fbiB Resolved · high auto-curated
H37Rv Rv3262 · MTBC0 mtbc0_003470 ·
448 aa · 3663678–3665024 (+) ·
RefSeq NP_217779.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | coenzyme F420:L-glutamate ligase |
|---|---|
| MTBC0 PGAP re-annotation | coenzyme F420-0:L-glutamate ligase |
| Revised (this work) | Coenzyme F420-0:L-glutamate ligase. Pfam: F420_ligase (PF01996.22), Nitroreductase (PF00881.30). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WP79
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Bifunctional F420 biosynthesis protein FbiB [Includes: Coenzyme F420:L-glutamate ligase |
| EC (curated) |
EC 1.3.8.17, EC 6.3.2.31, EC 6.3.2.34
|
| Curated function | Bifunctional enzyme that catalyzes the GTP-dependent successive addition of multiple gamma-linked L-glutamates to the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0) to form polyglutamated F420 derivatives, and the FMNH2-dependent reduction of dehydro-F420-0 to form F420-0. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
H Coenzyme transport and metabolism
|
|---|---|
| Preferred name | fbiB |
| eggNOG description | Catalyzes the GTP-dependent successive addition of multiple gamma-linked L-glutamates to the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0) to form polyglutamated F420 derivatives |
| Orthologous group | COG0778 |
| EC number |
EC 6.3.2.31, EC 6.3.2.34
|
| KEGG orthology |
K12234
|
| KEGG pathways |
map00680, map01120
|
| KEGG modules |
M00378
|
| Gene Ontology (16) |
GO:0005575, GO:0005623, GO:0005886, GO:0006732, GO:0008150, GO:0008152, GO:0009058, GO:0009108, GO:0009987, GO:0016020, GO:0044237, GO:0044249 +4 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 | 0.748 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 6 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 |
|---|---|---|---|---|
F420_ligase | PF01996.22 | 1.9e-50 | 19–219 | F420-0:Gamma-glutamyl ligase |
Nitroreductase | PF00881.30 | 7.5e-30 | 260–428 | Nitroreductase family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: fbiA (2-phospho-L-lactate transferase), high confidence from genomic context alone (score 999 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3261 fbiA |
2-phospho-L-lactate transferase | 999 | 999 ctx | neighborhood:882 cooccurence:773 coexpression:797 database:900 textmining:908 |
Rv2983 cofC |
2-phospho-L-lactate guanylyltransferase | 992 | 784 ctx | cooccurence:742 textmining:965 |
Rv3520c |
coenzyme F420-dependent oxidoreductase | 786 | 773 ctx | cooccurence:742 |
Rv3093c |
oxidoreductase | 781 | 767 ctx | cooccurence:737 |
Rv3300c hyp |
hypothetical protein | 767 | 765 | coexpression:757 |
Rv3547 ddn |
deazaflavin-dependent nitroreductase | 974 | 745 ctx | cooccurence:737 textmining:903 |
Rv2951c |
phthiodiolone/phenolphthiodiolone dimycocerosates ketoreductase | 765 | 740 ctx | cooccurence:706 |
Rv0132c fgd2 |
F420-dependent glucose-6-phosphate dehydrogenase | 888 | 735 ctx | cooccurence:701 textmining:596 |
Rv1261c hyp |
hypothetical protein | 824 | 732 ctx | cooccurence:729 |
Rv3263 |
DNA methylase | 726 | 726 ctx | neighborhood:718 |
Rv2893 |
oxidoreductase | 787 | 718 ctx | cooccurence:683 |
Rv0044c |
oxidoreductase | 734 | 718 ctx | cooccurence:680 |
Rv3178 |
nitroreductase | 836 | 717 ctx | cooccurence:707 textmining:446 |
Rv1558 hyp |
hypothetical protein | 812 | 717 ctx | cooccurence:707 |
Rv2161c hyp |
hypothetical protein | 727 | 710 ctx | cooccurence:669 |
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: coenzyme F420:L-glutamate ligase
- MTBC0 PGAP product: coenzyme F420-0:L-glutamate ligase
- Pfam (hmmscan --cut_ga): F420_ligase PF01996.22 (E=2e-50), Nitroreductase PF00881.30 (E=8e-30)
- (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_217779.1)
- Domains: Pfam-A via hmmscan --cut_ga — F420_ligase (PF01996.22), Nitroreductase (PF00881.30)
- 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
COG0778 - Curated reference: UniProt P9WP79 (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 —
58 functional partner(s); context anchor
fbiA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003470|Rv3262|fbiB MTGPEHGSASTIEILPVIGLPEFRPGDDLSAAVAAAAPWLRDGDVVVVTSKVVSKCEGRLVPAPEDPEQRDRLRRKLIEDEAVRVLARKDRTLITENRLGLVQAAAGVDGSNVGRSELALLPVDPDASAATLRAGLRERLGVTVAVVITDTMGRAWRNGQTDAAVGAAGLAVLRNYAGVRDPYGNELVVTEVAVADEIAAAADLVKGKLTATPVAVVRGFGVSDDGSTARQLLRPGANDLFWLGTAEALELGRQQAQLLRRSVRRFSTDPVPGDLVEAAVAEALTAPAPHHTRPTRFVWLQTPAIRARLLDRMKDKWRSDLTSDGLPADAIERRVARGQILYDAPEVVIPMLVPDGAHSYPDAARTDAEHTMFTVAVGAAVQALLVALAVRGLGSCWIGSTIFAADLVRDELDLPVDWEPLGAIAIGYADEPSGLRDPVPAADLLILK