TB Genome Annotation Portal

Rv0374c (-)

• Current annotations:
  • TBCAP: (community-based annotations - see table at bottom of page)
  • TBDB: carbon-monoxide dehydrogenase small subunit
  • REFSEQ: carbon monoxyde dehydrogenase small subunit
  • PATRIC: Carbon monoxide dehydrogenase small chain (EC 1.2.99.2)
  • TUBERCULIST: Probable carbon monoxyde dehydrogenase (small chain)
  • NCBI: Probable carbon monoxyde dehydrogenase (small chain)
  • updated information (H37Rv4):
    • gene name: -
    • function:
    • reference:
• Type: Conditional
• Start: 451800
• End: 452279
• Operon:


• Trans-membrane region:
  
• Role: I.B.7 - Miscellaneous oxidoreductases and oxygenases
• GO terms:
  • GO:0055114 - oxidation-reduction process (Uniprot)
  • GO:0051536 - iron-sulfur cluster binding (Uniprot)
  • GO:0046872 - metal ion binding (Uniprot)
  • GO:0022900 - electron transport chain (Uniprot)
  • GO:0016491 - oxidoreductase activity (Uniprot)
  • GO:0009055 - electron transfer activity (Uniprot)
• Reaction(s) (based on iSM810 metabolic model):
  • FERI[c] + 2 CO[c] -> 2 H[c] + 2 CO2[c] + FERO[c]
• 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
  1ZXI	59%	Oligotropha carboxidovorans	Reconstituted CO dehydrogenase from Oligotropha carboxidovorans
  1N63	59%	Oligotropha carboxidovorans	Crystal Structure of the Cu,Mo-CO Dehydrogenase (CODH); Carbon monoxide reduced state
  1N62	59%	Oligotropha carboxidovorans	Crystal Structure of the Mo,Cu-CO Dehydrogenase (CODH), n-butylisocyanide-bound state
  1N61	59%	Oligotropha carboxidovorans	Crystal Structure of the Cu,Mo-CO Dehydrogenase (CODH); Dithionite reduced state
  1N60	59%	Oligotropha carboxidovorans	Crystal Structure of the Cu,Mo-CO Dehydrogenase (CODH); Cyanide-inactivated Form
  1N5W	59%	Oligotropha carboxidovorans	Crystal Structure of the Cu,Mo-CO Dehydrogenase (CODH); Oxidized form
  4ZOH	57%	Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7)	Crystal structure of glyceraldehyde oxidoreductase
  1FFV	56%	Hydrogenophaga pseudoflava	CARBON MONOXIDE DEHYDROGENASE FROM HYDROGENOPHAGA PSEUDOFLAVA
  1FFU	56%	Hydrogenophaga pseudoflava	CARBON MONOXIDE DEHYDROGENASE FROM HYDROGENOPHAGA PSEUDOFLAVA WHICH LACKS THE MO-PYRANOPTERIN MOIETY OF THE MOLYBDENUM COFACTOR
  1T3Q	50%	Pseudomonas putida	Crystal structure of quinoline 2-Oxidoreductase from Pseudomonas Putida 86

• Links to additional information on Rv0374c:
  • KEGG - nucleotide and amino acid sequences of gene
  • Mycobrowser
  • PATRIC
  • BioCyc
  • Systems Biology
  • TBDB (updated)
  • Phyre2 structure prediction, model: final.casp.pdb (from Mao et al, 2013)
  • UniProt
  • AlphaFold model
  • Vulnerability = 0.93 (from Jeremy Rock's lab)

Amino Acid Sequence

MQVNMTVNGEPVTAEVEPRMLLVHFLRDQLRLTGTHWGCDTSNCGTCVVEVDGVPVKSCTMLAVMASGHSIRTVEGLAGPDGQLDPVQEGFMRCHGLQCG
FCTPGMLITARALLDRNPDPDEQTIREAISGQICRCTGYTTIVRSIQWAAAHQTVKAQS

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)	0.5 (0.05)	1.82 (0.74)
codons under selection
omega plots
genetic variants*	link	link
statistics at each codon	link	link