Rv1247c (relB)

Current annotations:
- TBCAP: (community-based annotations - see table at bottom of page)
- TBDB: antitoxin
- REFSEQ: hypothetical protein
- PATRIC: RelB/StbD replicon stabilization protein (antitoxin to RelE/StbE)
- TUBERCULIST: Antitoxin RelB
- NCBI: Antitoxin RelB
- updated information (H37Rv4):
  - gene name: relB
  - function:
  - reference:
Type: Not Target
Start: 1388975
End: 1389244
Operon:

Trans-membrane region:
Role: V - Conserved hypotheticals
GO terms:
- GO:0097351 - toxin-antitoxin pair type II binding (Uniprot)
- GO:0045927 - positive regulation of growth (Uniprot)
- GO:0006355 - regulation of transcription, DNA-templated (Uniprot)
- GO:0006351 - transcription, DNA-templated (Uniprot)
- GO:0005515 - protein binding (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

3G5O 44% Mycobacterium tuberculosis The crystal structure of the toxin-antitoxin complex RelBE2 (Rv2865-2866) from Mycobacterium tuberculosis
Links to additional information on relB:
- TBDB (updated)
- Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
- UniProt
- AlphaFold model
- Vulnerability = -2.959 (from Jeremy Rock's lab)
- KEGG - nucleotide and amino acid sequences of gene
- Mycobrowser
- PATRIC
- BioCyc
- Systems Biology

PDB	aa ident	species	PDB title
3G5O	44%	Mycobacterium tuberculosis	The crystal structure of the toxin-antitoxin complex RelBE2 (Rv2865-2866) from Mycobacterium tuberculosis

Amino Acid Sequence

MAVVPLGEVRNRLSEYVAEVELTHERITITRHGHPAAVLISADDLASIEETLEVLRTPGASEAIREGLADVAAGRFVSNDEIRNRYTAR

(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 5 sites
Non-Essential	Lignoceric Acid	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 2 non-insertions in a row out of 5 sites
Non-Essential	Phosphatidylcholine	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 1 non-insertions in a row out of 5 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 5 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 5 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: 0.81
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

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:
- Rv1956 (higA) (Direct binding)

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)

Property	Value	Creator	Evidence	PMID	Comment
Interaction	Inhibits Rv1246c	aparna.vchalam	IPI		Affinity 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
Interaction	Inhibits Rv1246c	aparna.vchalam	IPI		Affinity 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 2007	aparna.vchalam	IPI	17441326	Affinity purification (Physical interaction)
Interaction	Inhibits Rv1246c	aparna.vchalam	IPI		Affinity 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
Citation	Three Mycobacterium tuberculosis Rel toxin:antitoxin modules inhibit mycobacterial growth and are expressed in human-infected macrophages. SB. Korch, H. Contreras et al. J. Bacteriol. 2008	aparna.vchalam	IPI	19114484	Affinity purification (Physical interaction)
Interaction	Inhibits Rv1246c	aparna.vchalam	IPI		Affinity 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
Symbol	relB	jlew			Each 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
Citation	Characterization 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 2010	jlew		20498855	Each pair shows interaction by two-hybrid and GST pulldown. F and B each interact with E, G, K, and itself.
Symbol	relB1	jlew			Each 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
Citation	The three RelE homologs of Mycobacterium tuberculosis have individual, drug-specific effects on bacterial antibiotic tolerance. authors,R. Singh,CE. Barry,HI. Boshoff J. Bacteriol. 2010	jlew		20061486	Each toxin individually arrests growth of both M. tuberculosis and E. coli, an effect that is neutralized by coexpression of the cognate antitoxin.
Symbol	relB	jlew			relB 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
Citation	Three Mycobacterium tuberculosis Rel toxin:antitoxin modules inhibit mycobacterial growth and are expressed in human-infected macrophages. SB. Korch, H. Contreras et al. J. Bacteriol. 2008	jlew		19114484	relB and relE interact directly. Overexpression of Mtb relE, relG and relK induces growth arrest in Msmeg; reversed by expression of relB, relF and relJ
Symbol	RelB1	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.
Other	strand:+	rslayden			MTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268
Symbol	rel BE-1	rslayden			Z86089
Other	start:1388975	rslayden			Z86089
Other	stop:1389244	rslayden			Z86089
Other	strand:+	rslayden			Z86089
Symbol	rel BE-1	rslayden			P95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293
Other	start:1388975	rslayden			P95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293
Other	stop:1389244	rslayden			P95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293
Other	strand:+	rslayden			P95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293
Symbol	rel BE-1	rslayden			ECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.
Other	start:1388975	rslayden			ECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.
Other	stop:1389244	rslayden			ECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.
Other	strand:+	rslayden			ECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.
Symbol	rel BE-1	rslayden			Conserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865
Other	start:1388975	rslayden			Conserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865
Other	stop:1389244	rslayden			Conserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865
Other	strand:+	rslayden			Conserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865
Symbol	rel BE-1	rslayden			MTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268
Other	start:1388975	rslayden			MTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268
Other	stop:1389244	rslayden			MTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268

