Rv1139c (-)

Current annotations:
- TBCAP: (community-based annotations - see table at bottom of page)
- TBDB: hypothetical protein
- REFSEQ: hypothetical protein
- PATRIC: FIG00823635: hypothetical protein
- TUBERCULIST: Conserved hypothetical membrane protein
- NCBI: hypothetical protein
- updated information (H37Rv4):
  - gene name: -
  - function:
  - reference:
Type: Not Target
Start: 1266485
End: 1266985
Operon:

Trans-membrane region:
Role: V - Conserved hypotheticals
GO terms:
- GO:0016021 - integral component of membrane (Uniprot)
- GO:0006481 - C-terminal protein methylation (Uniprot)
- GO:0004671 - protein C-terminal S-isoprenylcysteine carboxyl O-methyltransferase activity (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 Rv1139c:
- KEGG - nucleotide and amino acid sequences of gene
- Mycobrowser
- PATRIC
- TBDB (updated)
- Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
- UniProt
- AlphaFold model
- Vulnerability = 1.288 (from Jeremy Rock's lab)
- BioCyc
- Systems Biology

Amino Acid Sequence

VYYLLILAVVFERLAELVVAQRNARWSFAQGGKEFGRPHYVVMVILHTALLLGCVVEPWALHRPFIPWLGWPMLAVVVASQGLRWWCVKSLGKRWNTRVI
VLPHATLVRRGPYRWMRHPNYVAVVAEGFALPLVHTAWLTALVFTLANATLLTVRLRVENSVLGYI

(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 13 sites
Non-Essential	Lignoceric Acid	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 2 non-insertions in a row out of 13 sites
Non-Essential	Phosphatidylcholine	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 2 non-insertions in a row out of 13 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 13 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 13 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: 1.54
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:
- Rv1404 (-) (Direct binding)

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

Upregulates:
- Does not upregulate other genes.
Upregulated by:
Downregulates:
- Does not downregulate other genes.
Downregulated by:
- Rv0576 (-)
- Rv2887 (-)

TBCAP

Tubculosis Community Annotation Project (

Slayden et al., 2013

Rv1139c (-)

Property	Value	Creator	Evidence	PMID	Comment
Interaction	Regulatory Rv0735	anshula.arora1990	IEP		Co-expression (Functional linkage) authors,B. Karlmark,B. Agerup,PJ. Wistrand Renal proximal tubular acidification. Role of brush-border and cytoplasmic carbonic anhydrase. Acta Physiol. Scand. 1979
Citation	Topological and mutational analysis of Saccharomyces cerevisiae Ste14p, founding member of the isoprenylcysteine carboxyl methyltransferase family. authors,JD. Romano,S. Michaelis Mol. Biol. Cell 2001	ashwinigbhat	NAS	11451995	Operon (Functional Linkage)
Interaction	Transcription Rv1138c	ashwinigbhat	NAS		Operon (Functional Linkage) authors,JD. Romano,S. Michaelis Topological and mutational analysis of Saccharomyces cerevisiae Ste14p, founding member of the isoprenylcysteine carboxyl methyltransferase family. Mol. Biol. Cell 2001
Citation	The Mycobacterium tuberculosis extracytoplasmic-function sigma factor SigL regulates polyketide synthases and secreted or membrane proteins and is required for virulence. MY. Hahn, S. Raman et al. J. Bacteriol. 2005	ashwinigbhat	NAS	16199577	Operon (Functional Linkage)
Interaction	Transcription Rv1138c	ashwinigbhat	NAS		Operon (Functional Linkage) MY. Hahn, S. Raman et al. The Mycobacterium tuberculosis extracytoplasmic-function sigma factor SigL regulates polyketide synthases and secreted or membrane proteins and is required for virulence. J. Bacteriol. 2005
Citation	Renal proximal tubular acidification. Role of brush-border and cytoplasmic carbonic anhydrase. authors,B. Karlmark,B. Agerup,PJ. Wistrand Acta Physiol. Scand. 1979	ashwinigbhat	NAS	41407	Operon (Functional Linkage)
Interaction	Transcription Rv1138c	ashwinigbhat	NAS		Operon (Functional Linkage) authors,B. Karlmark,B. Agerup,PJ. Wistrand Renal proximal tubular acidification. Role of brush-border and cytoplasmic carbonic anhydrase. Acta Physiol. Scand. 1979
Interaction	Transcription Rv1138c	priyadarshinipriyanka2001	NAS		Operon (Functional Linkage) MY. Hahn, S. Raman et al. The Mycobacterium tuberculosis extracytoplasmic-function sigma factor SigL regulates polyketide synthases and secreted or membrane proteins and is required for virulence. J. Bacteriol. 2005
Citation	Topological and mutational analysis of Saccharomyces cerevisiae Ste14p, founding member of the isoprenylcysteine carboxyl methyltransferase family. authors,JD. Romano,S. Michaelis Mol. Biol. Cell 2001	anshula.arora1990	IEP	11451995	Co-expression (Functional linkage)
Interaction	Regulatory Rv0735	anshula.arora1990	IEP		Co-expression (Functional linkage) authors,JD. Romano,S. Michaelis Topological and mutational analysis of Saccharomyces cerevisiae Ste14p, founding member of the isoprenylcysteine carboxyl methyltransferase family. Mol. Biol. Cell 2001
Citation	The Mycobacterium tuberculosis extracytoplasmic-function sigma factor SigL regulates polyketide synthases and secreted or membrane proteins and is required for virulence. MY. Hahn, S. Raman et al. J. Bacteriol. 2005	anshula.arora1990	IEP	16199577	Co-expression (Functional linkage)
Interaction	Regulatory Rv0735	anshula.arora1990	IEP		Co-expression (Functional linkage) MY. Hahn, S. Raman et al. The Mycobacterium tuberculosis extracytoplasmic-function sigma factor SigL regulates polyketide synthases and secreted or membrane proteins and is required for virulence. J. Bacteriol. 2005
Citation	Renal proximal tubular acidification. Role of brush-border and cytoplasmic carbonic anhydrase. authors,B. Karlmark,B. Agerup,PJ. Wistrand Acta Physiol. Scand. 1979	anshula.arora1990	IEP	41407	Co-expression (Functional linkage)
Interaction	Transcription Rv1138c	aparna.vchalam	NAS		Operon (Functional Linkage) MY. Hahn, S. Raman et al. The Mycobacterium tuberculosis extracytoplasmic-function sigma factor SigL regulates polyketide synthases and secreted or membrane proteins and is required for virulence. J. Bacteriol. 2005
Interaction	RegulatedBy Rv0735	yamir.moreno	TAS		Literature previously reported link (from Balazsi et al. 2008). Traceable author statement to experimental support. G. Balzsi, AP. Heath et al. The temporal response of the Mycobacterium tuberculosis gene regulatory network during growth arrest. Mol. Syst. Biol. 2008

