malQ Resolved · high auto-curated
H37Rv Rv1781c · MTBC0 mtbc0_001895 ·
724 aa · 2033313–2035487 (-) ·
RefSeq NP_216297.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | 4-alpha-glucanotransferase |
|---|---|
| MTBC0 PGAP re-annotation | 4-alpha-glucanotransferase |
| Revised (this work) | 4-alpha-glucanotransferase. Pfam: MalQ_N (PF21226.5), Glyco_hydro_77 (PF02446.24). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WK23
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | 4-alpha-glucanotransferase |
| EC (curated) |
EC 2.4.1.25
|
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
G Carbohydrate transport and metabolism
|
|---|---|
| Preferred name | malQ |
| eggNOG description | 4-alpha-glucanotransferase |
| Orthologous group | COG1640 |
| EC number |
EC 2.4.1.25
|
| KEGG orthology |
K00705
|
| KEGG pathways |
map00500, map01100
|
| CAZy family |
GH77
|
| Gene Ontology (8) |
GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0044424, GO:0044444, GO:0044464
|
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 | 0.506 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 synonymous, 9 missense, 1 nonsense, 0 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.65% of strains (951) · clonal |
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 |
|---|---|---|---|---|
MalQ_N | PF21226.5 | 1.8e-27 | 68–160 | MalQ N-terminal beta sandwich domain |
Glyco_hydro_77 | PF02446.24 | 3.4e-127 | 179–687 | 4-alpha-glucanotransferase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: treX (maltooligosyl trehalose synthase), high confidence from genomic context alone (score 997 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1564c treX |
maltooligosyl trehalose synthase | 998 | 997 ctx | fusion:900 cooccurence:557 coexpression:412 database:900 textmining:622 |
Rv1326c glgB |
1,4-alpha-glucan branching protein | 997 | 991 ctx | fusion:736 cooccurence:441 coexpression:409 database:900 textmining:773 |
Rv1563c treY |
maltooligosyl trehalose synthase | 982 | 969 ctx | fusion:899 cooccurence:438 coexpression:423 textmining:458 |
Rv1328 glgP |
glycogen phosphorylase | 984 | 966 | coexpression:648 database:900 textmining:548 |
Rv1327c glgE |
alpha-1,4-glucan:maltose-1-phosphate maltosyltransferase | 980 | 951 | database:900 textmining:610 |
Rv0127 mak |
maltokinase | 973 | 947 | database:900 textmining:517 |
Rv0126 treS |
trehalose synthase/amylase TreS | 969 | 939 | database:900 textmining:514 |
Rv1213 glgC |
glucose-1-phosphate adenylyltransferase | 993 | 938 | database:900 textmining:893 |
Rv3068c pgmA |
phosphoglucomutase PgmA | 943 | 924 | database:900 |
Rv2471 aglA |
alpha-glucosidase AglA | 954 | 922 | database:900 textmining:439 |
Rv1212c glgA |
capsular glucan synthase | 968 | 914 | database:900 textmining:649 |
Rv3032 |
glycogen synthase | 965 | 900 | database:900 textmining:664 |
Rv3031 |
1,4-alpha-glucan-branching protein | 943 | 900 | database:900 textmining:456 |
Rv0993 galU |
UTP--glucose-1-phosphate uridylyltransferase | 912 | 900 | database:900 |
Rv1562c treZ |
malto-oligosyltrehalose trehalohydrolase | 855 | 772 ctx | cooccurence:578 coexpression:411 |
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: 4-alpha-glucanotransferase
- MTBC0 PGAP product: 4-alpha-glucanotransferase
- Pfam (hmmscan --cut_ga): MalQ_N PF21226.5 (E=2e-27), Glyco_hydro_77 PF02446.24 (E=3e-127)
- (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_216297.1)
- Domains: Pfam-A via hmmscan --cut_ga — MalQ_N (PF21226.5), Glyco_hydro_77 (PF02446.24)
- 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
COG1640 - Curated reference: UniProt P9WK23 (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 —
28 functional partner(s); context anchor
treX - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001895|Rv1781c|malQ MTELAPSLVELARRFGIATEYTDWTGRQVLVSEATLVAALAALGVPAQTEQQRNDALAAQLRSYWARPLPATIVMRAGEQTQFRVHVTDGAPADVWLQLEDGTTRAEVVQVDNFTPPFDLDGRWIGEASFVLPADLPLGYHRVNLRSGDSQASAAVVVTPDWLGLPDKLAGRRAWGLAVQLYSVRSRQSWGIGDLTDLANLALWSASAHGAGYVLVNPLHAATLPGPAGRSKPIEPSPYLPTSRRFVNPLYLRVEAIPELVDLPKRGRVQRLRTNVQQHADQLDTIDRDSAWAAKRAALKLVHRVPRSAGRELAYAAFRTREGRALDDFATWCALAETYGDDWHRWPKSLRHPDASGVADFVDKHADAVDFHRWLQWQLDEQLASAQSQALRAGMSLGIMADLAVGVHPNGADAWALQDVLAQGVTAGAPPDEFNQLGQDWSQPPWRPDRLAEQEYRPFRALIQAALRHAGAVRIDHIIGLFRLWWIPDGAPPTQGTYVRYDHDAMIGIVALEAHRAGAVVVGEDLGTVEPWVRDYLLLRGLLGTSILWFEQDRDCGPAGTPLPAERWREYCLSSVTTHDLPPTAGYLAGDQVRLRESLGLLTNPVEAELESARADRAAWMAELRRVGLLADGAEPDSEEAVLALYRYLGRTPSRLLAVALTDAVGDRRTQNQPGTTDEYPNWRVPLTGPDGQPMLLEDIFTDRRAATLAEAVRAATTSPMSCW