[RASMB] Empty voids

[Peter Edward Prevelige Jr]

Hi Dave

A while back we made some measurements of volume changes upon dissociation/denaturation for proteins with mutations which introduced voids using pressure dissocation/denaturation to calculate delta V. 

De Sousa, P.C., Tuma, R., Prevelige Jr. P.E., Silva, J.L., Foguel, D. (1999) Cavity defects in the procapsid of bacteriophage P22 and the mechanism of capsid maturation. J. Mol. Biol., 287:527-538 

 

Peter E. Prevelige Jr.
Professor
Dept. of Microbiology, BBRB 416/6
Univ. of Alabama @ Birmingham
845 19th St. South
Birmingham AL. 35294-2170
Phone 205 975-5327
FAX 205 975-5479
prevelig at uab.edu
http://www.microbio.uab.edu/faculty/prevelige/prevelige-p.htm

-----Original Message-----
From: rasmb-bounces at rasmb.bbri.org [mailto:rasmb-bounces at rasmb.bbri.org] On Behalf Of Tom Laue
Sent: Thursday, June 03, 2010 2:25 PM
Cc: rasmb at server1.bbri.org
Subject: Re: [RASMB] Empty voids

Hi-
There was some work done on this by, I believe, Don Caspar-
Caspar, D. L. D. and Badger, J. (1991) "Plasticity of Crystalline 
Proteins." Curr. Opin. Struct. Biol. I, 877-882
Yu, B., Blaber, M., Gronenborn, A. M., Clore, G. M. and Caspar, D. L. D. 
(1999) "Disordered Water Within a Hydrophobic Protein Cavity Visualized 
by X-ray Crystallography." Proc. Natl. Acad. Sci. USA, 96, 103-108.
Adamek, D.H., Guerrero, L., Blaber, M., and Caspar, D. L. D. (2005) 
"Structural and energetic consequences of mutations in a solvated 
hydrophobic cavity." J. Mol. Biol., 346, 307-318.
Best to all-
Tom

Dj Scott wrote:
>
> Hello all in RASMB-land.
>
> A question for you.
>
>  
>
> If I make a void in a protein by mutating a larger residue to a 
> smaller one in the hydrophobic core, what is the thermodynamic cost of 
> this, and how would it be best to measure it.
>
>  
>
> All thoughts welcome.
>
> Best
>
>  
>
> Dave.
>
> >>>>>>>>>>>>>>>>>>>>>>>>>>
> Dr. David J. Scott
> Associate Professor in Physical Biochemistry
> National Centre for Macromolecular Hydrodynamics
> School of Biosciences
> University of Nottingham
> Sutton Bonington Campus
> Leicestershire. LE12 5RD.
> United Kingdom.
> Phone: +44 (0) 115 951 6221
> Fax: +44 (0) 115 951 6142
> Email: dj.scott at nottingham.ac.uk
> Web: www.nottingham.ac.uk/ncmh
>
>  
>
>
> This message has been checked for viruses but the contents of an 
> attachment may still contain software viruses which could damage your 
> computer system: you are advised to perform your own checks. Email 
> communications with the University of Nottingham may be monitored as 
> permitted by UK legislation.
>
> ------------------------------------------------------------------------
>
> _______________________________________________
> RASMB mailing list
> RASMB at rasmb.bbri.org
> http://rasmb.bbri.org/cgi-bin/mailman/listinfo/rasmb
>   

-- 
Department of Biochemistry and Molecular Biology
University of New Hampshire
Durham, NH 03824-3544
Phone: 603-862-2459
FAX:   603-862-0031
E-mail: Tom.Laue at unh.edu
www.bitc.unh.edu
www.camis.unh.edu

_______________________________________________
RASMB mailing list
RASMB at rasmb.bbri.org
http://rasmb.bbri.org/cgi-bin/mailman/listinfo/rasmb