Rv1841c Family assigned · medium auto-curated
H37Rv Rv1841c · MTBC0 mtbc0_001954 ·
349 aa · 2107713–2108762 (-) ·
RefSeq NP_216357.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | hemolysin family protein |
| Revised (this work) | Hemolysin family protein. Pfam: CNNM (PF01595.26), CBS (PF00571.34). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WLQ7
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv1841c |
UniProt still lists this protein as Uncharacterized protein Rv1841c; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | ytfL |
| eggNOG description | COG1253 Hemolysins and related proteins containing CBS domains |
| Orthologous group | COG1253 |
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 | n/a |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 0 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 |
|---|---|---|---|---|
CNNM | PF01595.26 | 6.7e-43 | 8–202 | Cyclin M transmembrane N-terminal domain |
CBS | PF00571.34 | 3.6e-06 | 289–339 | CBS domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: guaB1 (inosine-5'-monophosphate dehydrogenase), high confidence from genomic context alone (score 781 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) |
|---|---|---|---|---|
Rv1842c hyp |
hypothetical protein | 981 | 981 ctx | neighborhood:882 coexpression:801 |
Rv1843c guaB1 |
inosine-5'-monophosphate dehydrogenase | 789 | 781 ctx | neighborhood:743 |
Rv1844c gnd1 |
6-phosphogluconate dehydrogenase | 733 | 734 ctx | neighborhood:719 |
Rv1845c blaR |
sensor-transducer protein BlaR | 712 | 713 ctx | neighborhood:700 |
Rv1846c blaI |
transcriptional repressor BlaI | 698 | 698 ctx | neighborhood:695 |
Rv1837c glcB |
malate synthase | 643 | 644 ctx | neighborhood:639 |
Rv1836c hyp |
hypothetical protein | 630 | 631 ctx | neighborhood:618 |
Rv1840c PE_PGRS34 |
PE-PGRS family protein PE_PGRS34 | 504 | 485 ctx | neighborhood:485 |
Rv0545c pitA |
low-affinity inorganic phosphate transporter | 423 | 424 | |
Rv3396c guaA |
GMP synthase | 418 | 191 | |
Rv0421c hyp |
hypothetical protein | 541 | 100 | textmining:511 |
Rv2923c hyp |
hypothetical protein | 522 | 64 | textmining:511 |
Rv1879 hyp |
hypothetical protein | 805 | 55 | textmining:803 |
Rv1878 glnA3 |
glutamine synthetase GlnA | 638 | 45 | textmining:637 |
Rv1053c |
Hypothetical protein; Rv1053c, (MTV017.06c), len: 91 aa. Hypothetical unknown protein. This region is a possible MT-complex-specific genomic | 512 | 44 | textmining:511 |
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: hemolysin family protein
- Pfam (hmmscan --cut_ga): CNNM PF01595.26 (E=7e-43), CBS PF00571.34 (E=4e-06)
- (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_216357.1)
- Domains: Pfam-A via hmmscan --cut_ga — CNNM (PF01595.26), CBS (PF00571.34)
- 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
COG1253 - Curated reference: UniProt P9WLQ7 (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 —
17 functional partner(s); context anchor
guaB1 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001954|Rv1841c| MDVLSAVLLALLLIGANAFFVGAEFALISARRDRLEALAEQGKATAVTVIRAGEQLPAMLTGAQLGVTVSSILLGRVGEPAVVKLLQLSFGLSGVPPALLHTLSLAVALAIVVALHVLLGEMVPKNIALAGPERTAMLLVPPYLVYVRLARPFIAFYNNCANAILRLVGVQPKDELDIAVSTAELSEMIAESLSEGLLDHEEHTRLTRALRIRTRLVADVAVPLVNIRAVQVSAVGSGPTIGGVEQALAQTGYSRFPVVDRGGRFIGYLHIKDVLTLGDNPQTVIDLAVVRPLPRVPQSLPLADALSRMRRINSHLALVTADNGSVVGMVALEDVVEDLVGTMRDGTHR