Rv1975 (-)

Current annotations:
- TBCAP: (community-based annotations - see table at bottom of page)
- TBDB: hypothetical protein
- REFSEQ: hypothetical protein
- PATRIC: FIG00821319: hypothetical protein
- TUBERCULIST: Conserved hypothetical protein
- NCBI: hypothetical protein
- updated information (H37Rv4):
  - gene name: -
  - function:
  - reference:
Type: Not Target
Start: 2218052
End: 2218717
Operon:

Trans-membrane region:
Role: VI - Unknowns
GO terms:
- No terms assigned.
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 Rv1975:
- TBDB (updated)
- Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
- UniProt
- AlphaFold model
- Vulnerability = 1.365 (from Jeremy Rock's lab)
- KEGG - nucleotide and amino acid sequences of gene
- Mycobrowser
- PATRIC
- BioCyc
- Systems Biology

Amino Acid Sequence

MSRRASATCALSATTAVAIMAAPAARADDKRLNDGVVANVYTVQRQAGCTNDVTINPQLQLAAQWHTLDLLNNRHLNDDTGSDGSTPQDRAHAAGFRGKV
AETVAINPAVAISGIELINQWYYNPAFFAIMSDCANTQIGVWSENSPDRTVVVAVYGQPDRPSAMPPRGAVTGPPSPVAAQENVPIDPSPDYDASDEIEY
GINWLPWILRGVYPPPAMPPQ

(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; 3 non-insertions in a row out of 13 sites
Non-Essential	Lignoceric Acid	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 1 non-insertions in a row out of 13 sites
Non-Essential	Phosphatidylcholine	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 1 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 14 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 14 sites
No-Data	7H10-glycerol	H37RvMA	TraSH	Sassetti et al. (2003a)
Too-Short	C57BL/6J mice (8 weeks)	H37RvMA	TraSH	Sassetti et al. (2003b)	Hybridization Ratio: -1
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:
- Rv0081 (-)

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

Binds To:
- No bindings to other targets were found.
Bound By:
- Rv0081 (-) (Direct binding)
- Rv0324 (-) (Direct binding)
- Rv0678 (-) (Direct binding)
- Rv0691c (-) (Direct binding)
- Rv0047c (-) (Upstream of operon)
- Rv1033c (trcR) (Upstream of operon)
- Rv1189 (sigI) (Upstream of operon)
- Rv1956 (higA) (Upstream of operon)
- Rv3597c (lsr2) (Upstream of operon)

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

Upregulates:
- Does not upregulate other genes.
Upregulated by:
- Rv0081 (-)
- Rv1287 (-)
Downregulates:
- Does not downregulate other genes.
Downregulated by:
- Not downregulated by other genes.

TBCAP

Tubculosis Community Annotation Project (

Slayden et al., 2013

Rv1975 (-)

Property	Value	Creator	Evidence	PMID	Comment
Interaction	Activates Rv1977	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	Activates Rv1971	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	Activates Rv1972	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	Activates Rv1973	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	Activates Rv1974	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	Activates Rv1976c	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	Activates Rv1965	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	Activates Rv1966	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	Activates Rv1967	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	Activates Rv1968	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	Activates Rv1969	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	Activates Rv1970	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Citation	Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Tuberculosis (Edinb) 2004	priyadarshinipriyanka2001	IEP	15207485	Co-expression
Interaction	Activates Rv1964	priyadarshinipriyanka2001	IEP		Co-expression authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004
Interaction	RegulatedBy Rv1963c	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.. MP. Santangelo, FC. Blanco et al. Study of the role of Mce3R on the transcription of mce genes of Mycobacterium tuberculosis. BMC Microbiol. 2008

Property

Value

Creator

Evidence

PMID

Comment

Interaction

Activates Rv1977

priyadarshinipriyanka2001

IEP

Co-expression
authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. Tuberculosis (Edinb) 2004

Interaction

Activates Rv1971

priyadarshinipriyanka2001

IEP

Interaction

Activates Rv1972

priyadarshinipriyanka2001

IEP

Interaction

Activates Rv1973

priyadarshinipriyanka2001

IEP

Interaction

Activates Rv1974

priyadarshinipriyanka2001

IEP

Interaction

Activates Rv1976c

priyadarshinipriyanka2001

IEP

Interaction

Activates Rv1965

priyadarshinipriyanka2001

IEP

Interaction

Activates Rv1966

priyadarshinipriyanka2001

IEP

Interaction

Activates Rv1967

priyadarshinipriyanka2001

IEP

Interaction

Activates Rv1968

priyadarshinipriyanka2001

IEP

Interaction

Activates Rv1969

priyadarshinipriyanka2001

IEP

Interaction

Activates Rv1970

priyadarshinipriyanka2001

IEP

Citation

Microarray analysis of Mycobacterium microti reveals deletion of genes encoding PE-PPE proteins and ESAT-6 family antigens. authors,MC. Garcia-Pelayo,KC. Caimi,JK. Inwald,J. Hinds,F. Bigi,MI. Romano,D. van Soolingen,RG. Hewinson,A. Cataldi,SV. Gordon Tuberculosis (Edinb) 2004

priyadarshinipriyanka2001

IEP

15207485

Co-expression

Interaction

Activates Rv1964

priyadarshinipriyanka2001

IEP

Interaction

RegulatedBy Rv1963c

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..
MP. Santangelo, FC. Blanco et al. Study of the role of Mce3R on the transcription of mce genes of Mycobacterium tuberculosis. BMC Microbiol. 2008

Comments