Rv2780 Alanine dehydrogenase (EC 1.4.1.1)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv2780 ald Alanine dehydrogenase (EC 1.4.1.1) CDS 3086820 3087935 + 1 116 371 FALSE

Rv2780 (Alanine dehydrogenase (EC 1.4.1.1)) is predicted to be co-regulated in modules bicluster_0220 with residual 0.49 and bicluster_0487 with residual 0.48.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 9.80 and 4,900.00 for bicluster_0220 and 0.00 and 3.50 for bicluster_0487 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?:

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Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 10 of 17
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulatory protein
No -39 0.6 0.0629124 Primary.TSS
Leucine-responsive regulatory protein, regulator for leucine (or lrp) regulon and high-affinity branched-chain amino acid transport system
No -44 -0.21 0.690019 Primary.TSS
HTH-type transcriptional regulator
No -28 -0.03 0.954975 Primary.TSS
Two component transcriptional regulatory protein DevR
No -62 -0.37 0.0893308 Primary.TSS
Possible oxidoreductase subunit
No -62 0.11 0.868731 Primary.TSS
transcriptional regulator, ArsR family
No -30 0.17 0.521097 Primary.TSS
Transcriptional regulator, IclR family
No -49 0.36 0.644263 Primary.TSS
Transcriptional regulator, AsnC family
No -91 0.5 0.487278 Primary.TSS
Transcriptional regulator, ArsR family
No -14 -0.58 0.0155638 Primary.TSS
Transcriptional repressor EthR, TetR family
No -42 0.06 0.975094 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0220
e.value: 
9.8
Motif Bicluster: 
e.value: 
4900
Motif Bicluster: 
0.49
bicluster_0487
e.value: 
0.0000000000079
Motif Bicluster: 
e.value: 
3.5
Motif Bicluster: 
0.48
Product (LegacyBRC) Product (RefSeq)
Alanine dehydrogenase secreted L-alanine dehydrogenase ALD (40 kDa antigen) (TB43)
Operon # Operon
1828
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Alanine, aspartate and glutamate metabolism

26
Total items in this category:  

KEGG

Taurine and hypotaurine metabolism

7
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15609917 NP_217296.1 Run
GO:0000286

alanine dehydrogenase activity

alanine dehydrogenase activity

Details: 
Catalysis of the reaction: L-alanine + H2O + NAD+ = pyruvate + NH3 + NADH + H(+).
GO Category: 
molecular_function
1
Total items in this category:  
GO:0001666

response to hypoxia

response to hypoxia

Details: 
Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.
GO Category: 
biological_process
37
Total items in this category:  
GO:0005576

extracellular region

extracellular region

Details: 
The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
GO Category: 
cellular_component
272
Total items in this category:  
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:  
GO:0051260

protein homooligomerization

protein homooligomerization

Details: 
The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of identical component monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
GO Category: 
biological_process
31
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
t-test p-value Cholesterol/Glycerol Ratio
0.360000 1.37

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.

TRIP log2 fold abundance change

reports the log2 abundance fold change of each TFI strain, relative to no induction, in absence or presence of drug, averaged across experimental replicates. Also reported are the accompanying z-scores and two-sided t-test p-values for each TFI strain under each condition. Please refer to Ma et al., 2020, Nature Microbiology for more information.

p-value Untreated:
p-value INH: