Details on ESTHER Mutation Viewer Java Applet
The
classes have a general API and the modular design pattern of the program
is such that different viewers may be used to visualise the same data
in an integrated fashion.
The original classes have been written by Alan Robinson from the EBI for p53 mutations (he kindly gave us java codes and his constant help is gratefully acknowledged). |
The 1-D protein view uses a 'semantic lens' (the red box). Click and drag
this red box, and the area it bounds is displayed in the lower part of
the window.
For readability only Torpedo californica ACHE sequence has been included and it is only visible in the magnified part. Depdending on the font used by your browsers, you may have to enlarge this window
The three different views use the same colouring scheme for residues belonging to the
active site (S200, E327, H440) and the choline binding site (W84) : magenta and the
peripheral (Y70, Y121, W279) : blue. Strands of beta sheets are also coloured in 2D and
3D views, pink for the N-terminal small sheet and cyan for the large central sheet.
When a point is selected, it will be
highlighted in all the displays, and the entries at the codon position
will be shown in the text message window.
After down-loading of the database as a flat-file it is converted
into a Hashtable-style database on the client
The creation of the Hashtable database on the client is time-consuming
(around 3-5 minutes on a PC). Once this has been done, a window and
text entry field will appear in the browser window at the bottom of this
page, and the message "Database loaded" will appear.
When search terms are entered into the query entry box in the browser
window, the 'hits' will be highlighted on the different representations
of the AChE protein. When a point is selected, it will be
highlighted in all the displays, and the entries at the codon position
will be shown in the text message window.
Evaluation systems used in ESTHER are listed below and can be used to search the database :
AChE binding and inhibition
Acyl specificity
Acylation,Phosphorylation
Aging
Back door hypothesis
Binding of succinylthiocholine studies
Catalytic triad
Choline binding site
Congenital goiter with hypothyroidism
Congenital myasthenic syndrome
Electrostatic
Fluoride-resistant
Folding
Glycophospholipid anchorage
H-bond network
Hydrophobic subsite
Intracellular retention
J-variant
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K-variant
Minimal C-term determination
N-glycosylation
Omega loop
OP-resistance
Oxyanion hole
Peripheral anionic site
Salt bridge
Search for phosphotriesterase activity
Signal transduction
Silent variant
Substrate inhibition
Subunit assembly
Succinylcholine hydrolysis
Triad definition
Truncated
YT blood group antigen
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You can also use following acronyms :
use | for |
nat
sdm
rnd
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natural mutation
site directed mutagenesis
random mutation
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Search terms may be combined using the operators '+' for AND, and '!'
for NOT.
The search engine is case sensitive and does not allow pattern matching.
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