Evidence for domain motion in proteins affecting global diffusion properties: a nuclear magnetic resonance study.
The rotational diffusion of proteins is an important hydrodynamic property. Compact protein structures were found previously to exhibit hydration layer viscosity, etaloc, higher than the viscosity of bulk water, eta. This implies an apparent activation energy for rotational diffusion higher than the activation energy of water viscosity, Eeta=15.4+/-0.3 kJ/mol. In this study we examine etaloc of internally mobile proteins using 15N spin relaxation methods. We also examine the activation enthalpy, DeltaH#, and activation entropy, DeltaS#, for rotational diffusion. Of particular relevance are internally mobile ligand-free forms and compact ligand-bound forms of multidomain proteins. Adenylate kinase (AKeco) and Ca2+-calmodulin (Ca2+-CaM) are typical examples. For AKeco (Ca2+-CaM) we find that DeltaH# is 14.5+/-0.5 (15.7+/-0.4) kJ/mol. For the complex of AKeco with the inhibitor AP5A (the complex of Ca2+-CaM with the peptide smMLCKp), we find that DeltaH# is 18.1+/-0.7 (18.2+/-0.5) kJ/mol. The internally mobile outer surface protein A has DeltaH#=12.6+/-0.8 kJ/mol, and the compact protein Staphylococcal nuclease has DeltaH#=18.8+/-0.6 kJ/mol. For the internally mobile and compact proteins studied, <|DeltaS(|> equals 62+/-7 J/(mol K) and 44+/-5 J/(mol K), respectively. The fact is that etaloc>eta (DeltaH#>Eeta) for compact proteins was ascribed previously to electrostatic interactions between surface sites and water rigidifying the hydration layer. We find herein that obliteration of these interactions by domain motion leads to etaloc approximately eta, DeltaH# approximately Eeta, and large activation entropy for internally mobile protein structures.
Shapiro
Yury E
YE
The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan 52900, Israel. shapiro@nmrsgi4.ls.biu.ac.il
Meirovitch
Eva
E
D000263:Adenylate Kinase / Q000037:antagonists & inhibitors / Q000737:chemistry* / Q000378:metabolism*; D002147:Calmodulin / Q000737:chemistry* / Q000378:metabolism*; D018360:Crystallography, X-Ray; D004058:Diffusion; D015226:Dinucleoside Phosphates / Q000737:chemistry / Q000378:metabolism / Q000494:pharmacology; D004791:Enzyme Inhibitors / Q000737:chemistry / Q000378:metabolism / Q000494:pharmacology; D009682:Magnetic Resonance Spectroscopy; D008958:Models, Molecular; D008968:Molecular Conformation; D009068:Movement; D017434:Protein Structure, Tertiary; D013816:Thermodynamics
D002147:Calmodulin; D015226:Dinucleoside Phosphates; D004791:Enzyme Inhibitors; C012275:P(1),P(5)-di(adenosine-5'-)pentaphosphate; D000263:Adenylate Kinase