If you wish to contribute
please indicate how.
We welcome contributions to this resource from anyone with an interest
in the protein kinases. A unique feature of the Kinase Database project is that
contrbutions can be made be person from all backgrounds ranging from the completely
biochemical to completely computer science. This page is directed primarily to students at
UCSD who will contribute to the resource as part of a 199 elective.
Others should contact one of the authors of this page to discuss contributions.
By taking the elective UCSD students will learn the following:
- The relationship between sequence, 3-D structure, function and related
diseases in this important family of enzymes involved in signal transduction.
- How to author for the World Wide Web. This is considered important
since in the next five years we anticipate this to be the primary medium
for peer reviewed scientific publication from which paper copy will be
The types of projects that the students will undertake are as follows:
- Develop a "walk through" of one of the approximately 20 known
3-D structures. This involves reading the literature and understanding
the structural features and how these features relate to the overall function
of the enzyme as far as it is known. These features will then be represented
by a Web page using a variety of tools for representing and displaying
- Develop pages comparing structural features in native and mutant structures
as well as different types of kinases.
- Develop sequence alignments and trees describing the different classes of
kinases. Develop "discriminators" for use in assigning new sequences to
- Develop pages describing regulatory pathways involving kinases and phosphatases.
- Develop pages describing and providing organized access to the domain structure
of kinases and related molecules.
- A contributor with C or Fortran programming skills could implement a new
method for determining alignments based on three-dimensional structure.
This method has been developed and tested on several kinase structures, but
needs to be generalized to become useful to our "average user."
This involves evaluation of alignment methods and criteria, editing alignments
proposed by the algorithm, and presentation of the results back to the user.
Those with experience or interest in PERL can also be involved in developing CGI scripts
to make the existing pages interactive, and to provide searching capabilities.
The format of the elective (depending on the number of stuents involved)
will be as follows:
- Several hands-on lectures covering the basics of Web authoring
- Individual discussions of the projects to be undertaken
- Weekly meetings to discuss technical and biological issues
- Possible series of more advanced Web authoring techniques
We are very interested in recruiting more kinase experts to help in this
project -- are you interested? If you would like to help,
your name and contact information to
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Last modified Wednesday, 31 December 2069 by Anonymous