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Lecture 9
Redox metallo-biochemistry
(continued)
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e- transfer proteins
Cytochromes
Fe-S proteins
Blue copper proteins
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Kinetics of electron transfer reactions• Electron transfer between 2 metal centers can be
either inner-sphere (via a bridging ligand) or outer-sphere (no bridging ligand, coordination spheres remain the same for both metal ions)
• Only outer-sphere known for metalloproteins• Reasonably fast (> 10 s-1) over large distances (up
to 30 Å)• Can be rationalised by Marcus Theory• Qualitatively: e- transfer is fast if the states before
and after the redox reactions are similar (reorganisation energy is small)
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Cytochromes
• Name comes from the fact that they are coloured• Differ by axial ligands and whether covalently
bound• Involved in electron transfer (a,b,c) or oxygen
activation (P450)• Essential for many redox reactions
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UV-Vis Spectra of cytochromes
Absorption spectra of oxidized (Fe(III) and reduced (Fe(II)) horse cytochrome c.
• classified by bands:• a: 580-590 nm• b: 550-560 nm• c: 548-552 nm• (there’s also d and f)• all involved in electron transfer, all CN6
• P450: 450 nm:• Oxygen activation; CN5
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Cytochrome c• Small soluble proteins
(ca. 12 kDa)• Near inner membrane of
mitochondria• Transfers electrons
between 2 membrane proteins ( for respiration)
• Heme is covalently linked to protein via vinyl groups (thioether bonds with Cys)
• 1 Met and 1 His ligand (axial)
•Conserved from bacteria to Man
horse heart cytochrome cBushnell, G.W., Louie, G.V., Brayer, G.D. J.Mol.Biol. v214 pp.585-595 , 1990
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Cytochromes b
• Heme has no covalent link to protein
• Two axial His ligands• Shown is only soluble
domain; the intact protein is bound to membrane
F Arnesano, L Banci, I Bertini, IC Felli:
The solution structure of oxidized rat microsomal cytochrome b5. Biochemistry (1998) 37, 173-84.
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Not for electron transfer:the cytochromes P450
• CN5, axial ligand is a CN5, axial ligand is a CysCys
• 66thth site for site for substrate/oxygen substrate/oxygen bindingbinding
• Hydroxylates Hydroxylates camphorcamphor
P450Cam
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Tuning of heme function
• In (deoxy)hemoglobin, Fe(II) is 5-coordinate• Must avoid oxidation to Fe(III) (Met-hemoglobin)• Neutral His ligand: His-Fe(II)-porphyrin is
uncharged: Favourable • P450: Catalyses hydroxylation of hydrophobic
substrates. Also 5-coordinate• 1 axial Cys thiolate ligand (negatively charged):
Resting state is Fe(III), also uncharged • In cytochromes, CN=6: No binding of additional
ligand, but very effective 1 e- transfer
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Iron-sulfur proteins
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Fe-S proteins
• Probably amongst the first enzymes• Generally, Fe, Cys thiolate and sulfide• Main function: fast e- transfer• At least 13 Fe-S clusters in mitochondrial
respiration chain
• Rubredoxins: mononuclear FeCys4 site
• Ferredoxins: 2,3 or 4 irons
• Other functions: Aconitase: An isomerase IRE-BP: An iron sensor (see lecture 5)
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Rubredoxins: FeCys4
X-ray Structure of RUBREDOXIN from Desulfovibrio gigas at 1.4 A resolution.FREY, M., SIEKER, L.C., PAYAN, F.
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Fe2S2(Cys-S)4
Fe2S2(Cys-S)2-(His-N)2: Rieske proteins
Fe4S4(Cys-S)4
Fe3S4(Cys-S)4
1 awd: CHLORELLA FUSCA
1fda: Azotobacter vinelandii
1rfs: Spinach
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Fe-S clusters can be easily synthesised from Fe(III), sulfide and organic thiols, but are prone
to rapid oxidation
Richard Holm Self-assembly of Fe-S clusters
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Delocalisation of electrons: Mixed valence
localized Fe3+ (red) and localized Fe2+ (blue) sites, and
delocalized Fe2.5+Fe2.5+ pairs (green)
Why e- transfer is fast: • Clusters can delocalize
the “added” electron• minimizes bond length
changes• decreases
reorganization energy
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Azotobacter vinelandii: 2 clusters
Fe-S proteins often contain more than one cluster:
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The five Fe-S clusters of the Fe-only hydrogenase from Clostridium pasteurianum
• Activation of H2
• Active site (binuclear Fe cluster) on top
• The other five Fe-S clusters provide long-range electron transfer pathways
Pdb 1feh
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P cluster of nitrogenase
FeMoCo cofactor cluster of nitrogenase
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Nitrogenase (Klebsiella pneumoniae)
• Catalyses nitrogen fixation
•N2 + 8H+ + 8e- + 16 ATP → 2NH3 + H2 + 16ADP + 16 Pi
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Redox potentials
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• For both heme proteins and Fe-S clusters, ligands coarsely tune redox potential
• In [4Fe-4S] clusters, proteins can stabilise a particular redox couple
• Further effects
(a) solvent exposure of the cluster(b) specific hydrogen bonding networks
especially NH-S bonds(c) the proximity and orientation of protein
backbone and side chain dipoles(d) the proximity of charged residues to the
cluster
Tuning of redox potentials
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Tuning of redox potentials
• Bacterial ferredoxins and HiPIPs: Both have Fe4S4Cys4 clusters
• -400 mV vs. +350 mV
• Ferredoxins: [Fe4S4Cys4]3- → [Fe4S4Cys4]2-
• HiPIPs: [Fe4S4Cys4]2- → [Fe4S4Cys4]1-
• HiPIPs are more hydrophobic: Favours -1• NH...S bonds: 8-9 in Fd, only 5 in HiPIPs• Compensate charge on cluster; -3 favoured
*) HiPIP: high potential iron-sulfur proteins
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Copper proteins
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Copper proteins
• Oxidases• Cytochrome oxidase(s)• Enzymes dealing with oxides of
nitrogen• Blue copper proteins• Superoxide dismutase• Tyrosinase• Caeruloplasmin
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Principles
• Cu(II) forms the strongest M(II) complexes (see Irving Williams series)
• Cu(I) also forms stable complexes
• The Cu(I)/Cu(II) redox couple: 0.2V-0.8V
• Most Cu proteins either extracellular or membrane-bound
• Many Cu proteins involved in electron transfer
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Preferred geometries
• Cu(II): Tetrahedron
• Cu(I): trigonal planar or 2-coordinate
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Blue copper proteins
• Azurin, stellacyanin, plastocyanin• Unusual coordination geometry: Another
example for how proteins tune metal properties
• Consequences: – Curious absorption and EPR spectra– High redox potential (Cu(I) favoured)
• No geometric rearrangement for redox reaction: Very fast
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2.9 Å
2.11 Å
Amicyanin (pdb 1aac) from Paracoccus denitrificans
Blue copper proteins: coordination geometry
Angles also deviate strongly from ideal tetrahedron(84-136°)
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Key points
• Properties such as redox potentials are tuned by proteins
• Coarse tuning by metal ligands• Charge imposed by ligand can favour
particular oxidation state• Geometry can be imposed by protein: Can
favour particular oxidation state, and also increase reaction rate
• Fine tuning by “second shell”: hydrophobicity, hydrogen bonds, charges in vicinity