2004年11月19日

I can't delete a file on my windows' desktop.
I've tried several ways, use DOS filename, use del \\?\C:\..., change name, etc. DIDN'T WORK!!!
finally, I delete it using a software, JRTS Delete FXP Files to delete it.

2004年11月17日

use PRATT or advPRATT to generate pattern
use ScanProsite or 3motif to scan that pattern in Swiss-Prot, PDB, etc.

[EQ]-x-L-Y-[DQSTE]-x(3,12)-[LIV]-[ST]-Y-x-R-[ST]-[DEQS]
[eq].ly[dqste]{0,1}.{3,12}[liv][st]y.r[st][deqs]

2004年11月10日

try signed and encrypt email in outlook express

I got free Personal Certificates from

https://www.thawte.com/cgi/enroll/personal/step1.exe
AND
http://certs.ipsca.com/CSB1Free/

first one not working.
second works fine.

umdnj sig works but enc not working.
yahoo, gmail, hotmail not working.

2004年11月7日

Usually people use firewall to block the ports to prevent hackers.
But I think we can try an opposite way.

在武俠小說裡 真正厲害的人 你是看不出他在防守的

1. Imaging that when you scan a computer's ports, every ports from 1 to 9999999... are all opened.

2. When you want to test each port, you'll fire the alarm.

2004年10月23日

2004年10月6日

Biological graph layout and display
http://home.comcast.net/~natgoodman/Biological_Graph_Software.htm

for piping the output of one program in unix to another program's command line, (instead of input)
ls only files contents "test", (for checking the size of the file)
ls -al `grep -L test *`
or
str=`grep -L test *`
ls $str

2004年9月29日

maybe we can use http://i.moltalk.org/
instead of CSU
cause, sometimes CSU is not working.

Also, Moltalk will be quicker and more details.

choose "Find interface between two chains of a structure" in http://i.moltalk.org/
enter the pdb code,
when select chains, just select the same chain twice.

Done.

use
http://balabio.dcs.gla.ac.uk/tops/
to generate
http://www3.ebi.ac.uk/tops/ExplainDetailed.html
and you can easily compare things like

1bia

1gh4

2004年9月15日

For calculating Hydrogen Bond

HBPLUS, which is distributed with LIGPLOT: http://www.biochem.ucl.ac.uk/bsm/ligplot/ligplot.html

There's also HBOND, which comes with the JOY package:
http://www-cryst.bioc.cam.ac.uk/~joy/

they are free, but they all need Academic License which I can't apply individually, has to apply by UMDNJ.

for example, I want to know the H-Bonds in protein 1a2p, I go to

http://bioportal.weizmann.ac.il/oca-bin/csu?PDB_ID=1a2p

I found there's four sheet strands for each chain.
I click on "Strand 1" on "A sheet" (residue 96-99)
I'll go to this page
from this page, if there's a "+" sign under HB colume, I know there's a H-Bond.

2004年9月5日