AboutDownloadsDocumentsWikiSource CodeIssuesNews
NAST (Nucleic Acid Simulation Toolkit) is a knowledge-based coarse-grained tool for modeling RNA structures. It uses user-provided information about primary sequence, secondary structure, and tertiary contacts (optional) of an RNA to produce a diverse set of 3D structures that satisfy these constraints. PLEASE NOTE that this package includes an older version of C2A (for adding full atomic detail to coarse grain structure). We highly recommend you download and use the newest version of C2A from its own project page: http:simtk.org/home/c2a
Downloads instructions and details
Image not available
NAST
NOTE: Before installing, be sure that Python is installed on your system. **** See Downloads Instructions and Details for more information ****
nast-1.0
Aug 11, 2010

New NAST, now with GPU enhances MD and "Random Unfold" algorithm for generating random unfolded starting strutures.

Download Links

Aug 13, 2010
1 MB
Windows
Source code
Zipped version for Windows

Aug 13, 2010
1 MB
Any
Source code
Tarred version for mac osx and unix

Documentation Links

Aug 13, 2010
Installation guide for NAST and C2A

Aug 13, 2010
NAST and C2A tutorial version 4

PLEASE CITE THESE PAPERS

Jonikas MA, Radmer RJ, Laederach A, Das R, Pearlman S, Herschlag D, Altman RB. Coarse-grained modeling of large RNA molecules with knowledge-based potentialsand structural filters.RNA. 2009 Feb;15(2):189-99.PMID: 19144906 (2009) View

Previous Releases


NasT 0.5

May 12, 2009

Download Links

Windows -- Must have Python 2.6

Jun 10, 2009
541 KB
Windows
Application/binary
Windows binary installer (32 bit). Includes NAST/C2A. Vista is NOT SUPPORTED.

Jun 10, 2009
1 MB
Any
Other
Example simulation scripts

Intel Mac Leopard OS X 10.5--Must have Python 2.5

Jun 10, 2009
1 MB
Mac OS X
Application/binary
Intel, 32 bit Mac Leopard OS X binary install script. Includes NAST/C2A and example scripts.

Nov 03, 2009
1 MB
Mac OS X
Application/binary
Library for Mac OSX snow leopard. Rename to libOpennMM_static.a (remove the "for snow leopard" part)and place in nast-0.5/lib/osx/ directory

Source files -- Python 2.5 or 2.6

Jun 10, 2009
1 MB
Any
Source code
Source code (32 bit Linux or Intel Mac) -- NO GPU Libraries needed. Includes NAST/C2A and example scripts.

Nov 03, 2009
1 MB
Linux
Application/binary
library for 64bit unix. Replace file with same name in /lib/linux/

Jun 10, 2009
2 MB
Any
Source code
Source code (32 bit Linux or Intel Mac) -- NEED GPU & CUDA. Includes NAST/C2A and example scripts.

Documentation Links

Mar 16, 2010
Installation Instructions

Mar 12, 2010
Tutorial exercises explaining how to use NAST and C2A with the provided example files

RNA workshops using NAST

Mar 12, 2010
Future home for Slides, videos, and handouts for the March 2010 3D RNA modeling and simulation workshop.

Jul 10, 2009
Slides, videos, and handouts from the June 2009 3D RNA Modeling workshop, including NAST/C2A, RNABuilder, Zephyr


Feedback