Rv0184 Still unknown · low
H37Rv Rv0184 · MTBC0 mtbc0_000197 ·
249 aa · 215317–216066 (+) ·
RefSeq NP_214698.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | DUF2786 domain-containing protein |
| Revised (this work) | Conserved hypothetical protein; tandem DUF2786 + DUF7168 domains (Pfam), both of unknown function. |
Curated reference (UniProt)
| UniProt |
O07428
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein |
UniProt still lists this protein as Uncharacterized protein; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | Protein of unknown function (DUF2786) |
| Orthologous group | 2AUNZ |
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 | 0.086 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 13 synonymous, 3 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 |
|---|---|---|---|---|
DUF2786 | PF10979.14 | 1.5e-12 | 5–43 | Protein of unknown function (DUF2786) |
DUF7168 | PF23771.2 | 5.0e-09 | 77–174 | Domain of unknown function (DUF7168) |
Structural neighbours (Foldseek on the ESMFold model, exploratory)
ESMFold model confidence: mean pLDDT 87.0 (confident). A confident model makes the fold comparison meaningful.
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 |
|---|---|---|---|---|
7mwq-assembly2_C |
0.60 | 0.29 | 6.7e-02 | 7mwq-assembly2_C Structure of De Novo designed beta sheet heterodimer LHD29A53/B53 |
7chx-assembly2_B |
0.21 | 0.53 | 2.4e+00 | 7chx-assembly2_B acylphosphatase from Staphylococcus aureus |
8fg6-assembly1_B |
0.13 | 0.40 | 2.7e+00 | 8fg6-assembly1_B Design of amyloidogenic peptide traps |
5y5z-assembly1_N |
0.06 | 0.17 | 9.2e-01 | 5y5z-assembly1_N V/A-type ATPase/synthase from Thermus thermophilus, rotational state 2 |
5k7v-assembly1_B |
0.05 | 0.24 | 3.8e+00 | 5k7v-assembly1_B Computational Design of Self-Assembling Cyclic Protein Homooligomers |
4g6t-assembly1_A |
0.04 | 0.39 | 7.8e+00 | 4g6t-assembly1_A Structure of the HopA1-SchA Chaperone-Effector Complex |
5aqd-assembly1_D |
0.04 | 0.26 | 5.3e+00 | 5aqd-assembly1_D Crystal structure of Phormidium Phycoerythrin at pH 8.5 |
8suk-assembly2_B |
0.04 | 0.21 | 2.8e+00 | 8suk-assembly2_B Structure of Rhodococcus sp. USK13 DarR-c-di-AMP complex |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0183 (lysophospholipase), high confidence from genomic context alone (score 822 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) |
|---|---|---|---|---|
Rv0185 hyp |
hypothetical protein | 995 | 996 ctx | neighborhood:882 cooccurence:774 coexpression:850 |
Rv0183 |
lysophospholipase | 822 | 822 ctx | neighborhood:821 |
Rv3585 radA |
DNA repair protein RadA | 738 | 737 | coexpression:732 |
Rv3035 hyp |
hypothetical protein | 737 | 737 ctx | cooccurence:733 |
Rv2737c recA |
recombinase A | 748 | 736 | coexpression:731 |
Rv1125 hyp |
hypothetical protein | 722 | 723 ctx | cooccurence:722 |
Rv0186 bglS |
beta-glucosidase BglS | 713 | 713 ctx | neighborhood:652 |
Rv0466 hyp |
hypothetical protein | 699 | 700 ctx | cooccurence:698 |
Rv1274 lprB |
lipoprotein LprB | 688 | 689 ctx | cooccurence:687 |
Rv2001 hyp |
hypothetical protein | 654 | 654 ctx | cooccurence:654 |
Rv1303 hyp |
hypothetical protein | 646 | 646 ctx | cooccurence:646 |
Rv1275 lprC |
lipoprotein LprC | 644 | 644 ctx | cooccurence:641 |
Rv0180c |
transmembrane protein | 628 | 628 ctx | neighborhood:423 |
Rv1476 |
membrane protein | 615 | 615 ctx | cooccurence:614 |
Rv2673 aftC |
alpha-(1->3)-arabinofuranosyltransferase | 607 | 607 ctx | cooccurence:607 |
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
- MTBC0 PGAP product: 'DUF2786 domain-containing protein'
- Pfam: DUF2786 PF10979 (E=1.5e-12), DUF7168 PF23771 (E=5.0e-09) -- domains of unknown function
ESM Atlas signal (exploratory)
Ancestral protein hash 39f960b24a2f43b37729675ac6395a80 ·
10 ESM-space neighbours (max similarity 0.941).
SAE features are orienting indices, not validated domains.
| # | Index | Activation | Interpretation |
|---|---|---|---|
| 1 | 5253 |
1.22 | Charge-patterned amphipathic interaction tracts |
| 2 | 8826 |
1.22 | Helical structural scaffolds |
| 3 | 5792 |
0.91 | Long terminal low-complexity tracts |
| 4 | 4778 |
0.62 | Charged C-terminal interaction regions |
| 5 | 7386 |
0.60 | Noncatalytic terminal domain/tail |
| 6 | 60 |
0.54 | Long charged interaction surfaces |
| 7 | 4383 |
0.52 | Noncatalytic terminal accessory domains |
| 8 | 6582 |
0.51 | Activation outside conserved cores |
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_214698.1)
- Domains: Pfam-A via hmmscan --cut_ga — DUF2786 (PF10979.14), DUF7168 (PF23771.2)
- 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
2AUNZ - Curated reference: UniProt O07428 (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 87.0, confident)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023,
doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 —
67 functional partner(s); context anchor
Rv0183 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000197|Rv0184| MTNDKMLARIAALLRQAEGTDNPHEADAFMSTAQRLATAASIDLAVARSHAGNRSPAQAPTQRTITIGAAGTRGLRTYVQLFVLIAAANDVRCDVASNSTFVYAYGFAEDIDTSHALYASLVVQMVRASDAYLASGAHRPTPTITARLNFQLAFGARVGQRLADAREQTRQEATKDRDRPPGTAIALRDKDIELHEYYRRSSKARGAWRASRATAGYSSAARRAGDRAGRQARLGNNPELPGARAALGR