Rv1773c Family assigned · medium auto-curated
H37Rv Rv1773c · MTBC0 mtbc0_001887 ·
248 aa · 2025031–2025777 (-) ·
RefSeq NP_216289.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transcriptional regulator |
|---|---|
| MTBC0 PGAP re-annotation | IclR family transcriptional regulator |
| Revised (this work) | IclR family transcriptional regulator. Pfam: HTH_IclR (PF09339.17), MarR_2 (PF12802.14), IclR_C (PF01614.25). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O06806
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable transcriptional regulatory protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
K Transcription
|
|---|---|
| eggNOG description | Transcriptional regulator |
| Orthologous group | COG1414 |
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 | 0.384 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 synonymous, 4 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 |
|---|---|---|---|---|
HTH_IclR | PF09339.17 | 3.8e-12 | 19–68 | IclR helix-turn-helix domain |
MarR_2 | PF12802.14 | 4.8e-06 | 20–72 | MarR family |
IclR_C | PF01614.25 | 5.1e-45 | 84–245 | Bacterial transcriptional regulator IclR C-terminal |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0494 (HTH-type transcriptional regulator), high confidence from genomic context alone (score 869 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0494 |
HTH-type transcriptional regulator | 875 | 869 ctx | cooccurence:581 coexpression:693 |
Rv0691c mftR |
mycofactocin biosynthesis transcriptional regulator MftR | 840 | 836 | coexpression:836 |
Rv1776c |
transcriptional regulator | 837 | 831 | coexpression:831 |
Rv0377 |
HTH-type transcriptional regulator | 836 | 828 | coexpression:744 |
Rv1267c embR |
transcriptional regulator EmbR | 834 | 826 | coexpression:800 |
Rv1931c |
transcriptional regulator | 833 | 825 | coexpression:799 |
Rv1775 hyp |
hypothetical protein | 825 | 825 ctx | neighborhood:742 |
Rv3736 |
AraC/XylS family transcriptional regulator | 828 | 819 | coexpression:819 |
Rv3183 higA3 |
transcriptional regulator | 819 | 813 | coexpression:812 |
Rv3263 |
DNA methylase | 813 | 813 | coexpression:813 |
Rv1725c hyp |
hypothetical protein | 807 | 808 | coexpression:808 |
Rv1985c lysG |
HTH-type transcriptional regulator | 816 | 806 | coexpression:806 |
Rv1151c cobB |
NAD-dependent protein deacylase | 814 | 806 | coexpression:803 |
Rv1359 |
transcriptional regulator | 805 | 805 | coexpression:805 |
Rv0602c tcrA |
two component DNA binding transcriptional regulator TcrA | 815 | 804 | coexpression:804 |
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: transcriptional regulator
- MTBC0 PGAP product: IclR family transcriptional regulator
- Pfam (hmmscan --cut_ga): HTH_IclR PF09339.17 (E=4e-12), MarR_2 PF12802.14 (E=5e-06), IclR_C PF01614.25 (E=5e-45)
- (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_216289.1)
- Domains: Pfam-A via hmmscan --cut_ga — HTH_IclR (PF09339.17), MarR_2 (PF12802.14), IclR_C (PF01614.25)
- 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
COG1414 - Curated reference: UniProt O06806 (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 —
71 functional partner(s); context anchor
Rv0494 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001887|Rv1773c| MPPTEGKSTTNRDEGIQVLRRAVAALDEIAAEPGHLRLVDLCERLGLAKSTTRRLLVGLVEVGLVSVDSHGRFALGERLLGFGSVTGAHIAAAFRPTVERVARATDGETVDLSVLRGQRMWFVDQIESSYRLRAVSAVGLRFPLNGTANGKAALAALDDADAEAALCRLDPMVAEGLRREIVEIRRTGIAFDRNEHTPGISAAAIARRALGDNVIAISVPAPTARFLEKEQRIIAALRAAADSPDWTR