sugI Resolved · high auto-curated
H37Rv Rv3331 · MTBC0 - ·
502 aa · 3717090–3718598 (+) ·
RefSeq NP_217848.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | sugar-transport integral membrane protein SugI |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Sugar-transport integral membrane protein SugI. Pfam: Sugar_tr (PF00083.31), MFS_1 (PF07690.22). |
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 |
L0TDU1
TrEMBL · unreviewed
· Inferred from homology
|
|---|---|
| UniProt name | Probable sugar-transport integral membrane protein SugI |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
U Intracellular trafficking, secretion and vesicular transport
|
|---|---|
| Preferred name | sugI |
| eggNOG description | Belongs to the major facilitator superfamily. Sugar transporter (TC 2.A.1.1) family |
| Orthologous group | COG0477 |
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 | 0.435 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 8 synonymous, 9 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 |
|---|---|---|---|---|
Sugar_tr | PF00083.31 | 4.5e-90 | 56–485 | Sugar (and other) transporter |
MFS_1 | PF07690.22 | 3.4e-33 | 60–422 | Major Facilitator Superfamily |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: nagA (N-acetylglucosamine-6-phosphate deacetylase NagA), high confidence from genomic context alone (score 980 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3332 nagA |
N-acetylglucosamine-6-phosphate deacetylase NagA | 996 | 980 ctx | neighborhood:882 coexpression:810 textmining:811 |
Rv3330 dacB1 |
penicillin-binding protein DacB | 840 | 656 ctx | neighborhood:654 textmining:556 |
Rv3329 |
aminotransferase | 887 | 448 ctx | neighborhood:445 textmining:804 |
Rv1672c |
integral membrane transport protein | 776 | 400 | textmining:643 |
Rv1704c cycA |
D-serine/alanine/glycine transporter protein CycA | 449 | 232 | |
Rv2339 mmpL9 |
transmembrane transport protein MmpL9 | 542 | 99 | textmining:513 |
Rv1674c |
transcriptional regulator | 680 | 85 | textmining:665 |
Rv3772 hisC2 |
histidinol-phosphate aminotransferase | 810 | 76 | textmining:804 |
Rv1731 gabD2 |
succinate-semialdehyde dehydrogenase | 560 | 62 | textmining:550 |
Rv0059 darT hyp |
hypothetical protein | 467 | 55 | textmining:460 |
Rv0759c hyp |
hypothetical protein | 656 | 50 | textmining:653 |
Rv1435c hyp |
hypothetical protein | 810 | 49 | textmining:809 |
Rv0545c pitA |
low-affinity inorganic phosphate transporter | 869 | 47 | textmining:869 |
Rv0221 |
diacyglycerol O-acyltransferase | 522 | 47 | textmining:519 |
Rv0271c fadE6 |
acyl-CoA dehydrogenase FadE6 | 520 | 46 | textmining:518 |
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): sugar-transport integral membrane protein SugI
- Pfam (hmmscan --cut_ga): Sugar_tr PF00083.31 (E=5e-90), MFS_1 PF07690.22 (E=3e-33)
- (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_217848.1)
- Domains: Pfam-A via hmmscan --cut_ga — Sugar_tr (PF00083.31), MFS_1 (PF07690.22)
- 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
COG0477 - Curated reference: UniProt L0TDU1 (TrEMBL, unreviewed; Inferred from homology)
- 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 —
24 functional partner(s); context anchor
nagA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv3331|sugI MTTLWQPHRNDYSPIPGRGVHARRGARRPRPRGGRAERPGTGQLTRSGRRALLVGLTAASVGVLYGYDLSAIAGALLSLSEEFELTTREQELLTTTAVLGQIAGALGGGILANAIGRKKSVVLIVAGYAVFALLGATSVSVPMLVVARLLLGVTIGLSVVVVPVYVAESAPAAVRGSLVTAYQLATLSGIVVGYLVGYLLAGSHGWRAMFGLAAAPATLLLPLLWRMPDTARWYLLKGRIADARSALRRIQPEADIDAELADMAAAVDERGGGIGEMVRRPYLRATLFVIALGFLVQITGINAIIYYSPRLFAAMGFAGYFAMLALPAMVQVAGLAAVCASLFLVDRLGRRPILLSGIATMITADAVLITVFANDSDGGTGLVLGFAGVLLFIIGFNFGFGSLVWVYAAESFPSRLRSMGSSPMLTSTLTANAIVAAFSLTMLRVLGGAGVFAVFGTFAVVAFVVVYRFAPETKGRKLEEIRHFWENGGRWPAERSPAADEP