Search found 74 matches

by jlspzw
Sat Sep 24, 2022 10:07 pm
Forum: Main Forum
Topic: Inquires about the I-TASSER results
Replies: 1
Views: 37

Re: Inquires about the I-TASSER results

Dear user, I would suggest you download the pdb files of the two models from the results page and install pymol on your local computer. Then you can load the pdb files to pymol and use pymol to do this. You can also use the webpage, and go to the model section. right-click, then select console. then...
by jlspzw
Tue Sep 13, 2022 6:16 pm
Forum: Main Forum
Topic: Top 10 Templates for Domain Assembly
Replies: 1
Views: 110

Re: Top 10 Templates for Domain Assembly

Hi Our template library is PDB70, which is not an entire PDB, it takes a no-redundant PDB library with structure similarity cutoff TM-score=0.7. So it is possible that your native structure is not in the library. Since our library is not based on sequence similarity, so it is possible that the picke...
by jlspzw
Wed Sep 07, 2022 9:15 pm
Forum: Main Forum
Topic: Please make sure the directory /tmp/ is writable for you
Replies: 2
Views: 184

Re: Please make sure the directory /tmp/ is writable for you

Hi 1 Please check if you have folder /tmp/cflcyd? 2 If yes, then try to do something in /tmp/cflcyd, for example cd /tmp/cflcyd; touch test.txt; echo "aaa" >test.txt see if /tmp/cflcyd is a writeable folder, normally a folder with 777 permission should be OK for writing data. If no, try to...
by jlspzw
Fri Sep 02, 2022 7:03 am
Forum: Main Forum
Topic: Information regarding restraint files generated and used by I-TASSER standalone program
Replies: 1
Views: 284

Re: Information regarding restraint files generated and used by I-TASSER standalone program

generally, comb*.dat are contact restraints from the templates, dist*.dat are distance restraints from templates. combCA.dat and distL.dat comb8CA.dat are CA contact or distance.,comb.dat and dist.dat are side-chain center contact and distance. combCA.dat are contacts with distance<6A, comb8CA.dat a...
by jlspzw
Thu Aug 18, 2022 9:53 am
Forum: Main Forum
Topic: 3DRobot standalone package availability
Replies: 2
Views: 370

Re: 3DRobot standalone package availability

Dear user, I don't have any issue when downloading the 3DRobot package at http://zhanglab.dcmb.med.umich.edu/3DRobot/download/3DRobot1.0.tar.bz2; some browsers will report the bz2 file as dangerous file and block it, so you can check with other browser or check if your anti-virus software block it. ...
by jlspzw
Tue Aug 16, 2022 6:10 am
Forum: Main Forum
Topic: No confirmation email received from C-QUARK and C-Ethreader after job submission
Replies: 4
Views: 470

Re: No confirmation email received from C-QUARK and C-Ethreader after job submission

Dear user,

Your C-QUARK job should be https://zhanggroup.org/C-QUARK/output/QB2232/ and CEthreader job should be https://zhanggroup.org/CEthreader/output/CEC509/

It seems those two are submitted today, if you have ever submitted before, I didn't find them at our database.

Best
IT team
by jlspzw
Sun Aug 14, 2022 6:53 pm
Forum: Main Forum
Topic: No confirmation email received from C-QUARK and C-Ethreader after job submission
Replies: 4
Views: 470

Re: No confirmation email received from C-QUARK and C-Ethreader after job submission

Dear user,

What email address do you use when submitting the jobs to CEthreader and C-QUARK?

Also, you may need to check the spam box of the email, sometime it may be there.

Best
IT team
by jlspzw
Fri Aug 12, 2022 9:06 pm
Forum: Main Forum
Topic: Web display of results
Replies: 1
Views: 308

Re: Web display of results

Dear user, Thank you for considering use our package, if you use I-TASSER5.1, there should have one folder file2html in the package, you can check the readme to see how to use this script to build the HTML file. while to use it, you may need the following requirements. file2html requires Python2.6 o...
by jlspzw
Mon Aug 08, 2022 4:35 am
Forum: Main Forum
Topic: Fr-TM-align inquiry
Replies: 1
Views: 633

Re: Fr-TM-align inquiry

Dear user,

Fr-TM-align is made by Jeffrey Skolnick group, you can send messages to them for the detailed information

Best
IT team
by jlspzw
Mon Aug 08, 2022 4:32 am
Forum: Main Forum
Topic: BioLiP weekly update download issue
Replies: 1
Views: 1061

Re: BioLiP weekly update download issue

Dear user,

1 You can test re-download the library now

2 we didn't predict the specific type for binding sites.

3 No, we currently do not consider it.

Best
IT team