Hydrogen transfer, proteins

The Quantum Kramers Approach to Enzymatic Hydrogen Transfer - Protein Dynamics as it Couples to Catalysis... 

Iron Sulfur Compounds. Many molecular compounds (18—20) are known in which iron is tetrahedraHy coordinated by a combination of thiolate and sulfide donors. Of the 10 or more stmcturaHy characterized classes of Fe—S compounds, the four shown in Figure 1 are known to occur in proteins. The mononuclear iron site REPLACE occurs in the one-iron bacterial electron-transfer protein mbredoxin. The [2Fe—2S] (10) and [4Fe—4S] (12) cubane stmctures are found in the 2-, 4-, and 8-iron ferredoxins, which are also electron-transfer proteins. The [3Fe—4S] voided cubane stmcture (11) has been found in some ferredoxins and in the inactive form of aconitase, the enzyme which catalyzes the stereospecific hydration—rehydration of citrate to isocitrate in the Krebs cycle. In addition, enzymes are known that contain either other types of iron sulfur clusters or iron sulfur clusters that include other metals. Examples include nitrogenase, which reduces N2 to NH at a MoFe Sg homocitrate cluster carbon monoxide dehydrogenase, which assembles acetyl-coenzyme A (acetyl-CoA) at a FeNiS site and hydrogenases, which catalyze the reversible reduction of protons to hydrogen gas. 

The important criterion thus becomes the ability of the enzyme to distort and thereby reduce barrier width, and not stabilisation of the transition state with concomitant reduction in barrier height (activation energy). We now describe theoretical approaches to enzymatic catalysis that have led to the development of dynamic barrier (width) tunneUing theories for hydrogen transfer. Indeed, enzymatic hydrogen tunnelling can be treated conceptually in a similar way to the well-established quantum theories for electron transfer in proteins. 

The only (to the best of our knowledge) theoretical treatment of hydrogen transfer by tunnelling to explicitly recognise the role of protein dynamics, and relate this in turn to the observed kinetic isotope effect, was described by Bruno and Bialek. This approach has been termed vibration-ally enhanced ground state tunnelling theory. A key feature of this theory... 

It shows a section through a bacterial cell (only one corner of the cell is shown). ATP synthase links the discharge of the transmembrane proton gradient to the formation of ATP, A simple mechanism (hydrogen cycling) B. a mechanism in which the membrane-bound electron-transfer proteins are proton pumps. 

Ubiquinone is readily reduced to ubiquinol, a process requiring two protons and two electrons similarly, ubiquinol is readily oxidized back to ubiquinone. This redox process is important in oxidative phosphorylation, in that it links hydrogen transfer to electron transfer. The cytochromes are haem-containing proteins (see Box 11.4). As we have seen, haem is an iron-porphyrin complex. Alternate oxidation-reduction of the iron between Fe + (reduced form) and Fe + (oxidized form) in the various cytochromes is responsible for the latter part of the electron transport chain. The individual cytochromes vary structurally, and their classification... 

In Photosystem II, chlorophyll absorbs a photon of fight, with maximum absorption occurring at 680 nm. The photon excites an electron in the chlorophyll, and this excited electron moves through the chlorophyll to chlorophylls reaction center. Here the photons energy is used by electron-transfer proteins to pump protons (hydrogen ions, H+) into the thylakoid. 

The kinetics of oxidation and reduction of [4Fe-4S] proteins by transition metal complexes and by other electron-transfer proteins have been studied. These reactions do not correlate with their redox potentials.782 The charge on the cluster is distributed on the surface of HiPIP through the hydrogen bond network, and so affects the electrostatic interaction between protein and redox agents such as ferricyanide, Co111 and Mnin complexes.782 783 In some cases, limiting kinetics were observed, showing the presence of association prior to electron transfer.783... 

As important as calcium is probably iron [122]. Iron is the metal center of many essential proteins and enzymes, such as hemoglobin, an oxygen carrier, or peroxidase, that oxidizes hydrogen peroxide, or even the large family of cytochromes, which act as electron transfer proteins in many important biochemical processes [85]. New families of MRI contrast agents have been designed such that their relaxivity is iron concentration dependent [128-130]. The two latest are based on Gd(III) chelates (Fig. 20) but differ by the mechanism responsible for their iron sensitivity and will be described further. 

For two transaminases the remaining unknown stereochemical parameter was determined by demonstrating an internal transfer of tritium (dialkyl amino acid transaminase) [28] or deuterium (pyridoxamine-pyruvate transaminase) [27] from the a-position of the substrate L-alanine to C-4 of the cofactor. Internal hydrogen transfer from the a-position of the substrate amino acid to C-4 of PLP has also been demonstrated for two of the abortive transamination reactions, those catalyzed by tryptophan synthase fi2 protein [32] and by aspartate-/8-decarboxylase [31]. In addition, the same phenomenon must occur in alanine transaminase, as deduced from the observation that the enzyme catalyzes exchange of the /8-hydrogens of... 

Nauser T, Felling J, Schoneich C. (2004) Thiyl radical reaction with amino acid side chains Rate constants for hydrogen transfer and relevance for posttransla-tional protein modification. Chem Res Toxicol 17 1323-1328. 

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