hpx Resolved · high auto-curated
H37Rv Rv3171c · MTBC0 - ·
299 aa · 3539846–3540745 (-) ·
RefSeq NP_217687.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | non-heme haloperoxidase Hpx |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Non-heme haloperoxidase Hpx. Pfam: Abhydrolase_1 (PF00561.27), Hydrolase_4 (PF12146.16), Abhydrolase_6 (PF12697.14), Abhydrolase_4 (PF08386.17). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Annotated on the H37Rv protein: this gene has no 1:1 ancestral MTBC0 anchor (PE/PPE, paralogue, IS element, or otherwise unanchored CDS).
Curated reference (UniProt)
| UniProt |
O53321
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Possible non-heme haloperoxidase Hpx |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
I Lipid transport and metabolism
|
|---|---|
| Preferred name | hpx |
| eggNOG description | Alpha beta hydrolase |
| Orthologous group | COG2267 |
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 | 0.473 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 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)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
Abhydrolase_1 | PF00561.27 | 5.0e-24 | 22–272 | alpha/beta hydrolase fold |
Hydrolase_4 | PF12146.16 | 8.6e-19 | 24–256 | Serine aminopeptidase, S33 |
Abhydrolase_6 | PF12697.14 | 6.8e-19 | 24–278 | Alpha/beta hydrolase family |
Abhydrolase_4 | PF08386.17 | 1.3e-04 | 198–283 | TAP-like protein |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: bpoC (non-heme bromoperoxidase BpoC), high confidence from genomic context alone (score 728 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0554 bpoC |
non-heme bromoperoxidase BpoC | 728 | 728 ctx | cooccurence:728 |
Rv0134 ephF |
epoxide hydrolase EphF | 697 | 698 ctx | cooccurence:696 |
Rv3177 |
peroxidase | 635 | 635 ctx | cooccurence:633 |
Rv2296 dhmA1 |
haloalkane dehalogenase | 545 | 546 ctx | cooccurence:543 |
Rv1833c dhmA2 |
haloalkane dehalogenase | 515 | 516 ctx | cooccurence:514 |
Rv3172c hyp |
hypothetical protein | 506 | 506 ctx | neighborhood:504 |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 529 | 501 | experimental:441 |
Rv2940c mas |
multifunctional mycocerosic acid synthase | 528 | 501 | experimental:441 |
Rv1527c pks5 |
polyketide synthase | 527 | 500 | experimental:441 |
Rv2048c pks12 |
polyketide synthase | 526 | 499 | experimental:441 |
Rv2933 ppsC |
phthiocerol synthesis polyketide synthase type I PpsC | 526 | 498 | experimental:441 |
Rv1124 ephC |
epoxide hydrolase EphC | 497 | 498 ctx | cooccurence:495 |
Rv2946c pks1 |
polyketide synthase | 486 | 455 | |
Rv0125 pepA |
serine protease PepA | 455 | 455 | |
Rv0983 pepD |
serine protease PepD | 451 | 451 |
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
- Annotation from H37Rv (no MTBC0 1:1 anchor; H37Rv protein used): non-heme haloperoxidase Hpx
- Pfam (hmmscan --cut_ga): Abhydrolase_1 PF00561.27 (E=5e-24), Hydrolase_4 PF12146.16 (E=9e-19), Abhydrolase_6 PF12697.14 (E=7e-19), Abhydrolase_4 PF08386.17 (E=1e-04)
- (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_217687.1)
- Domains: Pfam-A via hmmscan --cut_ga — Abhydrolase_1 (PF00561.27), Hydrolase_4 (PF12146.16), Abhydrolase_6 (PF12697.14), Abhydrolase_4 (PF08386.17)
- 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
COG2267 - Curated reference: UniProt O53321 (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 —
27 functional partner(s); context anchor
bpoC - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv3171c|hpx MTVRAADGTPLHTQVFGPPHGYPIVLTHGFVCAIRAWAYQIADLAGDYRVIAFDHRGHGRSGVPRRGAYSLNHLAADLDSVLDATLAPRERAVVAGHSMGGITIAAWSDRYRHKVRRRTDAVALINTTTGDLVRKVKLLSVPRELSPVRVLAGRSLVNTFGGFPLPGAARALSRHVISTLAVAADADPSATRLVYELFTQTSAAGRGGCAKMLVEEVGSAHLNLDGLTVPTLVIGGVRDRLTPISQSRRIARTAPNVVGLVELPGGHCSMLERHQEVNSHLRALAESVTRHVRDRRISS