:
- Rv0047c (-) (Direct binding)
- Rv0324 (-) (Direct binding)
- Rv0494 (-) (Direct binding)
- Rv1956 (higA) (Direct binding)
- Rv3488 (-) (Direct binding)

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

Upregulates:
- Does not upregulate other genes.
Upregulated by:
- Rv0081 (-)
Downregulates:
- Does not downregulate other genes.
Downregulated by:

TBCAP

Tubculosis Community Annotation Project (

Slayden et al., 2013

Rv1952 (vapB14)

Property	Value	Creator	Evidence	PMID	Comment
Interaction	Inhibits Rv1953	prabhakarsmail	IEP		Coexpression(Functional linkage) authors,HR. Ramage,LE. Connolly,JS. Cox Comprehensive functional analysis of Mycobacterium tuberculosis toxin-antitoxin systems: implications for pathogenesis, stress responses, and evolution. PLoS Genet. 2009
Citation	Comprehensive functional analysis of Mycobacterium tuberculosis toxin-antitoxin systems: implications for pathogenesis, stress responses, and evolution. authors,HR. Ramage,LE. Connolly,JS. Cox PLoS Genet. 2009	akankshajain.21	IEP	20011113	Coexpression(Functional linkage)
Interaction	Inhibits Rv1953	akankshajain.21	IEP		Coexpression(Functional linkage) authors,HR. Ramage,LE. Connolly,JS. Cox Comprehensive functional analysis of Mycobacterium tuberculosis toxin-antitoxin systems: implications for pathogenesis, stress responses, and evolution. PLoS Genet. 2009
Citation	Comprehensive functional analysis of Mycobacterium tuberculosis toxin-antitoxin systems: implications for pathogenesis, stress responses, and evolution. authors,HR. Ramage,LE. Connolly,JS. Cox PLoS Genet. 2009	prabhakarsmail	IEP	20011113	Coexpression(Functional linkage)
Interaction	Inhibits Rv1953	prabhakarsmail	IEP		Coexpression(Functional linkage) authors,HR. Ramage,LE. Connolly,JS. Cox Comprehensive functional analysis of Mycobacterium tuberculosis toxin-antitoxin systems: implications for pathogenesis, stress responses, and evolution. PLoS Genet. 2009
Interaction	Inhibits Rv1953	akankshajain.21	IEP		Coexpression(Functional linkage) authors,HR. Ramage,LE. Connolly,JS. Cox Comprehensive functional analysis of Mycobacterium tuberculosis toxin-antitoxin systems: implications for pathogenesis, stress responses, and evolution. PLoS Genet. 2009
Symbol	VapB	jlew			authors,BA. Ahidjo,D. Kuhnert,JL. McKenzie,EE. Machowski,BG. Gordhan,V. Arcus,GL. Abrahams,V. Mizrahi VapC toxins from Mycobacterium tuberculosis are ribonucleases that differentially inhibit growth and are neutralized by cognate VapB antitoxins. PLoS ONE 2011
Citation	VapC toxins from Mycobacterium tuberculosis are ribonucleases that differentially inhibit growth and are neutralized by cognate VapB antitoxins. authors,BA. Ahidjo,D. Kuhnert,JL. McKenzie,EE. Machowski,BG. Gordhan,V. Arcus,GL. Abrahams,V. Mizrahi PLoS ONE 2011	jlew		21738782	None
Symbol	VapB14	jlew			We 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
Citation	Killing activity and rescue function of genome-wide toxin-antitoxin loci of Mycobacterium tuberculosis. authors,A. Gupta FEMS Microbiol. Lett. 2009	jlew		19016878	We 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.
Symbol	Vap BC-14	rslayden			Conserved hypothetical protein. Some similarity to P55510
Other	start:2200726	rslayden			Conserved hypothetical protein. Some similarity to P55510
Other	stop:2200941	rslayden			Conserved hypothetical protein. Some similarity to P55510
Other	strand:+	rslayden			Conserved hypothetical protein. Some similarity to P55510
Symbol	Vap BC-14	rslayden			Y4JJ_RHISN PUTATIVE PLASMID STABILITY PROTEIN (85 aa), FASTA scores: opt: 127, E(): 0.00096, (42.5% identity in 73 aa overlap).
Other	start:2200726	rslayden			Y4JJ_RHISN PUTATIVE PLASMID STABILITY PROTEIN (85 aa), FASTA scores: opt: 127, E(): 0.00096, (42.5% identity in 73 aa overlap).
Other	stop:2200941	rslayden			Y4JJ_RHISN PUTATIVE PLASMID STABILITY PROTEIN (85 aa), FASTA scores: opt: 127, E(): 0.00096, (42.5% identity in 73 aa overlap).
Other	strand:+	rslayden			Y4JJ_RHISN PUTATIVE PLASMID STABILITY PROTEIN (85 aa), FASTA scores: opt: 127, E(): 0.00096, (42.5% identity in 73 aa overlap).

