Skip Navigation


Nucleic Acids Research Advance Access originally published online on May 6, 2009
Nucleic Acids Research 2009 37(Web Server issue):W422-W427; doi:10.1093/nar/gkp336
This Article
Right arrow Full Text Freely available
Right arrow Print PDF (113K) Freely available
Right arrow Screen PDF (124K) Freely available
Right arrow Supplementary Data
Right arrowOA All Versions of this Article:
37/suppl_2/W422    most recent
gkp336v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Kantardjiev, A. A.
Right arrow Articles by Atanasov, B. P.
PubMed
Right arrow PubMed Citation
Right arrow Articles by Kantardjiev, A. A.
Right arrow Articles by Atanasov, B. P.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2009, Vol. 37, No. suppl_2 W422-W427
© 2009 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Articles

PHEMTO: protein pH-dependent electric moment tools

Alexander A. Kantardjiev and Boris P. Atanasov*

Biophysical Chemistry Group, Institute of Organic Chemistry, Bulgarian Academy of Sciences, Sofia-1113, Bulgaria

*To whom correspondence should be addressed. Tel: +359 2960 6123; Fax: +359 2870 0225; Email: boris{at}orgchm.bas.bg

Received February 14, 2009. Revised April 17, 2009. Accepted April 21, 2009.

PHEMTO (protein pH-dependent electric moment tools) is released in response to the high demand in protein science community for evaluation of electrostatic characteristics in relations to molecular recognition. PHEMTO will serve protein scientists with new advanced features for analysis of protein molecular interactions: Electric/dipole moments, their pH-dependence and in silico charge mutagenesis effects on these properties as well as alternative algorithms for electric/dipole moment computation—Singular value decomposition of electrostatic potential (EP) to account for reaction field. The implementation is based on long-term experience—PHEI mean field electrostatics and PHEPS server for evaluation of global and local pH-dependent properties. However, PHEMTO is not just an update of our PHEPS server. Besides standard electrostatics, we offer new, advanced and useful features for analysis of protein molecular interactions. In addition our algorithms are very fast. Special emphasis is given to the interface—intuitive and user-friendly. The input is comprised of the atomic coordinate file in Protein Data Bank format. The advanced user is provided with a special input section for addition of non-polypeptide charges. The output covers actually full electrostatic characteristics but special emphasis is given to electric/dipole moments and their interactive visualization. PHEMTO server can be accessed at http://phemto.orgchm.bas.bg/.


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?




Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.