Rv2307B Still unknown · low auto-curated
H37Rv Rv2307B · MTBC0 - ·
143 aa · 2579504–2579935 (-) ·
RefSeq YP_177666.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Conserved hypothetical protein; no recognised domain. Function unknown. Foldseek best (non-significant) hit: 2mf6-assembly1_C Solution NMR structure of Chimeric Avidin, ChiAVD(I11 (prob 0.28, TM 0.63). |
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 |
Q79FG2
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Hypothetical glycine rich protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 2A57W |
|---|
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, 2 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.64% of strains (932) · clonal |
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)
No Pfam-A domain above the gathering threshold (or not yet scanned).
Structural neighbours (Foldseek on the ESMFold model, exploratory)
ESMFold model confidence: mean pLDDT 57.7 (low). Low-confidence model: the fold may be unreliable, so treat these structural hits with caution.
Best matches against the PDB, ranked by Foldseek homology probability. A high probability / TM-score suggests a shared fold; unless flagged sig (E < 0.01) these are fold hypotheses, not assignments.
| Target | Prob | TM | E-value | Description |
|---|---|---|---|---|
2mf6-assembly1_C |
0.28 | 0.63 | 1.9e+00 | 2mf6-assembly1_C Solution NMR structure of Chimeric Avidin, ChiAVD(I117Y), in the biotin bound form |
2cam-assembly1_B-2 |
0.18 | 0.47 | 1.2e+00 | 2cam-assembly1_B-2 AVIDIN MUTANT (K3E,K9E,R26D,R124L) |
3mm0-assembly3_I-2 |
0.10 | 0.61 | 7.6e+00 | 3mm0-assembly3_I-2 Crystal structure of chimeric avidin |
2p3p-assembly1_A |
0.06 | 0.49 | 5.6e+00 | 2p3p-assembly1_A Structure of a domain of an uncharacterized protein PG_1388 from Porphyromonas gingivalis W83 |
7zn1-assembly1_C |
0.06 | 0.46 | 5.6e+00 | 7zn1-assembly1_C Avidin + Biotin-Tempo |
2c4i-assembly1_A-2 |
0.06 | 0.45 | 5.6e+00 | 2c4i-assembly1_A-2 Crystal structure of engineered avidin |
2avi-assembly1_A |
0.04 | 0.42 | 4.7e+00 | 2avi-assembly1_A THREE-DIMENSIONAL STRUCTURES OF AVIDIN AND THE AVIDIN-BIOTIN COMPLEX |
1rav-assembly1_A |
0.04 | 0.44 | 5.0e+00 | 1rav-assembly1_A RECOMBINANT AVIDIN |
Functional interaction network (STRING v12, guilt-by-association)
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2307A hyp |
hypothetical protein | 572 | 572 ctx | neighborhood:558 |
Rv2307D hyp |
hypothetical protein | 557 | 557 ctx | neighborhood:546 |
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): hypothetical protein
- Foldseek best: 2mf6-assembly1_C Solution NMR structure of Chimeric Avidin, ChiAVD(I117Y), in th (prob 0.28, E=2e+00, TM=0.63)
- (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 YP_177666.1)
- Domains: Pfam-A via hmmscan --cut_ga — none above threshold
- 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
2A57W - Curated reference: UniProt Q79FG2 (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)
- Model confidence: ESMFold per-residue pLDDT (mean 57.7, low)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023, doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 — 2 functional partner(s)
- Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv2307B| MEEVPTGPPAMGHRACGGQKAAFPTRMNSGVEKMYKNSIAIAIGTLTMAVEFSMVSANAEPAPPPGQDPHMPNSAMGYCPGGGFGGITGWGYCDGIRYPDGSYWHQVRVPAPFVGTTLTLSCVIDDGSPVPPLAAPGSCGGGA