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Literature summary for 2.3.2.22 extracted from

  • Borgman, P.; Lopez, R.; Lane, A.
    The expanding spectrum of diketopiperazine natural product biosynthetic pathways containing cyclodipeptide synthases (2019), Org. Biomol. Chem., 17, 2305-2314 .
    View publication on PubMed

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
L-leucyl-tRNALeu + L-leucyl-tRNALeu Bacillus spizizenii
-
tRNALeu + tRNALeu + cyclo(L-leucyl-L-leucyl)
-
?
L-leucyl-tRNALeu + L-leucyl-tRNALeu Bacillus spizizenii W23
-
tRNALeu + tRNALeu + cyclo(L-leucyl-L-leucyl)
-
?
L-leucyl-tRNALeu + L-leucyl-tRNALeu Bacillus spizizenii NRRL B-14472
-
tRNALeu + tRNALeu + cyclo(L-leucyl-L-leucyl)
-
?
L-leucyl-tRNALeu + L-leucyl-tRNALeu Bacillus spizizenii ATCC 23059
-
tRNALeu + tRNALeu + cyclo(L-leucyl-L-leucyl)
-
?
additional information Bacillus spizizenii the CDPS YvmC catalyzes formation of major product cyclo(L-leucyl-L-leucyl) as well as minor cyclic dipeptide products containing one leucine residue ?
-
-
additional information Bacillus spizizenii W23 the CDPS YvmC catalyzes formation of major product cyclo(L-leucyl-L-leucyl) as well as minor cyclic dipeptide products containing one leucine residue ?
-
-
additional information Bacillus spizizenii NRRL B-14472 the CDPS YvmC catalyzes formation of major product cyclo(L-leucyl-L-leucyl) as well as minor cyclic dipeptide products containing one leucine residue ?
-
-
additional information Bacillus spizizenii ATCC 23059 the CDPS YvmC catalyzes formation of major product cyclo(L-leucyl-L-leucyl) as well as minor cyclic dipeptide products containing one leucine residue ?
-
-

Organism

Organism UniProt Comment Textmining
Bacillus spizizenii E0U3N2
-
-
Bacillus spizizenii ATCC 23059 E0U3N2
-
-
Bacillus spizizenii NRRL B-14472 E0U3N2
-
-
Bacillus spizizenii W23 E0U3N2
-
-

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
L-leucyl-tRNALeu + L-leucyl-tRNALeu
-
Bacillus spizizenii tRNALeu + tRNALeu + cyclo(L-leucyl-L-leucyl)
-
?
L-leucyl-tRNALeu + L-leucyl-tRNALeu
-
Bacillus spizizenii W23 tRNALeu + tRNALeu + cyclo(L-leucyl-L-leucyl)
-
?
L-leucyl-tRNALeu + L-leucyl-tRNALeu
-
Bacillus spizizenii NRRL B-14472 tRNALeu + tRNALeu + cyclo(L-leucyl-L-leucyl)
-
?
L-leucyl-tRNALeu + L-leucyl-tRNALeu
-
Bacillus spizizenii ATCC 23059 tRNALeu + tRNALeu + cyclo(L-leucyl-L-leucyl)
-
?
additional information the CDPS YvmC catalyzes formation of major product cyclo(L-leucyl-L-leucyl) as well as minor cyclic dipeptide products containing one leucine residue Bacillus spizizenii ?
-
-
additional information the CDPS YvmC catalyzes formation of major product cyclo(L-leucyl-L-leucyl) as well as minor cyclic dipeptide products containing one leucine residue Bacillus spizizenii W23 ?
-
-
additional information the CDPS YvmC catalyzes formation of major product cyclo(L-leucyl-L-leucyl) as well as minor cyclic dipeptide products containing one leucine residue Bacillus spizizenii NRRL B-14472 ?
-
-
additional information the CDPS YvmC catalyzes formation of major product cyclo(L-leucyl-L-leucyl) as well as minor cyclic dipeptide products containing one leucine residue Bacillus spizizenii ATCC 23059 ?
-
-

Synonyms

Synonyms Comment Organism
CDPS
-
Bacillus spizizenii
cyclodipeptide synthase
-
Bacillus spizizenii
YvmC
-
Bacillus spizizenii

General Information

General Information Comment Organism
metabolism comparison of different CDPS-containing biosynthetic pathways, enzyme YvmC is involved in the pulcherrimin biosynthetic pathway, overview. In Bacillus subtilis, the CDPS YvmC catalyzes formation of major product cyclo(L-leucyl-L-leucyl) as well as minor cyclic dipeptide products containing one leucine residue. The yvmC gene is part of a two gene operon with cypX Bacillus spizizenii
additional information the CDPS catalytic mechanism entails initial covalent tethering of the aminoacyl moiety from the first aa-tRNA substrate onto a conserved active site serine (Ser) residue. Nucleophilic attack of the amino nitrogen on the carbonyl carbon from the second aa-tRNA substrate yields the first peptide bond. The resulting enzyme-linked dipeptidyl intermediate then undergoes intramolecular peptide bond formation to yield the DKP group with concomitant release from the active site. The two aa-tRNA substrates bind at different sites of the CDPS Bacillus spizizenii
physiological function cyclodipeptide synthases (CDPSs) are recognized catalysts of 2,5-diketopiperazine (DKP) assembly, employing two aminoacyl-tRNAs (aa-tRNAs) as substrates. Representative 2,5-diketopiperazine (DKP) natural products and bioactivities, overview Bacillus spizizenii