mazF5 Family assigned · medium auto-curated
H37Rv Rv1942c · MTBC0 mtbc0_002056 ·
109 aa · 2213760–2214089 (-) ·
RefSeq NP_216458.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | toxin MazF5 |
|---|---|
| MTBC0 PGAP re-annotation | type II toxin-antitoxin system PemK/MazF family toxin |
| Revised (this work) | Type II toxin-antitoxin system PemK/MazF family toxin. Pfam: PemK_toxin (PF02452.24). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P95272
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable endoribonuclease MazF5 |
| EC (curated) |
EC 3.1.-.-
|
| Curated function | Toxic component of a type II toxin-antitoxin (TA) system. Upon expression in M.smegmatis inhibits colony formation. Its toxic effect is neutralized by coexpression with cognate antitoxin MazE5. Probably an endoribonuclease (By similarity). |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
T Signal transduction mechanisms
|
|---|---|
| Preferred name | mazF5 |
| eggNOG description | PemK-like, MazF-like toxin of type II toxin-antitoxin system |
| Orthologous group | COG2337 |
| KEGG orthology |
K07171
|
| Gene Ontology (6) |
GO:0008150, GO:0040008, GO:0045926, GO:0048519, GO:0050789, GO:0065007
|
Orthology-based transfer (eggNOG 5.0.2, diamond). EC/KO/GO/CAZy are computed annotations, not manual curation; cross-check against the primary literature before treating a specific reaction as established.
Conservation & selection (intra-MTBC, 145 209 strains)
| pN/pS | 0.0 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 0 missense, 0 nonsense, 0 frameshift |
pN/pS from segregating SNPs (singletons removed) normalised by possible sites. Low pN/pS = purifying selection (a strong signal that a "hypothetical" is a real, constrained gene). A high pN/pS is ambiguous: relaxed constraint or positive selection (drug resistance, antigenic variation) inflate it; e.g. rpoB/katG/pncA score high here for resistance, not loss of function. A clonal disruption (one allele over a clade) suggests lineage pseudogenisation; a convergent one (many independent alleles) is typical of resistance loss-of-function.
Domains (Pfam, hmmscan --cut_ga)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
PemK_toxin | PF02452.24 | 6.7e-14 | 7–103 | PemK-like, MazF-like toxin of type II toxin-antitoxin system |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: mazE5 (antitoxin MazE5), high confidence from genomic context alone (score 883 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1943c mazE5 |
antitoxin MazE5 | 957 | 883 ctx | neighborhood:882 textmining:654 |
Rv1944c hyp |
hypothetical protein | 802 | 802 ctx | neighborhood:801 |
Rv2801A mazE9 |
antitoxin MazE9 | 803 | 782 ctx | cooccurence:686 |
Rv0456A mazF1 |
toxin MazF1 | 854 | 669 ctx | cooccurence:668 textmining:577 |
Rv1247c relB |
antitoxin RelB | 626 | 611 ctx | cooccurence:604 |
Rv2865 relF |
antitoxin RelF | 648 | 610 ctx | cooccurence:604 |
Rv1991A mazE6 |
antitoxin MazE6 | 656 | 607 | experimental:434 |
Rv1102c mazF3 |
mRNA interferase MazF3 | 851 | 589 ctx | cooccurence:586 textmining:652 |
Rv1246c relE |
toxin RelE | 705 | 584 ctx | cooccurence:572 |
Rv1945 hyp |
hypothetical protein | 582 | 582 ctx | neighborhood:581 |
Rv2063A mazF7 |
mRNA interferase MazF7 | 546 | 546 ctx | cooccurence:546 |
Rv2866 relG |
toxin RelG | 596 | 545 ctx | cooccurence:534 |
Rv2801c mazF9 |
mRNA interferase MazF9 | 881 | 449 ctx | cooccurence:449 textmining:793 |
Rv3407 vapB47 |
antitoxin VapB47 | 448 | 449 ctx | cooccurence:444 |
Rv3095 |
HTH-type transcriptional regulator | 414 | 415 | coexpression:415 |
STRING combines evidence channels (neighborhood, fusion, cooccurrence, coexpression, experimental, database, text-mining) into a 0–1000 score. The ctx badge marks edges carried by the genomic-context channels (conserved neighborhood, fusion, phylogenetic co-occurrence), which are independent of orthology and structure and the strongest signal for an unknown gene. The no text-mining column recomputes the score from data alone, so a link that does not depend on the literature is visible. Association is a function hypothesis, not proof: corroborate with the operon context and the primary literature before assigning a function.
Evidence
- Legacy H37Rv annotation: toxin MazF5
- MTBC0 PGAP product: type II toxin-antitoxin system PemK/MazF family toxin
- Pfam (hmmscan --cut_ga): PemK_toxin PF02452.24 (E=7e-14)
- (auto-curated by rules from PGAP + Pfam + Foldseek; not hand-reviewed)
Sources
- Ancestral sequence & coordinates: Harrison LB et al. (2024), An imputed ancestral reference genome for the MTBC, doi:10.1101/2023.09.07.556366
- Product annotation: NCBI PGAP on MTBC0; legacy from H37Rv NC_000962.3 (RefSeq NP_216458.1)
- Domains: Pfam-A via hmmscan --cut_ga — PemK_toxin (PF02452.24)
- Sequence-level signal: ESM Atlas (EvolutionaryScale × BioHub) — exploratory
- Controlled vocabulary: eggNOG-mapper 2.1.12 (Cantalapiedra et al. 2021,
doi:10.1093/molbev/msab293), eggNOG 5.0 DB
(Huerta-Cepas et al. 2019) — OG
COG2337 - Curated reference: UniProt P95272 (SwissProt, reviewed; Evidence at protein level)
- Intra-MTBC selection: pN/pS and disruption from SPDI variants of 145 209 MTBC strains (this work, local collection vs H37Rv NC_000962.3)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023,
doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 —
19 functional partner(s); context anchor
mazE5 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002056|Rv1942c|mazF5 MTALPARGEVWWCEMAEIGRRPVVVLSRDAAIPRLRRALVAPCTTTIRGLASEVVLEPGSDPIPRRSAVNLDSVESVSVAVLVNRLGRLADIRMRAICTALEVAVDCSR