pks7 Resolved · high auto-curated
H37Rv Rv1661 · MTBC0 mtbc0_001770 ·
2126 aa · 1887346–1893726 (+) ·
RefSeq NP_216177.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | polyketide synthase |
|---|---|
| MTBC0 PGAP re-annotation | type I polyketide synthase |
| Revised (this work) | Type I polyketide synthase. Pfam: Docking (PF08990.17), ketoacyl-synt (PF00109.33), Ketoacyl-synt_C (PF02801.29), KAsynt_C_assoc (PF16197.12), CurL-like_PKS_C (PF22621.3), Acyl_transf_1 (PF00698.27), PKS_DH_N (PF21089.4), PS-DH (PF14765.13), SpnB_Rossmann (PF22953.4), ADH_N (PF08240.18), ADH_zinc_N (PF00107.33), ADH_zinc_N_2 (PF13602.13), KR (PF08659.17), adh_short (PF00106.32), Epimerase (PF01370.28), PP-binding (PF00550.32). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P94996
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable polyketide synthase Pks7 |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
Q Secondary metabolites biosynthesis, transport and catabolism
|
|---|---|
| Preferred name | pks7 |
| eggNOG description | polyketide synthase |
| Orthologous group | COG0604 |
| KEGG orthology |
K12434
|
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 | 0.709 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 21 synonymous, 39 missense, 1 nonsense, 8 frameshift |
| Disruption | 9 distinct premature-stop/frameshift site(s); most common in 5.94% of strains (8632) · convergent |
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 |
|---|---|---|---|---|
Docking | PF08990.17 | 2.0e-06 | 4–31 | Erythronolide synthase docking domain |
ketoacyl-synt | PF00109.33 | 1.4e-95 | 35–284 | Beta-ketoacyl synthase, N-terminal domain |
Ketoacyl-synt_C | PF02801.29 | 6.5e-42 | 292–408 | Beta-ketoacyl synthase, C-terminal domain |
KAsynt_C_assoc | PF16197.12 | 2.2e-14 | 411–528 | Ketoacyl-synthetase C-terminal extension |
CurL-like_PKS_C | PF22621.3 | 8.3e-08 | 479–539 | CurL-like, PKS C-terminal |
Acyl_transf_1 | PF00698.27 | 1.4e-97 | 564–884 | Acyl transferase domain |
PKS_DH_N | PF21089.4 | 2.3e-24 | 934–1032 | Polyketide synthase dehydratase domain |
PS-DH | PF14765.13 | 2.3e-24 | 1060–1204 | Polyketide synthase dehydratase N-terminal domain |
SpnB_Rossmann | PF22953.4 | 2.6e-34 | 1231–1352 | Polyketide synthase extender module SpnB, Rossmann fold domain |
ADH_N | PF08240.18 | 1.0e-08 | 1395–1449 | Alcohol dehydrogenase GroES-like domain |
ADH_zinc_N | PF00107.33 | 1.3e-11 | 1512–1601 | Zinc-binding dehydrogenase |
ADH_zinc_N_2 | PF13602.13 | 1.1e-18 | 1549–1679 | Zinc-binding dehydrogenase |
KR | PF08659.17 | 3.7e-59 | 1694–1872 | KR domain |
adh_short | PF00106.32 | 2.8e-11 | 1695–1853 | short chain dehydrogenase |
Epimerase | PF01370.28 | 3.0e-08 | 1696–1839 | NAD dependent epimerase/dehydratase family |
