Literature summary for 2.5.1.31 extracted from

Chang, S.Y.; Ko, T.P.; Chen, A.P.; Wang, A.H.; Liang, P.H.
Substrate binding mode and reaction mechanism of undecaprenyl pyrophosphate synthase deduced from crystallographic studies (2004), Protein Sci., 13, 971-978.

Crystallization (Commentary)

Crystallization (Comment)	Organism
hanging drop set-up	Escherichia coli
purified His-tagged wild-type enzyme, hanging drop vapour diffusion method, high concentration of sulfate or phosphate in the mother liquid to prevent binding of Triton X-100 or substrates during crystallization, 0.002 ml mother liquid containing 25% ethylene glycol, pH 7.5, mixed with 0.002 ml protein solution containing 10 mg/ml protein, 1 mM peptide, 0.05% Triton X-100, and 0.5 mM MgCl2, equilibration against 0.2 ml mother liquid at 25°C, 5 days, crystals are then soaked in mother liquid containing 0.23 mM farnesyl diphosphate, X-ray diffraction structure determination and analysis at 2.4 A resolution, modeling	Escherichia coli

Crystallization (Comment)

Organism

hanging drop set-up

Escherichia coli

purified His-tagged wild-type enzyme, hanging drop vapour diffusion method, high concentration of sulfate or phosphate in the mother liquid to prevent binding of Triton X-100 or substrates during crystallization, 0.002 ml mother liquid containing 25% ethylene glycol, pH 7.5, mixed with 0.002 ml protein solution containing 10 mg/ml protein, 1 mM peptide, 0.05% Triton X-100, and 0.5 mM MgCl2, equilibration against 0.2 ml mother liquid at 25°C, 5 days, crystals are then soaked in mother liquid containing 0.23 mM farnesyl diphosphate, X-ray diffraction structure determination and analysis at 2.4 A resolution, modeling

Escherichia coli

Metals/Ions

Metals/Ions	Comment	Organism	Structure
Mg2+	required, enzyme utilizes a Asp-rich motif for substrate binding via Mg2+	Escherichia coli

Natural Substrates/ Products (Substrates)

Natural Substrates	Organism	Comment (Nat. Sub.)	Natural Products	Comment (Nat. Pro.)	Rev.	Reac.
farnesyl diphosphate + isopentenyl diphosphate	Escherichia coli	consecutive condensation of 8 molecules of isopentenyl diphosphate with farnesyl diphosphate to form the lipid carrier undecaprenyl diphosphate to mediate bacterial peptidoglycan synthesis, the final product has C55 chain length	diphosphate + di-trans-poly-cis-undecaprenyl diphosphate	-	?

Organism

Organism	UniProt	Comment	Textmining
Escherichia coli	-	-	-

Reaction

Reaction	Comment	Organism	Reaction ID
(2E,6E)-farnesyl diphosphate + 8 isopentenyl diphosphate = 8 diphosphate + ditrans,octacis-undecaprenyl diphosphate	substrate binding mode and catalytic mechanism involving active site residue Asp26 which serves as general base, overview	Escherichia coli	a
(2E,6E)-farnesyl diphosphate + 8 isopentenyl diphosphate = 8 diphosphate + ditrans,octacis-undecaprenyl diphosphate	ditrans,octacis-undecaprenyl diphosphate substrate binding mode and catalytic mechanism involving active site residue Asp26 which serves as general base, overview	Escherichia coli	a

Substrates and Products (Substrate)

Substrates	Comment Substrates	Organism	Products	Comment (Products)	Rev.
(2E,6E)-farnesyl diphosphate + 8 isopentenyl diphosphate	-	Escherichia coli	8 diphosphate + ditrans,octacis-undecaprenyl diphosphate	-	?
di-trans-poly-cis-decaprenyl diphosphate + isopentenyl diphosphate	di-trans-poly-cis-decaprenyl diphosphate is farnesyl diphosphate, the diphosphate head group of farnesyl diphosphate is bound to the backbone of NHs pf G29 and R30 as well as the side chains of N28, R30, and R39 through hydrogen bonds, H43 may stabilize the farnesyl cation intermediate during catalysis being near to the C2 carbon of farnesyl diphosphate	Escherichia coli	diphosphate + di-trans-poly-cis-undecaprenyl diphosphate	-	?
farnesyl diphosphate + isopentenyl diphosphate	consecutive condensation of 8 molecules of isopentenyl diphosphate with farnesyl diphosphate to form the lipid carrier undecaprenyl diphosphate to mediate bacterial peptidoglycan synthesis, the final product has C55 chain length	Escherichia coli	diphosphate + di-trans-poly-cis-undecaprenyl diphosphate	-	?

Synonyms

Synonyms	Comment	Organism
More	cis-type enzyme	Escherichia coli
undecaprenyl pyrophosphate synthase	-	Escherichia coli
UPPs	-	Escherichia coli