Heme-protein vibrational couplings in cytochrome c provide a dynamic link that connects the heme-iron and the protein surface

Proceedings of the National Academy of Sciences of the United States of America

Volumn 109, Issue 23, 2012, Pages 8896-8900

  Galinato, Mary Grace I ^a,d   Kleingardner, Jesse G ^b   Bowman, Sarah E J ^b,e   Alp, E Ercan ^c   Zhao, Jiyong ^c   Bren, Kara L ^b   Lehnert, Nicolai ^a  

^a UNIVERSITY OF MICHIGAN   (United States)

^b UNIVERSITY OF ROCHESTER   (United States)

^c ARGONNE NATIONAL LABORATORY   (United States)

^d BEHREND COLLEGE   (United States)

^e UNIVERSITY OF MINNESOTA DULUTH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CARBON 13; CYTOCHROME C; HEME; IRON 57; NITROGEN 15; POLYPEPTIDE; SCATTER FACTOR RECEPTOR;

ARTICLE; BACTERIUM; COMPLEX FORMATION; CONTROLLED STUDY; HYDROGENOBACTER THERMOPHILUS; ISOTOPE LABELING; MOLECULAR DYNAMICS; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; NUCLEAR RESONANCE VIBRATIONAL SPECTROSCOPY; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; VIBRATIONAL COUPLING;

BACTERIA; CATALYTIC DOMAIN; CYTOCHROMES C; HEME; IRON; MAGNETIC RESONANCE SPECTROSCOPY; MODELS, MOLECULAR; MOLECULAR DYNAMICS SIMULATION; MOLECULAR STRUCTURE; VIBRATION;

HYDROGENOBACTER THERMOPHILUS;

EID: 84861910382     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1200345109     Document Type: Article

References (34)