Property

Value

Creator

Evidence

PMID

Comment

Interaction

Inhibits Rv1953

prabhakarsmail

IEP

Coexpression(Functional linkage)
authors,HR. Ramage,LE. Connolly,JS. Cox Comprehensive functional analysis of Mycobacterium tuberculosis toxin-antitoxin systems: implications for pathogenesis, stress responses, and evolution. PLoS Genet. 2009

Citation

Comprehensive functional analysis of Mycobacterium tuberculosis toxin-antitoxin systems: implications for pathogenesis, stress responses, and evolution. authors,HR. Ramage,LE. Connolly,JS. Cox PLoS Genet. 2009

akankshajain.21

IEP

20011113

Coexpression(Functional linkage)

Interaction

Inhibits Rv1953

akankshajain.21

IEP

Citation

prabhakarsmail

IEP

20011113

Coexpression(Functional linkage)

Interaction

Inhibits Rv1953

prabhakarsmail

IEP

Interaction

Inhibits Rv1953

akankshajain.21

IEP

Symbol

VapB

jlew

authors,BA. Ahidjo,D. Kuhnert,JL. McKenzie,EE. Machowski,BG. Gordhan,V. Arcus,GL. Abrahams,V. Mizrahi VapC toxins from Mycobacterium tuberculosis are ribonucleases that differentially inhibit growth and are neutralized by cognate VapB antitoxins. PLoS ONE 2011

Citation

VapC toxins from Mycobacterium tuberculosis are ribonucleases that differentially inhibit growth and are neutralized by cognate VapB antitoxins. authors,BA. Ahidjo,D. Kuhnert,JL. McKenzie,EE. Machowski,BG. Gordhan,V. Arcus,GL. Abrahams,V. Mizrahi PLoS ONE 2011

jlew

21738782

None

Symbol

VapB14

jlew

We 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

Citation

Killing activity and rescue function of genome-wide toxin-antitoxin loci of Mycobacterium tuberculosis. authors,A. Gupta FEMS Microbiol. Lett. 2009

jlew

19016878

Symbol

Vap BC-14

rslayden

Conserved hypothetical protein. Some similarity to P55510

Other

start:2200726

rslayden

Conserved hypothetical protein. Some similarity to P55510

Other

stop:2200941

rslayden

Conserved hypothetical protein. Some similarity to P55510

Other

strand:+

rslayden

Conserved hypothetical protein. Some similarity to P55510

Symbol

Vap BC-14

rslayden

Y4JJ_RHISN PUTATIVE PLASMID STABILITY PROTEIN (85 aa), FASTA scores: opt: 127, E(): 0.00096, (42.5% identity in 73 aa overlap).

Other

start:2200726

rslayden

Y4JJ_RHISN PUTATIVE PLASMID STABILITY PROTEIN (85 aa), FASTA scores: opt: 127, E(): 0.00096, (42.5% identity in 73 aa overlap).

Other

stop:2200941

rslayden

Y4JJ_RHISN PUTATIVE PLASMID STABILITY PROTEIN (85 aa), FASTA scores: opt: 127, E(): 0.00096, (42.5% identity in 73 aa overlap).

Other

strand:+

rslayden

Y4JJ_RHISN PUTATIVE PLASMID STABILITY PROTEIN (85 aa), FASTA scores: opt: 127, E(): 0.00096, (42.5% identity in 73 aa overlap).

Comments