Rv2558 (-)

Current annotations:
- TBCAP: (community-based annotations - see table at bottom of page)
- TBDB: hypothetical protein
- REFSEQ: hypothetical protein
- PATRIC: FIG030001: hypothetical protein
- TUBERCULIST: Conserved protein
- NCBI: hypothetical protein
- updated information (H37Rv4):
  - gene name: -
  - function:
  - reference:
Type: Not Target
Start: 2877831
End: 2878541
Operon:

Trans-membrane region:
Role: V - Conserved hypotheticals
GO terms:
- GO:0009267 - cellular response to starvation (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 Rv2558:
- Mycobrowser
- PATRIC
- KEGG - nucleotide and amino acid sequences of gene
- BioCyc
- Systems Biology
- TBDB (updated)
- Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
- UniProt
- AlphaFold model
- Vulnerability = 0.51 (from Jeremy Rock's lab)

Amino Acid Sequence

LPGSAGWRKVFGGTGGATGALPRHGRGSIVYARSTTIEAQPLSVDIGIAHVRDVVMPALQEIDGCVGVSLLVDRQSGRCIATSAWETLEAMRASVERVAP
IRDRAALMFAGSARVEEWDIALLHRDHPSHEGACVRATWLKVVPDQLGRSLEFYRTSVLPELESLDGFCSASLMVDHPACRRAVSCSTFDSMDAMARNRD
RASELRSRRVRELGAEVLDVAEFELAIAHLRVPELV

(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; 1 non-insertions in a row out of 7 sites
Non-Essential	Lignoceric Acid	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 1 non-insertions in a row out of 7 sites
Non-Essential	Phosphatidylcholine	H37RvMA	Gumbel	Subhalaxmi Nambi	Probability of Essentiality: 0.000000; 1 non-insertions in a row out of 7 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 7 sites
Non-Essential	minimal media + 0.01% cholesterol	H37RvMA	Gumbel	Griffin et al. (2011)	Probability of Essentiality: 0.000000; 1 non-insertions in a row out of 7 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: 1.43
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:
- Rv0967 (csoR) (Direct binding)
- Rv1816 (-) (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:
- Not downregulated by other genes.

TBCAP

Tubculosis Community Annotation Project (

Slayden et al., 2013

Rv2558 (-)

