This work has been partially supported by NIH grants
R01GM067823, R01AI055649, R24DK064403,
R21AI055338, R01AR050688, and P30ES006096.
We also gratefully acknowledge the support
from the University of Cincinnati College of Medicine
and Cincinnati Children's Hospital Medical Center.
The following persons contributed to the development of our web
resources and related research projects:
Melanie Cushion, and
We would like to thank Prakash Velayutham for his help in
overcoming numerous technical issues during the
implementation of our projects. And we also would like
to thank all the users for their feedback.
We are very grateful to the authors of all software that is utilized by
our servers for making it available to the community and
graciously agreeing to incorporate it into public
W.L. DeLano's PyMol
from DeLano Scientific, San Carlos, CA, USA and
(v 2.7.3) from Biomolecular Structures Group,
They are being used to render 3D images of
java applet by Jmol Development Team and Robert Hanson
It is being used for the quick protein structure lookups,
setting up specific view parameters, and trajectory visualization.
E. Martz's FirstGlance in Jmol server
from University of Massachusetts, Amherst, MA, USA
It is being used to identify contacts in
protein-ligand and protein-DNA/RNA complexes.
program by W. Kabsch and C. Sander available at the Centre for
Molecular and Biomolecular Informatics, University of
It is being used for calculation of the protein
secondary structure and relative solvent accessibility.
program from National Center for Biotechnology Information (NCBI), USA
It is being used to perform sequence homology search
and obtain multiple sequence alignment.
server from L. Liang lab at University of Illinois at Chicago, USA
It is being used for finding pockets within
database from Wellcome Trust Sanger Institute, UK
It is being used to find and map known protein
domains to the submitted structure.
database from the Institute of Enzymology, Budapest, Hungary
It is being used for mapping the protein regions
putatively spanning membrane to the submitted structure.
- Stuttgart Neural Network Simulator from University of
It was used to build and train neural networks as part
of the systems for prediction of protein secondary structure,
relative solvent (or lipid) accessibility,
trans-membrane domains, and protein interaction sites.
- a Library for Support Vector Machines by C.-C. Chang
and C.-J. Lin from National Taiwan University, Taipei, Taiwan
It was used to build and train SVR-based models for
predicting relative solvent accessibility.
- free CSS templates for web-design
One of their free templates was used to design a new
look for our web-servers.
Some of their free charts were used for presenting the
servers usage statistics.