Rv3817 Resolved · high auto-curated
H37Rv Rv3817 · MTBC0 mtbc0_004046 ·
251 aa · 4305757–4306512 (+) ·
RefSeq NP_218334.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | phosphotransferase |
|---|---|
| MTBC0 PGAP re-annotation | aminoglycoside 3'-phosphotransferase |
| Revised (this work) | Aminoglycoside 3'-phosphotransferase. Pfam: APH (PF01636.30). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O07806
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Possible phosphotransferase |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
J Translation, ribosomal structure and biogenesis
|
|---|---|
| eggNOG description | Phosphotransferase |
| Orthologous group | COG3231 |
| EC number |
EC 2.7.1.95
|
| KEGG orthology |
K00897
|
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 |
|---|---|---|---|---|
APH | PF01636.30 | 1.1e-15 | 48–237 | Phosphotransferase enzyme family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv3816c (acyltransferase), high confidence from genomic context alone (score 784 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3816c |
acyltransferase | 784 | 784 ctx | neighborhood:784 |
Rv3818 hyp |
hypothetical protein | 671 | 671 ctx | neighborhood:671 |
Rv3819 hyp |
hypothetical protein | 671 | 671 ctx | neighborhood:671 |
Rv3815c |
acyltransferase | 605 | 605 ctx | neighborhood:605 |
Rv3814c |
acyltransferase | 581 | 581 ctx | neighborhood:581 |
Rv3813c hyp |
hypothetical protein | 563 | 563 ctx | neighborhood:558 |
Rv3225c |
GCN5-like N-acetyltransferase | 897 | 218 | textmining:875 |
Rv0262c aac |
aminoglycoside 2'-N-acetyltransferase | 514 | 49 | textmining:510 |
Rv0127 mak |
maltokinase | 696 | 47 | textmining:695 |
Rv3168 |
aminoglycoside phosphotransferase | 433 | 41 | textmining:433 |
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: phosphotransferase
- MTBC0 PGAP product: aminoglycoside 3'-phosphotransferase
- Pfam (hmmscan --cut_ga): APH PF01636.30 (E=1e-15)
- (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_218334.1)
- Domains: Pfam-A via hmmscan --cut_ga — APH (PF01636.30)
- 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
COG3231 - Curated reference: UniProt O07806 (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 —
10 functional partner(s); context anchor
Rv3816c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_004046|Rv3817| MSFPSSPPALPAIVARFAVGRPVRAVWVNELGGVTFRVDSGMGAGCEFIKVARRGTADFANEARRLRWAAPYLAVPRVLGVGVDGDWAWLHTDALPGLSAVHPRWRASPQVAVPALGAGLRTLHDSLPVHSCPFDWSTASRLAKLAPARRAELGDSPPVDRLVVCHGDACSPNTILDDTGRCCGHVDFGNLGVADRWADLAVATLSLQWNFPDYPGQVRDDEFFAAYGVAPDPARIDYYRRLWQAEDDSSR