Literature summary for 3.1.1.104 extracted from

Korczynska, M.; Xiang, D.; Zhang, Z.; Xu, C.; Narindoshvili, T.; Kamat, S.; Williams, H.; Chang, S.; Kolb, P.; Hillerich, B.; Sauder, J.; Burley, S.; Almo, S.; Swaminathan, S.; Shoichet, B.; Raushel, F.
Functional annotation and structural characterization of a novel lactonase hydrolyzing D-xylono-1,4-lactone-5-phosphate and L-arabino-1,4-lactone-5-phosphate (2014), Biochemistry, 53, 4727-4738 .

Search for more literature for 3.1.1.104

Cloned(Commentary)

Cloned (Comment)	Organism
expression in Escherichia coli	Mycoplasmopsis synoviae
expression in Escherichia coli	Mycoplasmopsis agalactiae

Crystallization (Commentary)

Crystallization (Comment)	Organism
structure to 2.06 A resolution. The protein adopts a typical amidohydrolase (beta/alpha)8-fold and contains a binuclear zinc center located at the C-terminal end of the beta-barrel. A phosphate molecule bound in the active site shows hydrogen bonds to residues Lys217, Lys244, Tyr245, Arg275, and Tyr278	Mycoplasmopsis synoviae

Protein Variants

Protein Variants	Comment	Organism
E34Q	mutation does not change the substrate profile, but the catalytic rates are reduced	Mycoplasmopsis synoviae
H100N	mutation does not change the substrate profile, but the catalytic rates are reduced	Mycoplasmopsis synoviae
K29A	mutation does not change the substrate profile, but the catalytic rates are reduced	Mycoplasmopsis synoviae

KM Value [mM]

KM Value [mM]	KM Value Maximum [mM]	Substrate	Comment	Organism	Structure
0.3	-	L-arabino-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.5	-	D-xylono-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.66	-	L-arabino-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis agalactiae
0.7	-	D-xylono-1,4-lactone 5-phosphate	mutant E34Q, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.75	-	L-arabino-1,4-lactone 5-phosphate	mutant K29A, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.83	-	L-arabino-1,4-lactone 5-phosphate	mutant H100N, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.9	-	D-xylono-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis agalactiae
1.4	-	D-xylono-1,4-lactone 5-phosphate	mutant K29A, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
1.8	-	L-arabino-1,4-lactone 5-phosphate	mutant E34Q, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
2.7	-	D-xylono-1,4-lactone 5-phosphate	mutant H100N, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae

Natural Substrates/ Products (Substrates)

Natural Substrates	Organism	Comment (Nat. Sub.)	Natural Products	Comment (Nat. Pro.)	Rev.	Reac.
D-xylono-1,4-lactone 5-phosphate + H2O	Mycoplasmopsis synoviae	-	5-phospho-D-xylonate	-	?
D-xylono-1,4-lactone 5-phosphate + H2O	Mycoplasmopsis agalactiae	-	5-phospho-D-xylonate	-	?
D-xylono-1,4-lactone 5-phosphate + H2O	Mycoplasmopsis agalactiae PG2	-	5-phospho-D-xylonate	-	?
D-xylono-1,4-lactone 5-phosphate + H2O	Mycoplasmopsis synoviae 53	-	5-phospho-D-xylonate	-	?
L-arabino-1,4-lactone 5-phosphate + H2O	Mycoplasmopsis synoviae	-	5-phospho-L-arabinate	-	?
L-arabino-1,4-lactone 5-phosphate + H2O	Mycoplasmopsis agalactiae	-	5-phospho-L-arabinate	-	?
L-arabino-1,4-lactone 5-phosphate + H2O	Mycoplasmopsis agalactiae PG2	-	5-phospho-L-arabinate	-	?
L-arabino-1,4-lactone 5-phosphate + H2O	Mycoplasmopsis synoviae 53	-	5-phospho-L-arabinate	-	?
additional information	Mycoplasmopsis synoviae	enzyme shows a preference of C2 (R)- and C3 (R)-enantiomers. Enzyme is unable to hydrolyze simple 1,4- or 1,5-lactones, or to hydrolyze N-acyl homoserine lactones	?	-	?
additional information	Mycoplasmopsis agalactiae	enzyme shows a preference of C2 (R)- and C3 (R)-enantiomers. Enzyme is unable to hydrolyze simple 1,4- or 1,5-lactones, or to hydrolyze N-acyl homoserine lactones	?	-	?
additional information	Mycoplasmopsis agalactiae PG2	enzyme shows a preference of C2 (R)- and C3 (R)-enantiomers. Enzyme is unable to hydrolyze simple 1,4- or 1,5-lactones, or to hydrolyze N-acyl homoserine lactones	?	-	?
additional information	Mycoplasmopsis synoviae 53	enzyme shows a preference of C2 (R)- and C3 (R)-enantiomers. Enzyme is unable to hydrolyze simple 1,4- or 1,5-lactones, or to hydrolyze N-acyl homoserine lactones	?	-	?

