TB Genome Annotation Portal

Rv1471 (trxB1)

• Current annotations:
  • TBCAP: (community-based annotations - see table at bottom of page)
  • TBDB: thioredoxin
  • REFSEQ: thioredoxin TRXB1
  • PATRIC: Thioredoxin TrxB1
  • TUBERCULIST: Probable thioredoxin TrxB1
  • NCBI: Probable thioredoxin TrxB1
  • updated information (H37Rv4):
    • gene name: trxB1
    • function:
    • reference:
• Type: Not Target
• Start: 1659370
• End: 1659741
• Operon:


• Trans-membrane region:
  
• Role: I.G.10 - Thioredoxin, glutaredoxin and mycothiol
• GO terms:
  • GO:0098869 - cellular oxidant detoxification (Uniprot)
  • GO:0055114 - oxidation-reduction process (Uniprot)
  • GO:0047134 - protein-disulfide reductase activity (Uniprot)
  • GO:0045454 - cell redox homeostasis (Uniprot)
  • GO:0034599 - cellular response to oxidative stress (Uniprot)
  • GO:0016671 - oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor (Uniprot)
  • GO:0015035 - protein disulfide oxidoreductase activity (Uniprot)
  • GO:0006662 - glycerol ether metabolic process (Uniprot)
  • GO:0005829 - cytosol (Uniprot)
  • GO:0004791 - thioredoxin-disulfide reductase activity (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
  3ZIV	45%	SYNTHETIC CONSTRUCT	Crystal Structure of Ancestral Thioredoxin Relative to last Archaea- Eukaryotes Common Ancestor (AECA) from the Precambrian Period
  3P2A	45%	Yersinia pestis	Crystal Structure of Thioredoxin 2 from Yersinia pestis
  5JY5	44%	Cryptococcus neoformans var. grubii serotype A	Crystal structure of Thioredoxin 1 from Cryptococcus neoformans at 1.8 Angstroms resolution
  2YOI	44%	SYNTHETIC CONSTRUCT	Crystal Structure of Ancestral Thioredoxin Relative to Last Eukaryotes Common Ancestor (LECA) from the Precambrian Period
  3HXS	43%	Bacteroides fragilis	Crystal Structure of Bacteroides fragilis TrxP
  2XC2	43%	SCHISTOSOMA MANSONI	Crystal structure of oxidized Schistosoma mansoni Thioredoxin pre- protein at 1.6 Angstrom
  2XBQ	43%	SCHISTOSOMA MANSONI	Crystal structure of reduced Schistosoma mansoni Thioredoxin pre- protein at 1.7 Angstrom
  2XBI	43%	SCHISTOSOMA MANSONI	Crystal structure of Schistosoma mansoni Thioredoxin at 1.6 Angstrom
  4BA7	43%	SYNTHETIC CONSTRUCT	Crystal Structure of Ancestral Thioredoxin Relative to Last Bacteria Common Ancestor (LBCA) from the Precambrian Period
  1XFL	43%	Arabidopsis thaliana	Solution Structure of Thioredoxin h1 from Arabidopsis Thaliana

• Links to additional information on trxB1:
  • TBDB (updated)
  • Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
  • UniProt
  • AlphaFold model
  • Vulnerability = 0.463 (from Jeremy Rock's lab)
  • KEGG - nucleotide and amino acid sequences of gene
  • Mycobrowser
  • PATRIC
  • BioCyc
  • Systems Biology

Amino Acid Sequence

VTTRDLTAAQFNETIQSSDMVLVDYWASWCGPCRAFAPTFAESSEKHPDVVHAKVDTEAERELAAAAQIRSIPTIMAFKNGKLLFNQAGALPPAALESLV
QQLKAYEVEAGEATTQNGRAQQA

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)	0.9 (0.11)	1.6 (0.59)
codons under selection
omega plots
genetic variants*	link	link
statistics at each codon	link	link