pknG Resolved · high auto-curated
H37Rv Rv0410c · MTBC0 mtbc0_000430 ·
750 aa · 498427–500679 (-) ·
RefSeq NP_214924.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | serine/threonine-protein kinase PknG |
|---|---|
| MTBC0 PGAP re-annotation | serine/threonine protein kinase PknG |
| Revised (this work) | Serine/threonine protein kinase PknG. Pfam: PknG_rubred (PF16919.12), Pkinase (PF00069.32), PK_Tyr_Ser-Thr (PF07714.24), PknG_TPR (PF16918.12). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WI73
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Serine/threonine-protein kinase PknG |
| EC (curated) |
EC 2.7.11.1
|
| Curated function | Phosphorylates GarA. May play a role in metabolic regulation via control of the phosphorylation status of GarA. Plays a crucial role in the survival of mycobacteria within host macrophages, by blocking the intracellular degradation of mycobacteria in lysosomes. Required for intrinsic antibiotic resistance. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
K TranscriptionL Replication, recombination and repairT Signal transduction mechanisms
|
|---|---|
| Preferred name | pknG |
| eggNOG description | serine threonine protein kinase |
| Orthologous group | COG0515 |
| EC number |
EC 2.7.11.1
|
| KEGG orthology |
K14949
|
| KEGG pathways |
map05152
|
| Gene Ontology (143) |
GO:0001898, GO:0001899, GO:0002682, GO:0002684, GO:0003674, GO:0003824, GO:0004672, GO:0004674, GO:0005488, GO:0005515, GO:0005575, GO:0005622 +131 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 | 0.72 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 synonymous, 10 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 |
|---|---|---|---|---|
PknG_rubred | PF16919.12 | 2.1e-41 | 69–141 | Protein kinase G rubredoxin domain |
Pkinase | PF00069.32 | 4.4e-31 | 151–345 | Protein kinase domain |
PK_Tyr_Ser-Thr | PF07714.24 | 1.7e-12 | 157–305 | Protein tyrosine and serine/threonine kinase |
PknG_TPR | PF16918.12 | 7.0e-159 | 409–748 | Protein kinase G tetratricopeptide repeat |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: glnX (membrane protein), high confidence from genomic context alone (score 994 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0412c glnX |
membrane protein | 994 | 994 ctx | neighborhood:881 cooccurence:746 coexpression:815 |
Rv0411c glnH |
glutamine-binding lipoprotein GlnH | 996 | 986 ctx | neighborhood:882 coexpression:854 textmining:776 |
Rv1827 garA |
glycogen accumulation regulator GarA | 995 | 902 | experimental:899 textmining:959 |
Rv0413 mutT3 |
8-oxo-dGTP diphosphatase | 738 | 640 ctx | neighborhood:635 |
Rv0018c pstP |
phosphoserine/threonine phosphatase PstP | 897 | 594 | textmining:757 |
Rv1746 pknF |
serine/threonine-protein kinase PknF | 957 | 584 ctx | cooccurence:583 textmining:903 |
Rv1277 hyp |
hypothetical protein | 421 | 398 | |
Rv1747 |
ABC transporter ATP-binding protein/permease | 498 | 391 | |
Rv0014c pknB |
serine/threonine-protein kinase PknB | 857 | 365 | textmining:785 |
Rv3800c pks13 |
polyketide synthase | 405 | 350 | |
Rv0020c fhaA |
FHA domain-containing protein FhaA | 695 | 331 | textmining:563 |
Rv0019c fhaB |
FHA domain-containing protein FhaB | 725 | 327 | textmining:609 |
Rv3360 hyp |
hypothetical protein | 463 | 325 | |
Rv1821 secA2 |
accessory Sec system translocase SecA2 | 560 | 280 | textmining:414 |
Rv2145c wag31 |
cell wall synthesis protein Wag31 | 477 | 273 |
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: serine/threonine-protein kinase PknG
- MTBC0 PGAP product: serine/threonine protein kinase PknG
- Pfam (hmmscan --cut_ga): PknG_rubred PF16919.12 (E=2e-41), Pkinase PF00069.32 (E=4e-31), PK_Tyr_Ser-Thr PF07714.24 (E=2e-12), PknG_TPR PF16918.12 (E=7e-159)
- (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_214924.1)
- Domains: Pfam-A via hmmscan --cut_ga — PknG_rubred (PF16919.12), Pkinase (PF00069.32), PK_Tyr_Ser-Thr (PF07714.24), PknG_TPR (PF16918.12)
- 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
COG0515 - Curated reference: UniProt P9WI73 (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 —
37 functional partner(s); context anchor
glnX - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000430|Rv0410c|pknG MAKASETERSGPGTQPADAQTATSATVRPLSTQAVFRPDFGDEDNFPHPTLGPDTEPQDRMATTSRVRPPVRRLGGGLVEIPRAPDIDPLEALMTNPVVPESKRFCWNCGRPVGRSDSETKGASEGWCPYCGSPYSFLPQLNPGDIVAGQYEVKGCIAHGGLGWIYLALDRNVNGRPVVLKGLVHSGDAEAQAMAMAERQFLAEVVHPSIVQIFNFVEHTDRHGDPVGYIVMEYVGGQSLKRSKGQKLPVAEAIAYLLEILPALSYLHSIGLVYNDLKPENIMLTEEQLKLIDLGAVSRINSFGYLYGTPGFQAPEIVRTGPTVATDIYTVGRTLAALTLDLPTRNGRYVDGLPEDDPVLKTYDSYGRLLRRAIDPDPRQRFTTAEEMSAQLTGVLREVVAQDTGVPRPGLSTIFSPSRSTFGVDLLVAHTDVYLDGQVHAEKLTANEIVTALSVPLVDPTDVAASVLQATVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDEHKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTLDEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPRVLQIRALVLGGALDWLKDNKASTNHILGFPFTSHGLRLGVEASLRSLARVAPTQRHRYTLVDMANKVRPTSTF