asnB Resolved · high auto-curated
H37Rv Rv2201 · MTBC0 mtbc0_002337 ·
652 aa · 2491154–2493112 (+) ·
RefSeq NP_216717.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | asparagine synthetase |
|---|---|
| MTBC0 PGAP re-annotation | asparagine synthase (glutamine-hydrolyzing) |
| Revised (this work) | Asparagine synthase (glutamine-hydrolyzing). Pfam: GATase_6 (PF13522.12), GATase_7 (PF13537.12), Asn_synthase (PF00733.28). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WN33
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Putative asparagine synthetase [glutamine-hydrolyzing] |
| EC (curated) |
EC 6.3.5.4
|
UniProt still lists this protein as Putative asparagine synthetase [glutamine-hydrolyzing]; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| Preferred name | asnB |
| eggNOG description | Asparagine synthase |
| Orthologous group | COG0367 |
| EC number |
EC 6.3.5.4
|
| KEGG orthology |
K01953
|
| KEGG pathways |
map00250, map01100, map01110
|
| Gene Ontology (14) |
GO:0005575, GO:0005576, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0008150, GO:0016020, GO:0040007, GO:0044424, GO:0044444 +2 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 | 0.343 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 3 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 |
|---|---|---|---|---|
GATase_6 | PF13522.12 | 8.2e-33 | 38–176 | Glutamine amidotransferase domain |
GATase_7 | PF13537.12 | 5.7e-38 | 59–181 | Glutamine amidotransferase domain |
Asn_synthase | PF00733.28 | 1.7e-109 | 262–631 | Asparagine synthase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: ctaC (cytochrome C oxidase subunit II), high confidence from genomic context alone (score 743 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1658 argG |
argininosuccinate synthase | 925 | 915 | database:900 |
Rv1380 pyrB |
aspartate carbamoyltransferase | 922 | 910 | database:900 |
Rv0357c purA |
adenylosuccinate synthetase | 930 | 909 | database:900 |
Rv1538c ansA |
L-aparaginase | 914 | 901 | database:900 |
Rv1595 nadB |
L-aspartate oxidase | 903 | 900 | database:900 |
Rv3709c ask |
aspartokinase | 898 | 882 | coexpression:402 database:800 |
Rv3432c gadB |
glutamate decarboxylase GadB | 812 | 801 | database:800 |
Rv3601c panD |
aspartate 1-decarboxylase | 801 | 801 | database:800 |
Rv2200c ctaC |
cytochrome C oxidase subunit II | 743 | 743 ctx | neighborhood:742 |
Rv2199c ctaF |
cytochrome c oxidase polypeptide 4 | 729 | 730 ctx | neighborhood:728 |
Rv3859c gltB |
glutamate synthase large subunit | 648 | 569 ctx | neighborhood:544 |
Rv2197c |
transmembrane protein | 473 | 473 ctx | neighborhood:470 |
Rv2179c |
3'-5' exoribonuclease | 470 | 470 ctx | cooccurence:467 |
Rv0948c |
chorismate mutase | 484 | 457 ctx | cooccurence:454 |
Rv2357c glyS |
glycine--tRNA ligase | 465 | 443 |
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: asparagine synthetase
- MTBC0 PGAP product: asparagine synthase (glutamine-hydrolyzing)
- Pfam (hmmscan --cut_ga): GATase_6 PF13522.12 (E=8e-33), GATase_7 PF13537.12 (E=6e-38), Asn_synthase PF00733.28 (E=2e-109)
- (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_216717.1)
- Domains: Pfam-A via hmmscan --cut_ga — GATase_6 (PF13522.12), GATase_7 (PF13537.12), Asn_synthase (PF00733.28)
- 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
COG0367 - Curated reference: UniProt P9WN33 (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 —
34 functional partner(s); context anchor
ctaC - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002337|Rv2201|asnB MCGLLAFVAAPAGAAGPEGADAASAIARASHLMRHRGPDESGTWHAVDGASGGVVFGFNRLSIIDIAHSHQPLRWGPPEAPDRYVLVFNGEIYNYLELRDELRTQHGAVFATDGDGEAILAGYHHWGTEVLQRLRGMFAFALWDTVTRELFCARDPFGIKPLFIATGAGGTAVASEKKCLLDLVELVGFDTEIDHRALQHYTVLQYVPEPETLHRGVRRLESGCFARIRADQLAPVITRYFVPRFAASPITNDNDQARYDEITAVLEDSVAKHMRADVTVGAFLSGGIDSTAIAALAIRHNPRLITFTTGFEREGFSEIDVAVASAEAIGARHIAKVVSADEFVAALPEIVWYLDEPVADPALVPLFFVAREARKHVKVVLSGEGADELFGGYTIYREPLSLRPFDYLPKPLRRSMGKVSKPLPEGMRGKSLLHRGSLTLEERYYGNARSFSGAQLREVLPGFRPDWTHTDVTAPVYAESAGWDPVARMQHIDLFTWLRGDILVKADKITMANSLELRVPFLDPEVFAVASRLPAGAKITRTTTKYALRRALEPIVPAHVLHRPKLGFPVPIRHWLRAGELLEWAYATVGSSQAGHLVDIAAVYRMLDEHRCGSSDHSRRLWTMLIFMLWHAIFVEHSVVPQISEPQYPVQL