chp2 Resolved · high auto-curated
H37Rv Rv1184c · MTBC0 mtbc0_001272 ·
359 aa · 1332974–1334053 (-) ·
RefSeq NP_215700.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | diacyltrehalose acyltransferase Chp2 |
| Revised (this work) | Diacyltrehalose acyltransferase Chp2. Pfam: PE-PPE (PF08237.18). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O50440
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Diacyltrehalose acyltransferase Chp2 |
| EC (curated) |
EC 2.3.1.-
|
| Curated function | Involved in the final steps of polyacyltrehalose (PAT) biosynthesis. Catalyzes the transfer of three mycolipenoyl groups onto diacyltrehalose (DAT) to form PAT. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
N Cell motility
|
|---|---|
| eggNOG description | domain protein |
| Orthologous group | COG5651 |
| Gene Ontology (6) |
GO:0005575, GO:0005618, GO:0005623, GO:0030312, GO:0044464, GO:0071944
|
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 | 0.27 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 synonymous, 4 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 |
|---|---|---|---|---|
PE-PPE | PF08237.18 | 7.5e-81 | 79–316 | PE-PPE domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: fadD21 (fatty-acid--CoA ligase FadD21), medium confidence from genomic context alone (score 595 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) |
|---|---|---|---|---|
Rv1183 mmpL10 |
transmembrane transport protein MmpL10 | 850 | 747 | coexpression:733 textmining:434 |
Rv3822 chp1 hyp |
hypothetical protein | 783 | 740 | coexpression:740 |
Rv1185c fadD21 |
fatty-acid--CoA ligase FadD21 | 843 | 595 ctx | neighborhood:483 textmining:630 |
Rv1182 papA3 |
acyltransferase papA3 | 726 | 532 | database:500 textmining:440 |
Rv3487c lipF |
carboxylesterase LipF | 467 | 359 | |
Rv3824c papA1 |
acyltransferase | 507 | 317 | |
Rv3823c mmpL8 |
integral membrane transport protein MmpL8 | 414 | 293 | |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 532 | 210 | textmining:433 |
Rv1181 pks4 |
polyketide beta-ketoacyl synthase | 545 | 95 | textmining:518 |
Rv1180 pks3 |
polyketide beta-ketoacyl synthase | 542 | 93 | textmining:516 |
Rv1157c hyp |
hypothetical protein | 487 | 56 | textmining:479 |
Rv3207c hyp |
hypothetical protein | 443 | 55 | textmining:435 |
Rv3084 lipR |
acetyl-hydrolase LipR | 542 | 53 | textmining:537 |
Rv2190c ripC |
endopeptidase | 514 | 47 | textmining:511 |
Rv0315 |
beta-1,3-glucanase | 422 | 44 | textmining:421 |
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: diacyltrehalose acyltransferase Chp2
- Pfam (hmmscan --cut_ga): PE-PPE PF08237.18 (E=8e-81)
- (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_215700.1)
- Domains: Pfam-A via hmmscan --cut_ga — PE-PPE (PF08237.18)
- 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
COG5651 - Curated reference: UniProt O50440 (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 —
18 functional partner(s); context anchor
fadD21 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001272|Rv1184c|chp2 MKRVIAGAFAVWLVGWAGGFGTAIAASEPAYPWAPGPPPSPSPVGDASTAKVVYALGGARMPGIPWYEYTNQAGSQYFPNAKHDLIDYPAGAAFSWWPTMLLPPGSHQDNMTVGVAVKDGTNSLDNAIHHGTDPAAAVGLSQGSLVLDQEQARLANDPTAPAPDKLQFTTFGDPTGRHAFGASFLARIFPPGSHIPIPFIEYTMPQQVDSQYDTNHVVTAYDGFSDFPDRPDNLLAVANAAIGAAIAHTPIGFTGPGDVPPQNIRTTVNSRGATTTTYLVPVNHLPLTLPLRYLGMSDAEVDQIDSVLQPQIDAAYARNDNWFTRPVSVDPVRGLDPLTAPGSIVEGARGLLGSPAFGG