Enzymes bind their substrates using ionic, covalent, polar
interactions, etc. Polysaccharides could be bound to lysozyme
by hydrogen bonding to e.g. aspartate or C=O groups in the peptide
backbone.
Prosthetic groups, coenzymes and metal ions.
ATP in hexokinase - soluble coenzyme provides energy/phosphate
for glucose phosphorylation.
FeS Riske cluster in ferredoxin - prosthetic group carries
electrons.
Coenzyme-A in citrate synthase - coenzyme transfers acetyl
groups from pyruvate to oxaloacetate.
Haem in haemoglobin - prosthetic group carries oxygen.
NAD+ in alcohol dehydrogenase - coenzyme accepts
electrons (H−) from alcohol when it is
dehydrogenated.
Vanadium (III) in nitrogenase - metal ion donates electrons to
nitrogen when it is hydrogenated to ammonia.
Saturation kinetics means that as a reactant concentration
increases, the order of reaction changes from 1st to
0th.
Km is (approximately) the dissociation constant for the
ES complex, and Vm is the overall ROR (k3[ES])
when all the enzyme is saturated, i.e. the maximum rate the
enzyme can run at. Km is the substrate concentration that
gives V= ½Vm.
kcat = Vm ⁄ [E]T = 30 ×
10−3 mol L−1 s−1/ (1
× 10−3 g L−1 ⁄ 20,000 g
mol−1) = 600,000 s−1. Typical for
carbonic anhydrase.
Diisopropyl phosphofluoridate (DIPF) is a suicide inhibitor of
acetylcholine esterase: it binds irreversibly to AChE, having been
activated in the same way as the genuine substrate. It might be useful
as a nerve gas or pesticide, depending on its specificity for human or
insect AChE.
Phosphate is a competitive inhibitor: no effect on Vm
(Y-intercept same), but increased Km (X-intercept
lower).
PFK is regulated:
Because it is an important gatekeeper to glycolysis.
Because the reaction it catalyses is essentially
irreversible.
By feedback allosteric inhibition by ATP and citrate.
By feedforward activation by AMP and ADP.
By working as a pair with
fructose-1,6-bis-phosphatase, which catalyses a similar
(but not identical) reverse reaction.
Trypsin is secreted as a zymogen to prevent it digesting the cell
in which it is synthesised.