zur Resolved · high auto-curated
H37Rv Rv2359 · MTBC0 mtbc0_002511 ·
130 aa · 2665843–2666235 (+) ·
RefSeq NP_216875.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | zinc uptake regulation protein |
|---|---|
| MTBC0 PGAP re-annotation | zinc uptake transcriptional repressor Zur |
| Revised (this work) | Zinc uptake transcriptional repressor Zur. Pfam: FUR (PF01475.26), WHD_RNase_R (PF08461.17). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WN85
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Zinc uptake regulation protein |
| Curated function | Global transcriptional regulator involved in zinc homeostasis. Represses the transcription of at least 32 genes, including genes involved in zinc homeostasis, by binding to promoter sequences that contain a conserved 26 bp palindrome, in the presence of zinc. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
P Inorganic ion transport and metabolism
|
|---|---|
| Preferred name | furB |
| eggNOG description | Belongs to the Fur family |
| Orthologous group | COG0735 |
| KEGG orthology |
K03711
|
| Gene Ontology (88) |
GO:0000976, GO:0001067, GO:0001130, GO:0001217, GO:0003674, GO:0003676, GO:0003677, GO:0003690, GO:0003700, GO:0005488, GO:0005515, GO:0005575 +76 more
|
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 | 1.305 · diversifying/relaxed |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 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 |
|---|---|---|---|---|
FUR | PF01475.26 | 2.4e-39 | 4–121 | Ferric uptake regulator family |
WHD_RNase_R | PF08461.17 | 7.7e-05 | 17–61 | Ribonuclease R winged-helix domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: smtB (HTH-type transcriptional regulator SmtB), high confidence from genomic context alone (score 907 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3457c rpoA |
DNA-directed RNA polymerase subunit alpha | 976 | 976 | experimental:973 |
Rv2358 smtB |
HTH-type transcriptional regulator SmtB | 965 | 907 ctx | neighborhood:882 textmining:639 |
Rv1460 sufR |
transcriptional regulator | 847 | 847 | coexpression:842 |
Rv0667 rpoB |
DNA-directed RNA polymerase subunit beta | 834 | 834 | experimental:818 |
Rv0668 rpoC |
DNA-directed RNA polymerase subunit beta' | 831 | 831 | experimental:818 |
Rv1390 rpoZ |
DNA-directed RNA polymerase subunit omega | 832 | 826 | experimental:818 |
Rv2703 sigA |
RNA polymerase sigma factor SigA | 852 | 820 | experimental:767 |
Rv2710 sigB |
RNA polymerase sigma factor SigB | 835 | 820 | experimental:767 |
Rv0117 oxyS |
oxidative stress response regulatory protein OxyS | 811 | 800 | coexpression:800 |
Rv1019 |
transcriptional regulator | 805 | 795 | coexpression:795 |
Rv0827c kmtR |
HTH-type transcriptional regulator KmtR | 819 | 792 | coexpression:785 |
Rv1267c embR |
transcriptional regulator EmbR | 770 | 770 | coexpression:770 |
Rv2357c glyS |
glycine--tRNA ligase | 764 | 765 ctx | neighborhood:764 |
Rv0212c nadR |
transcriptional regulator NadR | 740 | 740 | coexpression:732 |
Rv1152 |
transcriptional regulator | 749 | 735 | coexpression:735 |
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: zinc uptake regulation protein
- MTBC0 PGAP product: zinc uptake transcriptional repressor Zur
- Pfam (hmmscan --cut_ga): FUR PF01475.26 (E=2e-39), WHD_RNase_R PF08461.17 (E=8e-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_216875.1)
- Domains: Pfam-A via hmmscan --cut_ga — FUR (PF01475.26), WHD_RNase_R (PF08461.17)
- 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
COG0735 - Curated reference: UniProt P9WN85 (SwissProt, reviewed; 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 —
50 functional partner(s); context anchor
smtB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002511|Rv2359|zur MSAAGVRSTRQRAAISTLLETLDDFRSAQELHDELRRRGENIGLTTVYRTLQSMASSGLVDTLRTDTGESVYRRCSEHHHHHLVCRSCGSTIEVGDHEVEAWAAEVATKHGFSDVSHTIEIFGTCSDCRS