MTBC Gene Atlas

Rv0737 Family assigned · medium auto-curated

H37Rv Rv0737 · MTBC0 mtbc0_000780 · 165 aa · 833400–833897 (+) · RefSeq NP_215251.1

Annotation: from legacy to revised

Legacy (H37Rv / Mycobrowser)transcriptional regulator
MTBC0 PGAP re-annotationMarR family transcriptional regulator
Revised (this work)MarR family transcriptional regulator. Pfam: MarR_2 (PF12802.14), MarR (PF01047.29), HTH_27 (PF13463.13).

Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.

Curated reference (UniProt)

UniProt I6Y8K3 TrEMBL · unreviewed · Evidence at protein level
UniProt namePossible transcriptional regulatory protein

Functional vocabulary (eggNOG-mapper, orthology transfer)

COG category K Transcription
eggNOG descriptiontranscriptional
Orthologous groupCOG1846

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 0.376 · purifying
Polymorphic sites (≥ 0.1% of strains) 2 synonymous, 2 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)

PfamAccessioni-EvalueResiduesDescription
MarR_2PF12802.14 3.6e-0753–112 MarR family
MarRPF01047.29 8.0e-0957–113 MarR family
HTH_27PF13463.13 2.1e-0580–122 Winged helix DNA-binding domain

Functional interaction network (STRING v12, guilt-by-association)

PartnerProductScoreNo text-miningChannels (≥400)
Rv3055 TetR family transcriptional regulator 865 865 coexpression:819
Rv1267c embR transcriptional regulator EmbR 834 835 coexpression:806
Rv2488c LuxR family transcriptional regulator 840 834 coexpression:834
Rv1151c cobB NAD-dependent protein deacylase 833 834 coexpression:833
Rv0117 oxyS oxidative stress response regulatory protein OxyS 840 833 coexpression:833
Rv1027c kdpE transcriptional regulator KdpE 839 833 coexpression:833
Rv3840 transcriptional regulator 824 822 coexpression:822
Rv3830c TetR family transcriptional regulator 822 822 coexpression:822
Rv1931c transcriptional regulator 824 818 coexpression:818
Rv3263 DNA methylase 817 817 coexpression:817
Rv1675c cmr HTH-type transcriptional regulator Cmr 819 813 coexpression:813
Rv3736 AraC/XylS family transcriptional regulator 817 810 coexpression:810
Rv3167c TetR family transcriptional regulator 810 810 coexpression:810
Rv2282c LysR family HTH-type transcriptional regulator 814 806 coexpression:806
Rv0212c nadR transcriptional regulator NadR 814 805 coexpression:802

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: MarR family transcriptional regulator
  • Pfam (hmmscan --cut_ga): MarR_2 PF12802.14 (E=4e-07), MarR PF01047.29 (E=8e-09), HTH_27 PF13463.13 (E=2e-05)
  • (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_215251.1)
  • Domains: Pfam-A via hmmscan --cut_ga — MarR_2 (PF12802.14), MarR (PF01047.29), HTH_27 (PF13463.13)
  • 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 COG1846
  • Curated reference: UniProt I6Y8K3 (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 — 58 functional partner(s)
  • Primary literature: none located yet; annotation rests on the domain/homology sources above.

Ancestral MTBC0 protein sequence

>mtbc0_000780|Rv0737|
MASDNRDPIAAARANWERSGWGDVSLGMVAVTSVMRAHQILLARVETALRPYDLSFSRFELLRLLAFSRIGALPITKASDRLQVHVTSVTHAIRRLEADGLVRRVPHPTDGRTTLVQITELGRSTVEDATVTLNEQVFANVGMGAEESQALVSAVETLRRNAGDF