Property

Value

Creator

Evidence

PMID

Comment

Interaction

Inhibits Rv1246c

aparna.vchalam

IPI

Affinity 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

Interaction

Inhibits Rv1246c

aparna.vchalam

IPI

Affinity 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 2007

aparna.vchalam

IPI

17441326

Affinity purification (Physical interaction)

Interaction

Inhibits Rv1246c

aparna.vchalam

IPI

Citation

Three Mycobacterium tuberculosis Rel toxin:antitoxin modules inhibit mycobacterial growth and are expressed in human-infected macrophages. SB. Korch, H. Contreras et al. J. Bacteriol. 2008

aparna.vchalam

IPI

19114484

Affinity purification (Physical interaction)

Interaction

Inhibits Rv1246c

aparna.vchalam

IPI

Symbol

relB

jlew

Each 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

Citation

Characterization 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 2010

jlew

20498855

Each pair shows interaction by two-hybrid and GST pulldown. F and B each interact with E, G, K, and itself.

Symbol

relB1

jlew

Each 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

Citation

The three RelE homologs of Mycobacterium tuberculosis have individual, drug-specific effects on bacterial antibiotic tolerance. authors,R. Singh,CE. Barry,HI. Boshoff J. Bacteriol. 2010

jlew

20061486

Each toxin individually arrests growth of both M. tuberculosis and E. coli, an effect that is neutralized by coexpression of the cognate antitoxin.

Symbol

relB

jlew

relB 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

Citation

Three Mycobacterium tuberculosis Rel toxin:antitoxin modules inhibit mycobacterial growth and are expressed in human-infected macrophages. SB. Korch, H. Contreras et al. J. Bacteriol. 2008

jlew

19114484

relB and relE interact directly. Overexpression of Mtb relE, relG and relK induces growth arrest in Msmeg; reversed by expression of relB, relF and relJ

Symbol

RelB1

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

Other

strand:+

rslayden

MTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268

Symbol

rel BE-1

rslayden

Z86089

Other

start:1388975

rslayden

Z86089

Other

stop:1389244

rslayden

Z86089

Other

strand:+

rslayden

Z86089

Symbol

rel BE-1

rslayden

P95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293

Other

start:1388975

rslayden

P95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293

Other

stop:1389244

rslayden

P95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293

Other

strand:+

rslayden

P95225 (169 aa) opt: 125, E(): 0.0089,(41.8% identity in 55 aa overlap); etc. and Escherichia coli AE000293

Symbol

rel BE-1

rslayden

ECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.

Other

start:1388975

rslayden

ECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.

Other

stop:1389244

rslayden

ECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.

Other

strand:+

rslayden

ECAE0002933 92 aa), FASTA scores: opt: 127, E(): 0.0038, (29.3% identity in 82 aa overlap). TBparse score is 0.905.

Symbol

rel BE-1

rslayden

Conserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865

Other

start:1388975

rslayden

Conserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865

Other

stop:1389244

rslayden

Conserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865

Other

strand:+

rslayden

Conserved hypothetical protein, some similarity to hypothetical proteins including Mycobacterium tuberculosis proteins Rv2865

Symbol

rel BE-1

rslayden

MTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268

Other

start:1388975

rslayden

MTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268

Other

stop:1389244

rslayden

MTV003.11 (93 aa), FASTA scores: opt: 249, E(): 5.4e-13, (44.2% identity in 86 aa overlap); Rv0268

Comments