Property	Value	Creator	Evidence	PMID	Comment
Interaction	Regulatory Rv2557	gaurisd10	IDA		Spectrophotometric G. Fenhalls, L. Stevens et al. In situ detection of Mycobacterium tuberculosis transcripts in human lung granulomas reveals differential gene expression in necrotic lesions. Infect. Immun. 2002
Citation	Cloning, purification and comparative structural analysis of two hypothetical proteins from Mycobacterium tuberculosis found in the human granuloma during persistence and highly up-regulated under carbon-starvation conditions. A. Luthra, SS. Malik et al. Protein Expr. Purif. 2008	gaurisd10	IDA	18640278	Spectrophotometric
Interaction	Regulatory Rv2557	gaurisd10	IDA		Spectrophotometric A. Luthra, SS. Malik et al. Cloning, purification and comparative structural analysis of two hypothetical proteins from Mycobacterium tuberculosis found in the human granuloma during persistence and highly up-regulated under carbon-starvation conditions. Protein Expr. Purif. 2008
Citation	The carbon starvation-inducible genes Rv2557 and Rv2558 of Mycobacterium tuberculosis are not required for long-term survival under carbon starvation and for virulence in SCID mice. BG. Gordhan, DA. Smith et al. Tuberculosis (Edinburgh, Scotland) 2006	gaurisd10	IDA	16376615	Structural Analysis
Interaction	Regulatory Rv2557	gaurisd10	IDA		Structural Analysis BG. Gordhan, DA. Smith et al. The carbon starvation-inducible genes Rv2557 and Rv2558 of Mycobacterium tuberculosis are not required for long-term survival under carbon starvation and for virulence in SCID mice. Tuberculosis (Edinburgh, Scotland) 2006
Citation	In situ detection of Mycobacterium tuberculosis transcripts in human lung granulomas reveals differential gene expression in necrotic lesions. G. Fenhalls, L. Stevens et al. Infect. Immun. 2002	gaurisd10	IDA	12379712	Structural Analysis
Interaction	Regulatory Rv2557	gaurisd10	IDA		Structural Analysis G. Fenhalls, L. Stevens et al. In situ detection of Mycobacterium tuberculosis transcripts in human lung granulomas reveals differential gene expression in necrotic lesions. Infect. Immun. 2002
Citation	Cloning, purification and comparative structural analysis of two hypothetical proteins from Mycobacterium tuberculosis found in the human granuloma during persistence and highly up-regulated under carbon-starvation conditions. A. Luthra, SS. Malik et al. Protein Expr. Purif. 2008	gaurisd10	IDA	18640278	Structural Analysis
Interaction	Regulatory Rv2557	gaurisd10	IDA		Structural Analysis A. Luthra, SS. Malik et al. Cloning, purification and comparative structural analysis of two hypothetical proteins from Mycobacterium tuberculosis found in the human granuloma during persistence and highly up-regulated under carbon-starvation conditions. Protein Expr. Purif. 2008
Interaction	Regulatory Rv2557	gaurisd10	IDA		Structural Analysis BG. Gordhan, DA. Smith et al. The carbon starvation-inducible genes Rv2557 and Rv2558 of Mycobacterium tuberculosis are not required for long-term survival under carbon starvation and for virulence in SCID mice. Tuberculosis (Edinburgh, Scotland) 2006
Interaction	Regulatory Rv2557	gaurisd10	IDA		Structural Analysis G. Fenhalls, L. Stevens et al. In situ detection of Mycobacterium tuberculosis transcripts in human lung granulomas reveals differential gene expression in necrotic lesions. Infect. Immun. 2002
Interaction	Regulatory Rv2557	gaurisd10	IDA		Structural Analysis A. Luthra, SS. Malik et al. Cloning, purification and comparative structural analysis of two hypothetical proteins from Mycobacterium tuberculosis found in the human granuloma during persistence and highly up-regulated under carbon-starvation conditions. Protein Expr. Purif. 2008
Citation	The carbon starvation-inducible genes Rv2557 and Rv2558 of Mycobacterium tuberculosis are not required for long-term survival under carbon starvation and for virulence in SCID mice. BG. Gordhan, DA. Smith et al. Tuberculosis (Edinburgh, Scotland) 2006	gaurisd10	IDA	16376615	Spectrophotometric
Interaction	Regulatory Rv2557	gaurisd10	IDA		Spectrophotometric BG. Gordhan, DA. Smith et al. The carbon starvation-inducible genes Rv2557 and Rv2558 of Mycobacterium tuberculosis are not required for long-term survival under carbon starvation and for virulence in SCID mice. Tuberculosis (Edinburgh, Scotland) 2006
Citation	In situ detection of Mycobacterium tuberculosis transcripts in human lung granulomas reveals differential gene expression in necrotic lesions. G. Fenhalls, L. Stevens et al. Infect. Immun. 2002	gaurisd10	IDA	12379712	Spectrophotometric
Interaction	Regulatory Rv2557	gaurisd10	IDA		Spectrophotometric BG. Gordhan, DA. Smith et al. The carbon starvation-inducible genes Rv2557 and Rv2558 of Mycobacterium tuberculosis are not required for long-term survival under carbon starvation and for virulence in SCID mice. Tuberculosis (Edinburgh, Scotland) 2006
Interaction	Regulatory Rv2557	gaurisd10	IDA		Spectrophotometric G. Fenhalls, L. Stevens et al. In situ detection of Mycobacterium tuberculosis transcripts in human lung granulomas reveals differential gene expression in necrotic lesions. Infect. Immun. 2002
Interaction	Regulatory Rv2557	gaurisd10	IDA		Spectrophotometric A. Luthra, SS. Malik et al. Cloning, purification and comparative structural analysis of two hypothetical proteins from Mycobacterium tuberculosis found in the human granuloma during persistence and highly up-regulated under carbon-starvation conditions. Protein Expr. Purif. 2008

