SuperLooperâa prediction server for the modeling of loops in ...
Recommend Documents
Apr 27, 2014 - In-vitro fertilization is a process by which oocytes or egg cells ... as a function of injected hormones and the properties of the follicles were represented in terms of moments. ... Both growth and nucleation processes describe crysta
Jun 11, 2012 - this article a web server (SPEER-SERVER) based on the ... adjustments can be performed using the embedded Jalview applet (38).
May 15, 2013 - The FunFOLD2 webserver is freely available to all at the following .... outputting the top-ranked prediction as the best predic- tion to the web ...
Apr 17, 2008 - arXiv:0710.0185v2 [astro-ph] 17 Apr 2008. Submitted to the Astrophysical Journal. Highly Efficient Modeling of Dynamic Coronal Loops.
Oct 13, 2007 - influent COD concentrations (CODi) between 651 and. 4,044mg/l in .... and wastewater characteristics can show some fluctuations in different ...
PBOND: Web server for the prediction of proline and non-proline cis/trans isomerization. Konstantinos P Exarchos. 1,2,3. , Themis P Exarchos. 1,2,3.
MITOPRED web server enables prediction of nucleus- encoded mitochondrial ... based primarily on Pfam domain occurrence patterns in mitochondrial and ...
Fig. S1: superposition between the pharmacophore conformation of derivative 32 and the crystal geometry of this ligand when complexed with ER-α.
Jan 4, 2017 - inhibitory effects on CYP3A4 and CYP2J2 with FDA recommended probe substrates. ... CYP2J2-mediated metabolism of rivaroxaban. However ...
Jul 13, 2011 - the output by e-mail. The server relies on the loop modeling routine in MODELLER that predicts the loop conformations by satisfaction of spatial ...
Feb 22, 2017 - Hindawi. Mathematical Problems in Engineering ...... localized problems are difficult to be solved in the counting process ..... 1001â1010, 1991.
This thesis begins with the fundamental theory related to CLT, wave types in orthotropic ..... proaches to close the mid frequency gap can be classified into .... CLT plates unify two functions building supporting structures as well as creating and s
â Department of Applied Mathematics and Theoretical Physics,. University ... can be straightforwardly included in the problem, as dis- cussed in .... less elastic energy of each solution is computed â accord- ... the persistent length of DNA bendi
server allows users to submit a protein sequence, perform ... its name to the prediction server itself. .... runs very effectively on a cheap dual-processor Linux.
Abstract. Summary: The PSIPRED protein structure prediction server allows users to submit a protein sequence, perform a prediction of their choice and receive ...
We present a WWW server for AUGUSTUS, a software for gene prediction ... community, the performance of existing gene prediction tools is still unsatisfactory.
Apr 28, 2017 - Python scripts were used to generate ...... Accepting pre-submission inquiries through Email, Facebook, LinkedIn, Twitter, etc. A wide selection ...
In the design of wind turbinesâonshore or offshoreâthe prediction of ... waves for estimating loads on an offshore wind turbine with a focus on the fore-aft tower.
Jul 31, 2002 - We propose a web server performance modeling method and a ..... help us to modify them, our proposed methods are the best solution.
J.C.C., A.R.R., and Cyrus Chothia, unpublished data). A further application of the method is as an aid to crystallog- raphy. In the early stages of refinement, one ...
(the template) that is similar to the query (target sequence);. (ii) alignment of the target ... A number of servers have been developed for automated comparative ... Tel: +886 35712121-56942; Fax: +886 35729288; Email:[email protected].
On the second pass through the loop i is set to startValue+1. The Matlab
statements between the for and the end are evaluated until i>endValue. Example
1 Print ...
The influence of total radiation dose on perimetrium on cumulative proportion surviving in radiochemotherapy treated patients (RCHT). Fig. 2. Cumulative ...
SuperLooperâa prediction server for the modeling of loops in ...
May 8, 2009 - directly visualized on the web server from a top-50 list. For user .... (2) The best 500 candidates are chosen by a specific. 'goodness value' that ...
Published online 8 May 2009
Nucleic Acids Research, 2009, Vol. 37, Web Server issue W571–W574 doi:10.1093/nar/gkp338
SuperLooper—a prediction server for the modeling of loops in globular and membrane proteins Peter W. Hildebrand1,*, Andrean Goede2, Raphael A. Bauer3, Bjoern Gruening3, Jochen Ismer1, Elke Michalsky3 and Robert Preissner3 1
Institute of Medical Physics and Biophysics, 2Institute of Biochemistry and 3Institute of Physiology, Charite´, University of Medicine, Berlin, Germany
Received February 20, 2009; Revised April 16, 2009; Accepted April 21, 2009
ABSTRACT SuperLooper provides the first online interface for the automatic, quick and interactive search and placement of loops in proteins (LIP). A database containing half a billion segments of water-soluble proteins with lengths up to 35 residues can be screened for candidate loops. A specified database containing 180 000 membrane loops in proteins (LIMP) can be searched, alternatively. Loop candidates are scored based on sequence criteria and the root mean square deviation (RMSD) of the stem atoms. Searching LIP, the average global RMSD of the respective top-ranked loops to the original loops is benchmarked to be
