Rv0712 Family assigned · medium auto-curated
H37Rv Rv0712 · MTBC0 mtbc0_000754 ·
299 aa · 812939–813838 (+) ·
RefSeq NP_215226.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | formylglycine-generating enzyme family protein |
| Revised (this work) | Formylglycine-generating enzyme family protein. Pfam: FGE-sulfatase (PF03781.23). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6Y8I5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Formylglycine-generating enzyme |
| EC (curated) |
EC 1.8.3.7
|
| Curated function | Oxidase that catalyzes the conversion of cysteine to 3-oxoalanine on target proteins. 3-oxoalanine modification, which is also named formylglycine (fGly), occurs in the maturation of arylsulfatases and some alkaline phosphatases that use the hydrated form of 3-oxoalanine as a catalytic nucleophile. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | pkn1 |
| eggNOG description | Sulfatase-modifying factor enzyme 1 |
| Orthologous group | COG1262 |
| Gene Ontology (24) |
GO:0003674, GO:0003824, GO:0006464, GO:0006807, GO:0008150, GO:0008152, GO:0009987, GO:0016491, GO:0016667, GO:0016670, GO:0018158, GO:0019538 +12 more
|
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 | 0.0 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 0 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 |
|---|---|---|---|---|
FGE-sulfatase | PF03781.23 | 1.3e-87 | 2–293 | Sulfatase-modifying factor enzyme 1-like domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: atsA (arylsulfatase AtsA), high confidence from genomic context alone (score 979 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) |
|---|---|---|---|---|
Rv3077 |
hydrolase | 981 | 982 | experimental:973 |
Rv0711 atsA |
arylsulfatase AtsA | 978 | 979 ctx | neighborhood:814 cooccurence:734 experimental:430 |
Rv3299c atsB |
arylsulfatase AtsB | 846 | 846 ctx | cooccurence:721 experimental:430 |
Rv0296c |
sulfatase | 844 | 845 ctx | cooccurence:706 experimental:430 |
Rv0663 atsD |
arylsulfatase AtsD | 841 | 841 ctx | cooccurence:712 experimental:430 |
Rv0713 |
transmembrane protein | 480 | 481 ctx | neighborhood:481 |
Rv2378c mbtG |
L-lysine N6-monooxygenase | 447 | 420 | coexpression:401 |
Rv0709 rpmC |
50S ribosomal protein L29 | 406 | 406 ctx | neighborhood:404 |
Rv0705 rpsS |
30S ribosomal protein S19 | 406 | 406 ctx | neighborhood:404 |
Rv0708 rplP |
50S ribosomal protein L16 | 406 | 406 ctx | neighborhood:404 |
Rv0707 rpsC |
30S ribosomal protein S3 | 406 | 406 ctx | neighborhood:404 |
Rv0710 rpsQ |
30S ribosomal protein S17 | 404 | 404 ctx | neighborhood:404 |
Rv0706 rplV |
50S ribosomal protein L22 | 404 | 404 ctx | neighborhood:404 |
Rv3701c egtD |
histidine-specific methyltransferase EtgD | 639 | 246 | textmining:541 |
Rv2407 rnz |
ribonuclease Z | 891 | 200 | textmining:870 |
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: formylglycine-generating enzyme family protein
- Pfam (hmmscan --cut_ga): FGE-sulfatase PF03781.23 (E=1e-87)
- (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_215226.1)
- Domains: Pfam-A via hmmscan --cut_ga — FGE-sulfatase (PF03781.23)
- 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
COG1262 - Curated reference: UniProt I6Y8I5 (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 —
29 functional partner(s); context anchor
atsA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000754|Rv0712| MLTELVDLPGGSFRMGSTRFYPEEAPIHTVTVRAFAVERHPVTNAQFAEFVSATGYVTVAEQPLDPGLYPGVDAADLCPGAMVFCPTAGPVDLRDWRQWWDWVPGACWRHPFGRDSDIADRAGHPVVQVAYPDAVAYARWAGRRLPTEAEWEYAARGGTTATYAWGDQEKPGGMLMANTWQGRFPYRNDGALGWVGTSPVGRFPANGFGLLDMIGNVWEWTTTEFYPHHRIDPPSTACCAPVKLATAADPTISQTLKGGSHLCAPEYCHRYRPAARSPQSQDTATTHIGFRCVADPVSG