1. Bowman SEJ, Bren KL (2008) The chemistry and biochemistry of heme c: Functional bases for covalent attachment. Nat Prod Rep 25:1118-1130.
2. Ma JG, et al. (1998) Protein-induced changes in nonplanarity of the porphyrin in nickel cytochrome c probed by resonance Raman spectroscopy. Biochemistry 37:5118-5128.
3. Pelletier H, Kraut J (1992) Crystal structure of a complex between electron transfer partners, cytochrome c peroxidase and cytochrome c. Science 258:1748-1755. (Pubitemid 23087339)
4. Hay S, Scrutton NS (2012) Good vibrations in enzyme-catalysed reactions. Nat Chem 4:161-168.
5. Hu S, Morris IK, Singh JP, Smith KM, Spiro TG (1993) Complete assignment of cytochrome c resonance Raman spectra via enzymatic reconstitution with isotopically labeled hemes. J Am Chem Soc 115:12446-12458. (Pubitemid 24078345)
6. Desbois A (1994) Resonance Raman spectroscopy of c-type cytochromes. Biochimie 76:693-707.
7. Johannessen C, White PC, Abdali S (2007) Resonance Raman optical activity and surface enhanced resonance Raman optical activity analysis of cytochrome c. J Phys Chem A 111:7771-7776. (Pubitemid 47310916)
8. Berezhna S, Wohlrab H, Champion PM (2003) Resonance Raman investigations of cytochrome c conformational change upon interaction with the membranes of intact and Ca2+-exposed mitochondria. Biochemistry 42:6149-6158. (Pubitemid 36605116)
9. Yeo B-S, Madler S, Schmid T, Zhang W, Zenobi R (2008) Tip-enhanced Raman spectroscopy can see more: The case of cytochrome c. J Phys Chem C 112:4867-4873.
10. Chin JK, Jimenez R, Romesberg FE (2001) Direct observation of protein vibrations by selective incorporation of spectroscopically observable carbon-deuterium bonds in cytochrome c. J Am Chem Soc 123:2426-2427. (Pubitemid 32904779)
11. Freedman H, Martel P, Cruzeiro L (2010) Mixed quantum-classical dynamics of an amide-I vibrational excitation in a protein α-helix. helix. Phys Rev B Condens Matter Mater Phys 82:174301-174308.
12. Reuveni S, Granek R, Klafter J (2010) Anomalies in the vibrational dynamics of proteins are a consequence of fractal-like structure. Proc Natl Acad Sci USA 107:13696-13700.
13. Song G, Jernigan RL (2007) vGNM: A better model for understanding the dynamics of proteins in crystals. J Mol Biol 369:880-893. (Pubitemid 46709923)
14. Scheidt WR, Durbin SM, Sage JT (2005) Nuclear resonance vibrational spectroscopy-NRVS. J Inorg Biochem 99:60-71.
15. Paulat F, et al. (2008) Vibrational assignments of six-coordinate ferrous heme nitrosyls: New insight from nuclear resonance vibrational spectroscopy. Inorg Chem 47:11449-11451.
16. Lehnert N, et al. (2010) Oriented single-crystal nuclear resonance vibrational spectroscopy of [Fe(TPP)(MI)(NO)]: Quantitative assessment of the trans effect of NO. Inorg Chem 49:7197-7215.
17. Leu BM, et al. (2009) Vibrational dynamics of iron in cytochrome C. J Phys Chem B 113:2193-2200.
18. Guo Y, et al. (2008) Characterization of the Fe site in iron-sulfur cluster-free hydrogenase (Hmd) and of a model compound via nuclear resonance vibrational spectroscopy (NRVS). Inorg Chem 47:3969-3977.
19. Li J, et al. (2011) New perspectives on iron-ligand vibrations of oxyheme complexes. Chemistry 17:11178-11185.
20. Lehnert N (2009) Computational Inorganic and Bioinorganic Chemistry, eds Solomon EI, King RB, Scott RA (John Wiley & Sons, Chichester, UK), pp 123-140.
21. Cartling B (1983) Intermediate and stable redox states of cytochrome c studied by low temperature resonance Raman spectroscopy. Biophys J 43:191-205.
22. Tezcan FA, Winkler JR, Gray HB (1998) Effects of ligation and folding on reduction potentials of heme proteins. J Am Chem Soc 120:13383-13388. (Pubitemid 29025203)
23. Champion PM, Stallard BR, Wagner GC, Gunsalus IC (1982) Resonance Raman detection of an Fe-S bond in Cyt P450cam. J Am Chem Soc 104:5469-5472.
24. Bangcharoenpaurpong O, Champion PM, Hall KS, Hager LP (1986) Resonance Raman studies of isotopically labeled chloroperoxidase. Biochemistry 25:2374-2378.
25. Travaglini-Allocatelli C, et al. (2005) An obligatory intermediate in the folding pathway of cytochrome c552 from Hydrogenobacter thermophilus. J Biol Chem 280:25729-25734. (Pubitemid 40962282)
26. Zhong L, et al. (2004) Heme axial methionine fluxionality in Hydrogenobacter thermophilus cytochrome c552. Proc Natl Acad Sci USA 101:8637-8642. (Pubitemid 38745823)
27. Marcus RA, Sutin N (1985) Electron transfers in chemistry and biology. Biochim Biophys Acta 811:265-322. (Pubitemid 15246565)
28. Bertini I, Cavallaro G, Rosato A (2011) Principles and patterns in the interaction between mono-heme cytochrome c and its partners in electron transfer processes. Metallomics 3:354-362.
29. Niki K, et al. (2003) Coupling of Lysine-13 promotes electron tunneling through carboxylate-terminated alkanethiol self-assembled monolayers to Cytochrome c. J Phys Chem B 107:9947-9949.
30. Karunakaran V, et al. (2010) Investigations of low-frequency vibrational dynamics and ligand binding kinetics of cystathionine β-synthase. J Phys Chem B 114:3294-3306.
31. Schreiber G (2002) Kinetic studies of protein-protein interactions. Curr Opin Struct Biol 12:41-47.
32. 2 and the photosynthetic reaction center. J Phys Chem B 107:1230-1241.
33. Bashir Q, Scanu S, Ubbink M (2011) Dynamics in electron transfer protein complexes. FEBS J 278:1391-1400.
34. A fragments with their substrates. J Biol Chem 278:46734-46740.