argJ Resolved · high auto-curated
H37Rv Rv1653 · MTBC0 mtbc0_001762 ·
404 aa · 1878673–1879887 (+) ·
RefSeq NP_216169.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase |
|---|---|
| MTBC0 PGAP re-annotation | bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ |
| Revised (this work) | Bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ. Pfam: ArgJ (PF01960.24). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WPZ3
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Arginine biosynthesis bifunctional protein ArgJ [Cleaved into: Arginine biosynthesis bifunctional protein ArgJ alpha chain; Arginine biosynthesis bifunctional protein ArgJ beta chain] [Includes: Glutamate N-acetyltransferase |
| EC (curated) |
EC 2.3.1.1, EC 2.3.1.35
|
| Curated function | Catalyzes two activities which are involved in the cyclic version of arginine biosynthesis: the synthesis of N-acetylglutamate from glutamate and acetyl-CoA as the acetyl donor, and of ornithine by transacetylation between N(2)-acetylornithine and glutamate. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| Preferred name | argJ |
| eggNOG description | Catalyzes two activities which are involved in the cyclic version of arginine biosynthesis the synthesis of N- acetylglutamate from glutamate and acetyl-CoA as the acetyl donor, and of ornithine by transacetylation between N(2)-acetylornithine and glutamate |
| Orthologous group | COG1364 |
| EC number |
EC 2.3.1.1, EC 2.3.1.35
|
| KEGG orthology |
K00620
|
| KEGG pathways |
map00220, map01100, map01110, map01130, map01210, map01230
|
| KEGG modules |
M00028
|
| Gene Ontology (46) |
GO:0003674, GO:0003824, GO:0004042, GO:0004358, GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0006082, GO:0006520, GO:0006525, GO:0006526 +34 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 | 0.212 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 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 |
|---|---|---|---|---|
ArgJ | PF01960.24 | 3.5e-130 | 23–404 | ArgJ family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: argB (acetylglutamate kinase), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1654 argB |
acetylglutamate kinase | 999 | 1000 ctx | neighborhood:881 fusion:463 cooccurence:770 coexpression:976 database:900 textmining:948 |
Rv1655 argD |
acetylornithine aminotransferase | 999 | 1000 ctx | neighborhood:881 cooccurence:571 coexpression:948 database:900 textmining:949 |
Rv1656 argF |
ornithine carbamoyltransferase | 999 | 1000 ctx | neighborhood:881 cooccurence:489 coexpression:942 database:900 textmining:781 |
Rv1652 argC |
N-acetyl-gamma-glutamyl-phoshate reductase | 999 | 999 ctx | neighborhood:881 cooccurence:736 coexpression:984 textmining:876 |
Rv1657 argR |
arginine repressor | 999 | 998 ctx | neighborhood:881 coexpression:985 textmining:931 |
Rv1658 argG |
argininosuccinate synthase | 995 | 991 ctx | neighborhood:812 coexpression:946 textmining:551 |
Rv1659 argH |
argininosuccinate lyase | 994 | 983 ctx | neighborhood:783 coexpression:894 textmining:679 |
Rv2747 argA |
L-glutamate alpha-N-acetyltranferase | 989 | 937 | database:900 textmining:845 |
Rv0337c aspC |
aspartate aminotransferase | 913 | 906 | database:900 |
Rv0428c |
GCN5-like N-acetyltransferase | 940 | 905 | database:900 |
Rv2476c gdh |
NAD-dependent glutamate dehydrogenase | 901 | 901 | database:900 |
Rv2321c rocD2 |
Rv2321c, (MTCY3G12.13), len: 181 aa. Probable rocD2,ornithine aminotransferase, highly similar to C-terminal region of other ornithine amino | 813 | 737 | coexpression:643 |
Rv2322c rocD1 |
Rv2322c, (MTCY3G12.12), len: 221 aa. Probable rocD1,ornithine aminotransferase, highly similar to N-terminal region of other ornithine amino | 800 | 719 | coexpression:644 |
Rv1599 hisD |
histidinol dehydrogenase | 688 | 592 | coexpression:466 |
Rv1650 pheT |
phenylalanine--tRNA ligase subunit beta | 548 | 549 ctx | neighborhood:544 |
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: bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase
- MTBC0 PGAP product: bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ
- Pfam (hmmscan --cut_ga): ArgJ PF01960.24 (E=3e-130)
- (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_216169.1)
- Domains: Pfam-A via hmmscan --cut_ga — ArgJ (PF01960.24)
- 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
COG1364 - Curated reference: UniProt P9WPZ3 (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 —
43 functional partner(s); context anchor
argB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001762|Rv1653|argJ MTDLAGTTRLLRAQGVTAPAGFRAAGVAAGIKASGALDLALVFNEGPDYAAAGVFTRNQVKAAPVLWTQQVLTTGRLRAVILNSGGANACTGPAGFADTHATAEAVAAALSDWGTETGAIEVAVCSTGLIGDRLPMDKLLAGVAHVVHEMHGGLVGGDEAAHAIMTTDNVPKQVALHHHDNWTVGGMAKGAGMLAPSLATMLCVLTTDAAAEPAALERALRRAAAATFDRLDIDGSCSTNDTVLLLSSGASEIPPAQADLDEAVLRVCDDLCAQLQADAEGVTKRVTVTVTGAATEDDALVAARQIARDSLVKTALFGSDPNWGRVLAAVGMAPITLDPDRISVSFNGAAVCVHGVGAPGAREVDLSDADIDITVDLGVGDGQARIRTTDLSHAYVEENSAYSS