Organism

Organism	UniProt	Comment	Textmining
Mycoplasmopsis agalactiae	A5IZ80	-	-
Mycoplasmopsis agalactiae PG2	A5IZ80	-	-
Mycoplasmopsis synoviae	Q4A724	-	-
Mycoplasmopsis synoviae 53	Q4A724	-	-

Substrates and Products (Substrate)

Substrates	Comment Substrates	Organism	Products	Comment (Products)	Rev.	Reac.
D-xylono-1,4-lactone 5-phosphate + H2O	-	Mycoplasmopsis synoviae	5-phospho-D-xylonate	-	?
D-xylono-1,4-lactone 5-phosphate + H2O	-	Mycoplasmopsis agalactiae	5-phospho-D-xylonate	-	?
D-xylono-1,4-lactone 5-phosphate + H2O	-	Mycoplasmopsis agalactiae PG2	5-phospho-D-xylonate	-	?
D-xylono-1,4-lactone 5-phosphate + H2O	-	Mycoplasmopsis synoviae 53	5-phospho-D-xylonate	-	?
L-arabino-1,4-lactone 5-phosphate + H2O	-	Mycoplasmopsis synoviae	5-phospho-L-arabinate	-	?
L-arabino-1,4-lactone 5-phosphate + H2O	-	Mycoplasmopsis agalactiae	5-phospho-L-arabinate	-	?
L-arabino-1,4-lactone 5-phosphate + H2O	-	Mycoplasmopsis agalactiae PG2	5-phospho-L-arabinate	-	?
L-arabino-1,4-lactone 5-phosphate + H2O	-	Mycoplasmopsis synoviae 53	5-phospho-L-arabinate	-	?
additional information	enzyme shows a preference of C2 (R)- and C3 (R)-enantiomers. Enzyme is unable to hydrolyze simple 1,4- or 1,5-lactones, or to hydrolyze N-acyl homoserine lactones	Mycoplasmopsis synoviae	?	-	?
additional information	enzyme shows a preference of C2 (R)- and C3 (R)-enantiomers. Enzyme is unable to hydrolyze simple 1,4- or 1,5-lactones, or to hydrolyze N-acyl homoserine lactones	Mycoplasmopsis agalactiae	?	-	?
additional information	enzyme shows a preference of C2 (R)- and C3 (R)-enantiomers. Enzyme is unable to hydrolyze simple 1,4- or 1,5-lactones, or to hydrolyze N-acyl homoserine lactones	Mycoplasmopsis agalactiae PG2	?	-	?
additional information	enzyme shows a preference of C2 (R)- and C3 (R)-enantiomers. Enzyme is unable to hydrolyze simple 1,4- or 1,5-lactones, or to hydrolyze N-acyl homoserine lactones	Mycoplasmopsis synoviae 53	?	-	?

Synonyms

Synonyms	Comment	Organism
MAG_6390	-	Mycoplasmopsis agalactiae
MS53_0025	-	Mycoplasmopsis synoviae

Turnover Number [1/s]

Turnover Number Minimum [1/s]	Turnover Number Maximum [1/s]	Substrate	Comment	Organism	Structure
0.42	-	L-arabino-1,4-lactone 5-phosphate	mutant K29A, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.58	-	L-arabino-1,4-lactone 5-phosphate	mutant E34Q, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.64	-	L-arabino-1,4-lactone 5-phosphate	mutant H100N, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.9	-	D-xylono-1,4-lactone 5-phosphate	mutant E34Q, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
1.1	-	D-xylono-1,4-lactone 5-phosphate	mutant K29A, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
6	-	D-xylono-1,4-lactone 5-phosphate	mutant H100N, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
6.7	-	L-arabino-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
8.7	-	L-arabino-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis agalactiae
23.4	-	D-xylono-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
51	-	D-xylono-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis agalactiae

kcat/KM [mM/s]

kcat/KM Value [1/mMs^-1]	kcat/KM Value Maximum [1/mMs^-1]	Substrate	Comment	Organism	Structure
0.22	-	D-xylono-1,4-lactone 5-phosphate	mutant H100N, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.32	-	L-arabino-1,4-lactone 5-phosphate	mutant E34Q, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.56	-	L-arabino-1,4-lactone 5-phosphate	mutant K29A, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.77	-	L-arabino-1,4-lactone 5-phosphate	mutant H100N, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
0.79	-	D-xylono-1,4-lactone 5-phosphate	mutant K29A, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
1.3	-	D-xylono-1,4-lactone 5-phosphate	mutant E34Q, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
13	-	L-arabino-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis agalactiae
22	-	L-arabino-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
47	-	D-xylono-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis synoviae
57	-	D-xylono-1,4-lactone 5-phosphate	wild-type, pH 8.3, temperature not specified in the publication	Mycoplasmopsis agalactiae

Use of this online version of BRENDA is free under the CC BY 4.0 license. See terms of use for full details.

Release 2023.1 (January 2023)