[AMBER] disulfide bonds?

From: xuemeiwang1103 <xuemeiwang1103.163.com>
Date: Wed, 31 Mar 2010 21:32:02 +0800 (CST)

   I am modeling a protein with 3 disulfide bonds(cys152-cys158,cys352-cys370,cys538-cys550).Following the manual ,I have changd the CYS to CYX and done the "bond"comand.The strange thing happaned when I used the bond comand,the comand "bond 1oaa.152.SG 1oaa.158.SG"and "bond 1oaa.352.SG 1oaa.370.SG" worked ok ,but when I used the third comand"bond 1oaa.538.SG 1oaa.550.SG",it displays"bond: Argument #1 is type String must be of type: [atom]",How strange is it ! Could someone tell me the reason? BTW,my original pdb is began from HiS 40 ,and it missing several residues,.I have changed the residues numbers ,but by doing this ,all the "bond"comand didn't work!
   tleap :
> tleap -s -f leaprc.ff99
> 1oaa=loadpdb 1oaa.pdb
> bond 1oaa.152.SG 1oaa.158.SG
>bond 1oaa.352.SG 1oaa.370.SG
>bond 1oaa.538.SG 1oaa.550.SG
  bond: Argument #1 is type String must be of type: [atom]
  usage: bond <atom1> <atom2> [order]

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Received on Wed Mar 31 2010 - 07:00:02 PDT
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