Rv3635 Family assigned · medium
H37Rv Rv3635 · MTBC0 mtbc0_003852 ·
591 aa · 4097338–4099113 (+) ·
RefSeq NP_218152.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transmembrane protein |
|---|---|
| MTBC0 PGAP re-annotation | hypothetical protein |
| Revised (this work) | Apolipoprotein-N-acyltransferase-family membrane enzyme (eggNOG COG0815, cell-envelope COG category M): transfers a fatty-acyl group onto membrane lipoproteins (lipoprotein N-acylation / maturation). RefSeq leaves it a 'conserved transmembrane protein'. Family/activity-level; not asserted as the sole M. tuberculosis Lnt. |
Curated reference (UniProt)
| UniProt |
I6Y460
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable conserved transmembrane protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
M Cell wall / membrane / envelope biogenesis
|
|---|---|
| eggNOG description | Transfers the fatty acyl group on membrane lipoproteins |
| Orthologous group | COG0815 |
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 | 0.322 · 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: galE1 (UDP-glucose 4-epimerase), high confidence from genomic context alone (score 795 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3634c galE1 |
UDP-glucose 4-epimerase | 796 | 795 ctx | neighborhood:790 |
Rv0227c |
membrane protein | 731 | 732 ctx | cooccurence:715 |
Rv0226c |
transmembrane protein | 730 | 730 ctx | cooccurence:687 |
Rv1476 |
membrane protein | 715 | 716 ctx | cooccurence:715 |
Rv3035 hyp |
hypothetical protein | 717 | 707 ctx | cooccurence:704 |
Rv3346c |
transmembrane protein | 704 | 705 ctx | cooccurence:703 |
Rv2673 aftC |
alpha-(1->3)-arabinofuranosyltransferase | 699 | 699 ctx | cooccurence:695 |
Rv3802c |
membrane protein | 686 | 686 ctx | cooccurence:686 |
Rv3527 hyp |
hypothetical protein | 668 | 668 ctx | cooccurence:668 |
Rv1254 |
acyltransferase | 655 | 640 ctx | cooccurence:627 |
Rv3244c lpqB |
lipoprotein LpqB | 626 | 626 ctx | cooccurence:618 |
Rv0224c |
methyltransferase | 613 | 614 ctx | cooccurence:607 |
Rv0466 hyp |
hypothetical protein | 594 | 594 ctx | cooccurence:593 |
Rv1275 lprC |
lipoprotein LprC | 593 | 594 ctx | cooccurence:591 |
Rv0479c |
membrane protein | 582 | 582 ctx | cooccurence:582 |
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
- eggNOG COG0815 = apolipoprotein N-acyltransferase (transfers fatty-acyl onto membrane lipoprotein)
- Integral membrane (DeepTMHMM, phase8)
- eggNOG-mapper orthology (COG functional assignment, under-propagated by the auto-curation). A family/activity-level assignment from orthology, not a substrate demonstrated in M. tuberculosis.
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_218152.1)
- 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
COG0815 - Curated reference: UniProt I6Y460 (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 —
56 functional partner(s); context anchor
galE1 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003852|Rv3635| MPAPRMPRVALVAVLLITVQLVVRVVLAFGGYFYWDDLILVGRAGTGGLLSPSYLFDDHDGHVMPGAFLVAGAIIRVAPLVWTGPAISLVVLQLLESLALLRALYVISSWRPVLLIPLTFALFTPLAVPGFAWWAAALNSLPMLAALAWVCADAILLVRTGNHRYAVTGVLVYLGGLLFFEKAAVIPFVSFAVAALQCHVRGDRSALATVWRAGVRLWTPSLALTVGWVALYLAVVDQRRWSSDLSMTWDLLCRSVTHGIVPALAGGPWDWARWAPASPWATPPAVVMVLGWLVLIAVLALSLVRKRRIGPVWLTAAGYAVACQVPIFLMRSSPFTALELAQTLRYFPDLVVVLALLAAVALQAPNRAGTRWLDASPARAVATVASAVLFLTSSLYSTATFLASWRDNPTEGYLKNAQASLAAAASGAPLLDQEVDPLVLQRVAWPENLASHMFALLRVRPEFATTTTQLRMFTSTGRLVDAKVTWVRTIIAGPVPQCGYFVQPDRPERLILDGPLLPGDWTVELNYLANSDGSMALALSDGPERKVPVHPGLNRVYARLPGAGDAITVRANTTALSLCIGAAPVGFLAPA