Property

Value

Creator

Evidence

PMID

Comment

Interaction

Regulatory Rv0735

anshula.arora1990

IEP

Co-expression (Functional linkage)
authors,B. Karlmark,B. Agerup,PJ. Wistrand Renal proximal tubular acidification. Role of brush-border and cytoplasmic carbonic anhydrase. Acta Physiol. Scand. 1979

Citation

Topological and mutational analysis of Saccharomyces cerevisiae Ste14p, founding member of the isoprenylcysteine carboxyl methyltransferase family. authors,JD. Romano,S. Michaelis Mol. Biol. Cell 2001

ashwinigbhat

NAS

11451995

Operon (Functional Linkage)

Interaction

Transcription Rv1138c

ashwinigbhat

NAS

Operon (Functional Linkage)
authors,JD. Romano,S. Michaelis Topological and mutational analysis of Saccharomyces cerevisiae Ste14p, founding member of the isoprenylcysteine carboxyl methyltransferase family. Mol. Biol. Cell 2001

Citation

The Mycobacterium tuberculosis extracytoplasmic-function sigma factor SigL regulates polyketide synthases and secreted or membrane proteins and is required for virulence. MY. Hahn, S. Raman et al. J. Bacteriol. 2005

ashwinigbhat

NAS

16199577

Operon (Functional Linkage)

Interaction

Transcription Rv1138c

ashwinigbhat

NAS

Operon (Functional Linkage)
MY. Hahn, S. Raman et al. The Mycobacterium tuberculosis extracytoplasmic-function sigma factor SigL regulates polyketide synthases and secreted or membrane proteins and is required for virulence. J. Bacteriol. 2005

Citation

Renal proximal tubular acidification. Role of brush-border and cytoplasmic carbonic anhydrase. authors,B. Karlmark,B. Agerup,PJ. Wistrand Acta Physiol. Scand. 1979

ashwinigbhat

NAS

41407

Operon (Functional Linkage)

Interaction

Transcription Rv1138c

ashwinigbhat

NAS

Operon (Functional Linkage)
authors,B. Karlmark,B. Agerup,PJ. Wistrand Renal proximal tubular acidification. Role of brush-border and cytoplasmic carbonic anhydrase. Acta Physiol. Scand. 1979

Interaction

Transcription Rv1138c

priyadarshinipriyanka2001

NAS

Citation

anshula.arora1990

IEP

11451995

Co-expression (Functional linkage)

Interaction

Regulatory Rv0735

anshula.arora1990

IEP

Co-expression (Functional linkage)
authors,JD. Romano,S. Michaelis Topological and mutational analysis of Saccharomyces cerevisiae Ste14p, founding member of the isoprenylcysteine carboxyl methyltransferase family. Mol. Biol. Cell 2001

Citation

anshula.arora1990

IEP

16199577

Co-expression (Functional linkage)

Interaction

Regulatory Rv0735

anshula.arora1990

IEP

Co-expression (Functional linkage)
MY. Hahn, S. Raman et al. The Mycobacterium tuberculosis extracytoplasmic-function sigma factor SigL regulates polyketide synthases and secreted or membrane proteins and is required for virulence. J. Bacteriol. 2005

Citation

Renal proximal tubular acidification. Role of brush-border and cytoplasmic carbonic anhydrase. authors,B. Karlmark,B. Agerup,PJ. Wistrand Acta Physiol. Scand. 1979

anshula.arora1990

IEP

41407

Co-expression (Functional linkage)

Interaction

Transcription Rv1138c

aparna.vchalam

NAS

Interaction

RegulatedBy Rv0735

yamir.moreno

TAS

Literature previously reported link (from Balazsi et al. 2008). Traceable author statement to experimental support.
G. Balzsi, AP. Heath et al. The temporal response of the Mycobacterium tuberculosis gene regulatory network during growth arrest. Mol. Syst. Biol. 2008

Comments