Rv3916c Resolved · medium auto-curated
H37Rv Rv3916c · MTBC0 mtbc0_004150 ·
244 aa · 4428684–4429418 (-) ·
RefSeq NP_218433.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | acetyltransferase |
| Revised (this work) | Acetyltransferase. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O53594
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Acetyltransferase |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | acetyltransferase |
| Orthologous group | COG3153 |
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 | 0.282 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 synonymous, 5 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)
No Pfam-A domain above the gathering threshold (or not yet scanned).
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1332 (transcriptional regulator), medium confidence from genomic context alone (score 641 excluding text-mining). This association is the citable seed of a function hypothesis for this hypothetical protein.
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1332 |
transcriptional regulator | 641 | 641 ctx | cooccurence:630 |
Rv3304 hyp |
hypothetical protein | 608 | 608 ctx | cooccurence:608 |
Rv0474 |
HTH-type transcriptional regulator | 602 | 603 ctx | cooccurence:597 |
Rv0857 hyp |
hypothetical protein | 587 | 587 ctx | cooccurence:576 |
Rv0854 hyp |
hypothetical protein | 558 | 558 ctx | cooccurence:558 |
Rv3918c parA |
chromosome partitioning protein ParA | 539 | 538 ctx | neighborhood:524 |
Rv3917c parB |
chromosome partitioning protein ParB | 535 | 535 ctx | neighborhood:524 |
Rv3919c gid |
16S rRNA (guanine(527)-N(7))-methyltransferase RsmG | 531 | 531 ctx | neighborhood:524 |
Rv3231c hyp |
hypothetical protein | 517 | 517 ctx | cooccurence:514 |
Rv2185c TB16.3 hyp |
hypothetical protein | 453 | 453 ctx | cooccurence:452 |
Rv0293c hyp |
hypothetical protein | 449 | 449 | coexpression:449 |
Rv3463 hyp |
hypothetical protein | 447 | 448 ctx | cooccurence:446 |
Rv3118 sseC1 hyp |
hypothetical protein | 441 | 442 ctx | cooccurence:438 |
Rv2448c valS |
valine--tRNA ligase | 440 | 441 ctx | cooccurence:440 |
Rv0814c sseC2 hyp |
hypothetical protein | 439 | 440 ctx | cooccurence:438 |
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: hypothetical protein
- MTBC0 PGAP product: acetyltransferase
- (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_218433.1)
- Domains: Pfam-A via hmmscan --cut_ga — none above threshold
- 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
COG3153 - Curated reference: UniProt O53594 (TrEMBL, unreviewed; 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 —
30 functional partner(s); context anchor
Rv1332 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_004150|Rv3916c| MSARITALRLEAFEQLPKHARRCVFWEVDPAILGKDDHLADPEFEKEAWLSMVMLEWGSCGQVATAVPDERSHAEPPCLGYVLYAPPSAVPRAQRFPTAPVSADAVLLTSMGIERGQADDDLPHSLIARVIEELVRRGVRALEAFGRTPAATDLQNPGAVTPDVRPVLEALGDCCVEHCIIDANFLMDVGFVVVAPHPYFPRLRLELDKGLGWKAEVEAALERLLENARLQEPIAAGSTAGNTS