Table 2.
Gene | Regulator Type | SNPa | Mutation | Lineage | SIFT Score | Domain | Protein Stabilityb |
---|---|---|---|---|---|---|---|
High predictive score | |||||||
Rv0275 | TetR | T 331588 C | L24S | Modern | 0.00 | HTH | −3.18 |
NarL | 2-component regulator | G 940602 C | G169R | 2 | 0.00 | HTH | −4.66 |
KdpD | 2-component sensor | Indel | H67 frameshift | 1 | n/a | 2-component sensor | n/a |
BlaI | penicillinase repressor | T 2096430 G | L57R | 1 | 0.05 | HTH | −8.72 |
SirR | Fe-dependent repressor | C 3097349 | Q131X | 1 | n/a | Fe-dependent repressor | n/a |
VirS | AraC | T 3447480 G | L316R | 1 | 0.01 | HTH | −2.03 |
Rv3167c | TetR | C 3536008 A | P17Q | 1 | 0.02 | HTH | -1.21 |
Rv3830c | TetR | Indel | S208 frameshift fusion | 2 | n/a | Low complexity | n/a |
Low predictive score | |||||||
RamB | HTH-XRE | A 555945 G | Q121R | 1 | 0.02 | Low complexity | n/a |
Rv0377 | LysR | G 455325 C | R302P | 2 | 0.00 | Low complexity | n/a |
MprA | 2-component regulator | A 1097023 G | S70G | Modern | 0.04 | cheY | +2.83 |
TcrS | 2-component sensor | C 1157771 G | S62C | 1 | 0.01 | Low complexity | n/a |
Zur | Fur | G 2641840 A | R64H | Modern | 0.02 | HTH | +0.47 |
Rv3736 | AraC | G 4187063 A | G144R | 1 | 0.01 | Arabinose-binding | n/a |
Note.—High predictive score: SNPs map to HTH DNA-binding domains of regulator and predicted to cause a loss of protein stability. Low predictive score: SNPs outside of HTH domain or in low-complexity regions and no loss of protein stability.
aAlleles are the ancestral and mutant with genomic position based on H37Rv.
bn/a: change in stability not possible due to stop codon or indel mutation or no protein structure over position.