PP-binding | PF00550.32 | 5.2e-13 | 1982–2047 | Phosphopantetheine attachment site |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: fas (fatty acid synthase), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2524c fas |
fatty acid synthase | 999 | 1000 ctx | neighborhood:544 coexpression:810 experimental:999 database:549 textmining:736 |
Rv2383c mbtB |
phenyloxazoline synthase | 994 | 981 ctx | neighborhood:544 cooccurence:419 coexpression:877 experimental:473 textmining:707 |
Rv1662 pks8 |
polyketide synthase | 981 | 979 ctx | neighborhood:748 coexpression:863 experimental:433 |
Rv1664 pks9 |
polyketide synthase | 978 | 978 ctx | neighborhood:855 coexpression:801 |
Rv1663 pks17 |
polyketide synthase | 974 | 970 ctx | neighborhood:749 coexpression:859 |
Rv2243 fabD |
malonyl CoA-acyl carrier protein transacylase | 971 | 963 | coexpression:602 experimental:787 database:549 |
Rv0101 nrp |
peptide synthetase Nrp | 975 | 959 ctx | cooccurence:498 coexpression:773 experimental:473 textmining:424 |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 968 | 943 ctx | neighborhood:544 experimental:795 textmining:470 |
Rv1527c pks5 |
polyketide synthase | 966 | 943 ctx | neighborhood:544 experimental:795 textmining:439 |
Rv2933 ppsC |
phthiocerol synthesis polyketide synthase type I PpsC | 966 | 942 ctx | neighborhood:544 experimental:795 textmining:439 |
Rv2940c mas |
multifunctional mycocerosic acid synthase | 966 | 942 ctx | neighborhood:544 experimental:795 textmining:439 |
Rv2048c pks12 |
polyketide synthase | 958 | 930 ctx | neighborhood:544 experimental:795 textmining:439 |
Rv3800c pks13 |
polyketide synthase | 958 | 904 ctx | neighborhood:544 coexpression:675 textmining:582 |
Rv0310c hyp |
hypothetical protein | 897 | 864 | coexpression:449 experimental:465 database:561 |
Rv3147 nuoC |
NADH-quinone oxidoreductase subunit C | 885 | 862 | coexpression:448 experimental:472 database:564 |
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: polyketide synthase
- MTBC0 PGAP product: type I polyketide synthase
- Pfam (hmmscan --cut_ga): Docking PF08990.17 (E=2e-06), ketoacyl-synt PF00109.33 (E=1e-95), Ketoacyl-synt_C PF02801.29 (E=6e-42), KAsynt_C_assoc PF16197.12 (E=2e-14), CurL-like_PKS_C PF22621.3 (E=8e-08), Acyl_transf_1 PF00698.27 (E=1e-97), PKS_DH_N PF21089.4 (E=2e-24), PS-DH PF14765.13 (E=2e-24), SpnB_Rossmann PF22953.4 (E=3e-34), ADH_N PF08240.18 (E=1e-08), ADH_zinc_N PF00107.33 (E=1e-11), ADH_zinc_N_2 PF13602.13 (E=1e-18), KR PF08659.17 (E=4e-59), adh_short PF00106.32 (E=3e-11), Epimerase PF01370.28 (E=3e-08), PP-binding PF00550.32 (E=5e-13)
- (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_216177.1)
