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Entry M0190    5.3.3.2    isopentenyl-diphosphate delta-isomerase

Previous Step

Step 03

Tyr104 deprotonates water, which in turn deprotonates Cys67 in an inferred return step.

This reaction step has been inferred

GIF of Reaction Step M0190.stg03


Comment: Distance between Tyr104 OH and Cys67 SG is 6.85 Angstroms, thus we assume a proton relay through water.



Mechanisms

Proton Transfer

Mechanism Components

Bond Formation
Bond Cleavage
Enzyme Regenerated
Proton Relay

Amino acids involved in the reaction step.

Amino Acid Location of Function Activity Function
Tyr104 Side Chain reactant Hydrogen Bond Acceptor
Proton Acceptor
Glu116 Side Chain spectator Metal Ligand
Trp161 Side Chain spectator Polar Non-polar interaction
Cys67 Side Chain reactant Hydrogen Bond Donor
Proton Donor

Metal Cofactors involved in Step 03

Metal Type Metal Identity Chain Activity Function
manganese MN 201 A spectator Activator
magnesium MG 401 A spectator Not Active

Reactive Centre

Bonds Formed Bonds Cleaved Bonds Changed in Order Atom Types Involved
O-H
S-H
None
H
O
S

View similar reactions in MACiE.


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