TB Genome Annotation Portal

Rv2801c (mazF9)

• Current annotations:
  • TBCAP: (community-based annotations - see table at bottom of page)
  • TBDB: toxin
  • REFSEQ: hypothetical protein
  • PATRIC: Programmed cell death toxin YdcE
  • TUBERCULIST: Toxin MazF9
  • NCBI: Toxin MazF9
  • updated information (H37Rv4):
    • gene name: mazF9
    • function:
    • reference:
• Type: Not Target
• Start: 3110167
• End: 3110523
• Operon:


• Trans-membrane region:
  
• Role: V - Conserved hypotheticals
• GO terms:
  • GO:0090502 - RNA phosphodiester bond hydrolysis, endonucleolytic (Uniprot)
  • GO:0090305 - nucleic acid phosphodiester bond hydrolysis (Uniprot)
  • GO:0045926 - negative regulation of growth (Uniprot)
  • GO:0016787 - hydrolase activity (Uniprot)
  • GO:0006402 - mRNA catabolic process (Uniprot)
  • GO:0005515 - protein binding (Uniprot)
  • GO:0004521 - endoribonuclease activity (Uniprot)
  • GO:0004519 - endonuclease activity (Uniprot)
  • GO:0004518 - nuclease activity (Uniprot)
  • GO:0003677 - DNA binding (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):
  

  PDB	aa ident	species	PDB title
  6KYS	100%	Mycobacterium tuberculosis H37Rv	The structure of the M. tb toxin MazF-mt1
  6KYT	99%	Mycobacterium tuberculosis H37Rv	The structure of the M. tb toxin MazEF-mt1 complex
  5HJZ	99%	Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)	Structure of M. tuberculosis MazF-mt1 (Rv2801c) in complex with RNA
  6L29	97%	Mycobacterium tuberculosis	The structure of the MazF-mt1 mutant
  6L2A	94%	Mycobacterium tuberculosis	The structure of the M. tb toxin MazEF-mt1 complex
  5CR2	40%	Escherichia coli (strain K12)	E. coli MazF in complex with single strand DNA substrate analog
  5CO7	40%	Escherichia coli	E. coli MazF form III
  5CKB	40%	Escherichia coli K-12	E. coli MazF form II
  5CK9	40%	Escherichia coli K-12	E. coli MazF form I
  3NFC	40%	Escherichia coli	Crystal structure of E.coli MazF Toxin

• Links to additional information on mazF9:
  • TBDB (updated)
  • Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
  • UniProt
  • AlphaFold model
  • Vulnerability = 1.076 (from Jeremy Rock's lab)
  • KEGG - nucleotide and amino acid sequences of gene
  • Mycobrowser
  • PATRIC
  • BioCyc
  • Systems Biology

Amino Acid Sequence

VMRRGEIWQVDLDPARGSEANNQRPAVVVSNDRANATATRLGRGVITVVPVTSNIAKVYPFQVLLSATTTGLQVDCKAQAEQIRSIATERLLRPIGRVSA
AELAQLDEALKLHLDLWS

Additional Information

Analysis of Positive Selection in Clinical Isolates *new*

• Analysis of dN/dS (omega) in two collections of Mtb clinical isolates using GenomegaMap (Window model) (see description of methods)
  • Moldova: 2,057 clinical isolates
  • global set: 5,195 clinical isolates from 15 other countries
• In the omega plots, the black line shows the mean estimate of omega (dN/dS) at each codon, and the blue lines are the bounds for the 95% credible interval (95%CI, from MCMC sampling).
• A gene is under significant positive selection if the lower-bound of the 95%CI of omega (lower blue line) exceeds 1.0 at any codon.

	Moldova (2,057)	global set (5,195)
under significant positive selection?	NO	NO
omega peak height (95%CI lower bound)	1.38 (0.16)	1.78 (0.57)
codons under selection
omega plots
genetic variants*	link	link
statistics at each codon	link	link