lprO Family assigned · medium auto-curated
H37Rv Rv0179c · MTBC0 mtbc0_000192 ·
369 aa · 210051–211160 (-) ·
RefSeq NP_214693.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | lipoprotein LprO |
|---|---|
| MTBC0 PGAP re-annotation | phosphodiester glycosidase family protein |
| Revised (this work) | Phosphodiester glycosidase family protein. Pfam: NAGPA (PF09992.15). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O07423
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Possible lipoprotein LprO |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | lprO |
| eggNOG description | Phosphodiester glycosidase |
| Orthologous group | 2F81I |
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 | 0.192 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 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 |
|---|---|---|---|---|
NAGPA | PF09992.15 | 7.8e-07 | 250–345 | Phosphodiester glycosidase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0180c (transmembrane protein), medium confidence from genomic context alone (score 641 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2145c wag31 |
cell wall synthesis protein Wag31 | 751 | 751 | coexpression:751 |
Rv3414c sigD |
ECF RNA polymerase sigma factor SigD | 730 | 730 | coexpression:730 |
Rv3810 pirG |
cell surface protein | 730 | 730 | coexpression:730 |
Rv0180c |
transmembrane protein | 764 | 641 ctx | neighborhood:639 |
Rv0181c hyp |
hypothetical protein | 782 | 564 ctx | neighborhood:563 textmining:520 |
Rv1477 ripA |
peptidoglycan endopeptidase RipA | 553 | 553 | coexpression:553 |
Rv1987 |
chitinase | 493 | 494 | coexpression:494 |
Rv0182c sigG |
ECF RNA polymerase sigma factor SigG | 573 | 487 ctx | neighborhood:484 |
Rv2721c hyp |
hypothetical protein | 474 | 474 | coexpression:474 |
Rv3096 hyp |
hypothetical protein | 441 | 441 | coexpression:441 |
Rv2525c hyp |
hypothetical protein | 427 | 193 | |
Rv3495c lprN |
Mce family lipoprotein LprN | 636 | 46 | textmining:635 |
Rv1244 lpqZ |
lipoprotein LpqZ | 602 | 46 | textmining:601 |
Rv2518c ldtB |
L,D-transpeptidase LdtB | 505 | 45 | textmining:504 |
Rv2330c lppP |
lipoprotein LppP | 616 | 41 | textmining:617 |
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: lipoprotein LprO
- MTBC0 PGAP product: phosphodiester glycosidase family protein
- Pfam (hmmscan --cut_ga): NAGPA PF09992.15 (E=8e-07)
- (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_214693.1)
- Domains: Pfam-A via hmmscan --cut_ga — NAGPA (PF09992.15)
- 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
2F81I - Curated reference: UniProt O07423 (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 —
16 functional partner(s); context anchor
Rv0180c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000192|Rv0179c|lprO MWIRAERVAVLTPTASLRRLTACYAALAVCAALACTTGQPAARAADGREMLAQAIATTRGSYLVYNFGGGHPMPLLNAGGHWYEMNNGGHLMIIKNASQRLSPHLLVDTHTGDQARCEHNPGARTGEGLWQASEIYPPLKAWQRMGRPTIAVNANFFDVRGQKGGSWRSTGCSSPLGAYVDNTRGQGRANQAVTGTVAYAGKQGLSGGNELWSSLTTMILPVGGAPYVLRPKSRQDYDLATPVIEDLLNKNARFVAVAGIGLLSPGNTGQLHDGGPSAARTALAYAKQKDEMYIFQGGNYTPDNIQDLFRGLGSDTAILLDGGGSSAIVLRRDTGGMWAGAGSPKGSCDTRQVLCDSHERALPSWLAFN