- Domains: Pfam-A via hmmscan --cut_ga — Docking (PF08990.17), ketoacyl-synt (PF00109.33), Ketoacyl-synt_C (PF02801.29), KAsynt_C_assoc (PF16197.12), CurL-like_PKS_C (PF22621.3), Acyl_transf_1 (PF00698.27), PKS_DH_N (PF21089.4), PS-DH (PF14765.13), SpnB_Rossmann (PF22953.4), ADH_N (PF08240.18), ADH_zinc_N (PF00107.33), ADH_zinc_N_2 (PF13602.13), KR (PF08659.17), adh_short (PF00106.32), Epimerase (PF01370.28), PP-binding (PF00550.32)
- 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
COG0604 - Curated reference: UniProt P94996 (TrEMBL, unreviewed; 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 —
442 functional partner(s); context anchor
fas - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001770|Rv1661|pks7 MNSTPEDLVKALRRSLKQNERLKRENRDLLARTTEPVAVVGMGCRYPGGVDSPETLWELVAHGRDAVSEFPADRGWDVAGLFDPDPDAVGKSYTRCGGFLTDVAGFDAEFFGIAPSEALAMDPQQRLLLEVSWEALERAGIDPITLRGSQTGVFAGVFHGSYGGQGRVPGDLERYGLRGSTLSVASGRVAYVLGLQGPAVSVDTACSSSLVALHLAVQSLRLGECDLALVGGVTVMATPAMFIEFSRQRALSADGRCKAYAGAADGTAFAEGAGVLVLARLADARRLGHPVLALVRGSAVNQDGASNGLATPNGPAQQRVITAALASARLGVADVDVVEGHGTGTTLGDPIEAQAILATYGQRPADRPLWLGSIKSNIGHTSAAAGVAGVIKMVQAMRHGVLPKTLHVDVPTPHVDWSAGAVSLLTEPRPWHVPGRPRRAGVSSFGISGTNAHVILEEAPAVEPVGAAHGNDPVAVPWVLSARSAQALTNQARRLLAWVGADENVRPLDVGWSLVNTRSLFDHRAVVVGADRTQLMEGLTGLAAGVPGADVVAGRAQTVGKTAFVFPGQGAQWLGMGAQLCATAPVFAEHIHRCERALREHVEWSLLDVLRGAPGAPGLDRVDVVQPALWAVMVSLAELWRSVGVVPDAVIGHSQGEIAAAYVAGALSLRDAAAVVALRSRLLVRLGGAGGMVSLACGQPQAEKLASQWGDRLNIAAVNGVSSVVLAGETDAVTELMQRCEAEGIRARRIDVDYASHSAQVDAIREELIAALRGIEPRTSTVAFFSTVTGELMDTAGVNAEYWYRSIRQPVQFERAVRNAFDGGYRVFVESSPHPVLIAGIEETLVDCDRGATGEPIVIPTLGRDDGGVGRFWLSAGQAHVAGVGVDWRAAFADLGGRRVELPTYAFARQRFWLDGLGAVGGDLGGVGLVGAEHGLLAAVVQRPDSGGVVLTGRISVVAAPWLADHAVGPVVLFPGTGFVELALRAGDEVGCSVLQELTLQAPLVLPADGVRVQVVVGGVEQSGTRNVWVYSAAGQADSSPGWTLHAQGVLGVGSVQPAAELSVWPPVGARAMDVADGYQVLAARGYGYGPAFRGLQALWRRGAEVFADVTLPEGVPIRGFGIHPAVLDAALHAWGIVEGEQQTMLPFSWQGVCLHASGAARVRVRLAPVGRGAVSVELADPQGLPVLSVRQLMVRPVSAAALSRSTAGDRGLLEMIWTPVPLEGGDIGDDAVVWELPPHAGAQAGGDVLAAVYRGVHEVLEVLQSWLASDATGLGVVVTRGAVGPVDDDVTDLAGAAVWGLVRSAQAEHPGRVVLVDTDGSVAVEDAVGFGARSGEPQLVVRRGRVYAARLAPVAAGLTLPSASAGGWRLVAGGGGTLADVVVAPVAPVELATGQVRVAVGAVGVNFRDVLVALGMYPGGGELGVDGAGVVVEVGPGVTGLAVGDRVMGLLGLVGSEAVVDARLVTMVPAGWSLVEAAAVPVAFLTAFYGLSVLAEVAAGQKVLVHAGTGGVGMAAVSLARYWGAEVFVTASRAKWDTLRAMGFDDIHISDSRSLEFEEAFLRATEGSGVDVVLNSLAGEFTDASLRLLPSGGRFIELGKTDIRDGQTVAERHRGVRYRAFDLVEAGPDRIAAMLSEVVGLLAAGVLARLPVKTFDARCAPAAYRFVSQARHIGKVVLTIPDGPGGQSGLAGGTVVVTGGTGMAGSAVATHLVRRHGVANLVLVSRSGEQADRAAEVAALLREGGAQVAVVSCDVADRDALAALLAGLDPRYPLKGVFHAAGVLDDAVITGLTPDRVDTVLRAKVDGAWNLHELTEDMDLSAFVVFSSMAGIVGTPAQGNYAAANAFLDGLVAYRRSRGLAGLSVAWGLWEQASAMTRHLGERDRARMTQAGLAPLTTEQALGFLDTALQADRAVVVAARLDRAALAGAGAALPALFSQLAAGPTRRRIDAADTAVSMSGLVSRLHALTPERRQRELTDLVISNAAAVLGRSSSVDINAHKAFQDLGFDSLTAVELRNRLKTATGLTLSPTLIFDYPTPATLAEHLDSRLVTASGSDQQSLSDRVDDITRELVVLLDQPDLSANVKAHLRTRLQTMLTSLTTEDDDIAAATESQLFAILDEELGS