bfrB Resolved · high auto-curated
H37Rv Rv3841 · MTBC0 mtbc0_004071 ·
181 aa · 4338289–4338834 (+) ·
RefSeq NP_218358.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | bacterioferritin BfrB |
|---|---|
| MTBC0 PGAP re-annotation | ferritin BfrB |
| Revised (this work) | Ferritin BfrB. Pfam: Ferritin (PF00210.31), Rubrerythrin (PF02915.24). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WNE5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Bacterioferritin BfrB |
| EC (curated) |
EC 1.16.3.1
|
| Curated function | Possible cargo protein of a type 1 encapsulin nanocompartment involved in protection against oxidative stress (Probable). Iron-storage protein that displays ferroxidase activity, catalyzing the oxidation of Fe(2+) ions into Fe(3+) ions, that can then be deposited as a ferric-oxide mineral core within the central cavity of the protein complex. Retains ferroxidase activity inside the encapsulin nanocompartment with a slight decrease in rate. It is not known if this protein is normally found in the encapsulin nanocompartment. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
P Inorganic ion transport and metabolism
|
|---|---|
| Preferred name | bfrB |
| eggNOG description | ferritin |
| Orthologous group | COG1528 |
| EC number |
EC 1.16.3.1
|
| KEGG orthology |
K22336
|
| KEGG pathways |
map00860
|
| Gene Ontology (63) |
GO:0001666, GO:0003674, GO:0003824, GO:0004322, GO:0005488, GO:0005506, GO:0005575, GO:0005576, GO:0005618, GO:0005622, GO:0005623, GO:0005737 +51 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 | 0.0 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 0 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 |
|---|---|---|---|---|
Ferritin | PF00210.31 | 9.4e-36 | 13–147 | Ferritin-like domain |
Rubrerythrin | PF02915.24 | 2.2e-05 | 19–92 | Rubrerythrin |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv3840 (transcriptional regulator), medium confidence from genomic context alone (score 533 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0846c mmcO |
oxidase | 918 | 906 | database:900 |
Rv1876 bfrA |
bacterioferritin BfrA | 995 | 901 | database:900 textmining:954 |
Rv1485 hemZ |
ferrochelatase | 913 | 901 | database:900 |
Rv2428 ahpC |
alkyl hydroperoxide reductase subunit AhpC | 664 | 595 | coexpression:562 |
Rv0418 lpqL |
lipoprotein aminopeptidase LpqL | 593 | 577 | database:415 |
Rv1770 hyp |
hypothetical protein | 593 | 577 | database:415 |
Rv3840 |
transcriptional regulator | 534 | 533 ctx | neighborhood:529 |
Rv2006 otsB1 |
trehalose-6-phosphate phosphatase OtsB | 515 | 493 | database:472 |
Rv3372 otsB2 |
trehalose 6-phosphate phosphatase | 509 | 486 | database:472 |
Rv2909c rpsP |
30S ribosomal protein S16 | 485 | 485 | coexpression:471 |
Rv3839 hyp |
hypothetical protein | 631 | 478 ctx | neighborhood:472 |
Rv3250c rubB |
rubredoxin RubB | 475 | 449 | coexpression:417 |
Rv3251c rubA |
rubredoxin RubA | 473 | 447 | coexpression:415 |
Rv0350 dnaK |
chaperone protein DnaK | 520 | 430 | |
Rv1436 gap |
glyceraldehyde 3-phosphate dehydrogenase | 575 | 426 | coexpression:413 |
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: bacterioferritin BfrB
- MTBC0 PGAP product: ferritin BfrB
- Pfam (hmmscan --cut_ga): Ferritin PF00210.31 (E=9e-36), Rubrerythrin PF02915.24 (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_218358.1)
- Domains: Pfam-A via hmmscan --cut_ga — Ferritin (PF00210.31), Rubrerythrin (PF02915.24)
- 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
COG1528 - Curated reference: UniProt P9WNE5 (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 —
25 functional partner(s); context anchor
Rv3840 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_004071|Rv3841|bfrB MTEYEGPKTKFHALMQEQIHNEFTAAQQYVAIAVYFDSEDLPQLAKHFYSQAVEERNHAMMLVQHLLDRDLRVEIPGVDTVRNQFDRPREALALALDQERTVTDQVGRLTAVARDEGDFLGEQFMQWFLQEQIEEVALMATLVRVADRAGANLFELENFVAREVDVAPAASGAPHAAGGRL