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05-02-2014 06:49 PM
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04-25-2014 10:21 AM
[KPWU blog] [PyMOL] contact map (CMView)
contact map (CMView)
In PyMOL Wiki, there is a “contact map visualizer” plugin providing users to inspect the protein intramolecular contacts. However, this plugin requires “PyGame”, “Tkinter”, “PIL (python image library)” and most importantly, Gromacs! I used Fink (Mac OSX 10.6.8) to successfully install Gromacs 4.1 but Fink reported problems while installing pygame. So I can generate xpm http://stats.wordpress.com/b.gif?host=kpwu.wordpress.com&blog=76132&post=727&subd=kpwu&ref=&feed=1
Go to KPWU blog to read complete post.
nmrlearner
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06-26-2012 06:27 PM
[NMR paper] Contact model for the prediction of NMR N-H order parameters in globular proteins.
Contact model for the prediction of NMR N-H order parameters in globular proteins.
Related Articles Contact model for the prediction of NMR N-H order parameters in globular proteins.
J Am Chem Soc. 2002 Oct 30;124(43):12654-5
Authors: Zhang F, Brüschweiler R
An analytical relationship is presented for the estimation of NMR S2 order parameters of N-HN vectors of the protein backbone from high-resolution protein structures. The relationship solely depends on close contacts of the peptide plane to the rest of the protein. Application of the...
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11-24-2010 08:58 PM
[NMR paper] Structural requirements for thymosin beta4 in its contact with actin. An NMR-analysis
Structural requirements for thymosin beta4 in its contact with actin. An NMR-analysis of thymosin beta4 mutants in solution and correlation with their biological activity.
Related Articles Structural requirements for thymosin beta4 in its contact with actin. An NMR-analysis of thymosin beta4 mutants in solution and correlation with their biological activity.
Eur J Biochem. 2000 Jun;267(12):3530-8
Authors: Simenel C, Van Troys M, Vandekerckhove J, Ampe C, Delepierre M
We examined the conformational preferences of mutants of thymosin beta4, an...
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11-18-2010 09:15 PM
[NMR paper] TIMP-1 contact sites and perturbations of stromelysin 1 mapped by NMR and a paramagne
TIMP-1 contact sites and perturbations of stromelysin 1 mapped by NMR and a paramagnetic surface probe.
Related Articles TIMP-1 contact sites and perturbations of stromelysin 1 mapped by NMR and a paramagnetic surface probe.
Biochemistry. 1998 Jul 7;37(27):9650-7
Authors: Arumugam S, Hemme CL, Yoshida N, Suzuki K, Nagase H, Berjanskii M, Wu B, Van Doren SR
Surfaces of the 173 residue catalytic domain of human matrix metalloproteinase 3 (MMP-3(DeltaC)) affected by binding of the N-terminal, 126 residue inhibitory domain of human TIMP-1...
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11-17-2010 11:15 PM
[NMR paper] Comparative 1H-NMR studies on the physical state of water in soft contact lens and mo
Comparative 1H-NMR studies on the physical state of water in soft contact lens and mouse lens.
Related Articles Comparative 1H-NMR studies on the physical state of water in soft contact lens and mouse lens.
Biochim Biophys Acta. 1996 Apr 17;1289(3):369-76
Authors: Kuwata K, Era S, Sogami M, Amano H, Nagaoka S, Kato K, Takahashi K, Kitazawa Y, Watari H
The physical state of water in mouse lenses (2-, 4- or 8-wk-old) and soft contact lenses (SCLs, water content from 18.4 to 79.2%) were studied by measuring spin-lattice relaxation times (T1) and...
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