Rv1640c Putative membrane protein found fused to lysyl-tRNA synthetase like protein / Lysyl-tRNA synthetase (class II) related protein found fused to membrane protein

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1640c lysS Putative membrane protein found fused to lysyl-tRNA synthetase like protein / Lysyl-tRNA synthetase... CDS 1848517 1852035 - 3 519 1 172 FALSE

Rv1640c (Putative membrane protein found fused to lysyl-tRNA synthetase like protein / Lysyl-tRNA synthetase (class II) related protein found fused to membrane protein) is predicted to be co-regulated in modules bicluster_0115 with residual 0.48 and bicluster_0438 with residual 0.51.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 50.00 and 1,500.00 for bicluster_0115 and 2.50 and 3,200.00 for bicluster_0438 respectively.

These modules are enriched for following go terms: porphyrin-containing compound metabolic ..., porphyrin-containing compound biosynthet..., cofactor biosynthetic process, sulfur amino acid biosynthetic process, sulfur amino acid metabolic process, cofactor metabolic process.

This gene is found to be non-essential for growth on cholesterol.

Mutant available?: Yes

BASS Score Distance to Tuberculist Start Codon Internal TSS Re-Annotated Start Tuberculist Annotated Start
-0.143 2844 1849191 1851852 1852035
Last update: 10/16/2017 - 11:39
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-18440 MT1678 2859
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 5 of 5
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, TetR family
No -55 0 0.998111 Internal.TSS
Transcriptional regulator, IclR family
No -117 -0.47 0.20588 Antisense.TSS
WhiB family transcriptional regulator
No -83 -0.18 0.441191 Internal.TSS
Transcriptional regulator, IclR family
No 65 -0.26 0.547426 CDS
Transcriptional regulator, ArsR family
No -94 0.1 0.718333 Internal.TSS
Motif 1 Motif 2 Residual
bicluster_0115
e.value: 
50
Motif Bicluster: 
e.value: 
1500
Motif Bicluster: 
0.48
bicluster_0438
e.value: 
2.5
Motif Bicluster: 
e.value: 
3200
Motif Bicluster: 
0.51
Product (LegacyBRC) Product (RefSeq)
Putative lysyl-tRNA synthetase 2 lysyl-tRNA synthetase
Operon # Operon
1078 Rv1640c
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Aminoacyl-tRNA biosynthesis

69
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15608778 NP_216156.1 Run
GO:0005829

cytosol

cytosol

Details: 
The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
GO Category: 
cellular_component
371
Total items in this category:  
GO:0005886

plasma membrane

plasma membrane

Details: 
The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
GO Category: 
cellular_component
1284
Total items in this category:  
Description:Expression data from transcription factor over expression experiments. TFOE are matched to the ChIP-seq experiment done simultaneously. This dataset is described in Rustad et al. 2014, Genome Biology.
Quantitative Proteomics Data
Cholesterol Essentiality t-test p-value Cholesterol/Glycerol Ratio
non-essential 0.040000 1.08

How essentiality calculations were done?

The relative representation of each mutant was determined by calculating the fold change (sequence reads/insertion in cholesterol divided by sequence reads/insertion in glycerol) for each gene. Statistical significance was determined by t-test. Each insertion site in each replicate sample was treated as a separate data point. The hyperbola used for defining genes specifically required for growth in cholesterol was defined by the formula, y = 3.8/x+0.7. Genes above this line are annotated as required for growth on cholesterol.