Property

Value

Creator

Evidence

PMID

Comment

Interaction

Regulatory Rv2557

gaurisd10

IDA

Spectrophotometric
G. Fenhalls, L. Stevens et al. In situ detection of Mycobacterium tuberculosis transcripts in human lung granulomas reveals differential gene expression in necrotic lesions. Infect. Immun. 2002

Citation

Cloning, purification and comparative structural analysis of two hypothetical proteins from Mycobacterium tuberculosis found in the human granuloma during persistence and highly up-regulated under carbon-starvation conditions. A. Luthra, SS. Malik et al. Protein Expr. Purif. 2008

gaurisd10

IDA

18640278

Spectrophotometric

Interaction

Regulatory Rv2557

gaurisd10

IDA

Spectrophotometric
A. Luthra, SS. Malik et al. Cloning, purification and comparative structural analysis of two hypothetical proteins from Mycobacterium tuberculosis found in the human granuloma during persistence and highly up-regulated under carbon-starvation conditions. Protein Expr. Purif. 2008

Citation

The carbon starvation-inducible genes Rv2557 and Rv2558 of Mycobacterium tuberculosis are not required for long-term survival under carbon starvation and for virulence in SCID mice. BG. Gordhan, DA. Smith et al. Tuberculosis (Edinburgh, Scotland) 2006

gaurisd10

IDA

16376615

Structural Analysis

Interaction

Regulatory Rv2557

gaurisd10

IDA

Structural Analysis
BG. Gordhan, DA. Smith et al. The carbon starvation-inducible genes Rv2557 and Rv2558 of Mycobacterium tuberculosis are not required for long-term survival under carbon starvation and for virulence in SCID mice. Tuberculosis (Edinburgh, Scotland) 2006

Citation

In situ detection of Mycobacterium tuberculosis transcripts in human lung granulomas reveals differential gene expression in necrotic lesions. G. Fenhalls, L. Stevens et al. Infect. Immun. 2002

gaurisd10

IDA

12379712

Structural Analysis

Interaction

Regulatory Rv2557

gaurisd10

IDA

Structural Analysis
G. Fenhalls, L. Stevens et al. In situ detection of Mycobacterium tuberculosis transcripts in human lung granulomas reveals differential gene expression in necrotic lesions. Infect. Immun. 2002

Citation

gaurisd10

IDA

18640278

Structural Analysis

Interaction

Regulatory Rv2557

gaurisd10

IDA

Structural Analysis
A. Luthra, SS. Malik et al. Cloning, purification and comparative structural analysis of two hypothetical proteins from Mycobacterium tuberculosis found in the human granuloma during persistence and highly up-regulated under carbon-starvation conditions. Protein Expr. Purif. 2008

Interaction

Regulatory Rv2557

gaurisd10

IDA

Interaction

Regulatory Rv2557

gaurisd10

IDA

Interaction

Regulatory Rv2557

gaurisd10

IDA

Citation

gaurisd10

IDA

16376615

Spectrophotometric

Interaction

Regulatory Rv2557

gaurisd10

IDA

Spectrophotometric
BG. Gordhan, DA. Smith et al. The carbon starvation-inducible genes Rv2557 and Rv2558 of Mycobacterium tuberculosis are not required for long-term survival under carbon starvation and for virulence in SCID mice. Tuberculosis (Edinburgh, Scotland) 2006

Citation

In situ detection of Mycobacterium tuberculosis transcripts in human lung granulomas reveals differential gene expression in necrotic lesions. G. Fenhalls, L. Stevens et al. Infect. Immun. 2002

gaurisd10

IDA

12379712

Spectrophotometric

Interaction

Regulatory Rv2557

gaurisd10

IDA

Interaction

Regulatory Rv2557

gaurisd10

IDA

Interaction

Regulatory Rv2557

gaurisd10

IDA

Comments