Search found 42 matches

by robpearc
Mon May 17, 2021 3:51 am
Forum: Main Forum
Topic: Is occupancy value in the PDB considered for I-TASSER?
Replies: 3
Views: 1057

Re: Is occupancy value in the PDB considered for I-TASSER?

I-TASSER will consider the template structure without regard to the occupancy value. What I meant was if you don't want I-TASSER to consider a residue with an occupancy of 0, you may remove this residue from your template before uploading it.
by robpearc
Sun May 16, 2021 3:42 am
Forum: Main Forum
Topic: View PDB file in Pymol (old forum post comments not available)
Replies: 1
Views: 787

Re: View PDB file in Pymol (old forum post comments not available)

Hello, Yes, unfortunately we experienced a hardware failure, which made our old forum unrecoverable. However, we have moved to our new forum. 1. Yes, this depends on how you are trying to view the html file, which would require that you have the appropriate apps installed in the correct location as ...
by robpearc
Sun May 16, 2021 3:34 am
Forum: Main Forum
Topic: Delay in processing
Replies: 5
Views: 1718

Re: Delay in processing

It looks like your results are available at https://zhanglab.dcmb.med.umich.edu/I-T ... 86/adteu6/.
by robpearc
Sun May 16, 2021 3:30 am
Forum: Main Forum
Topic: Is occupancy value in the PDB considered for I-TASSER?
Replies: 3
Views: 1057

Re: Is occupancy value in the PDB considered for I-TASSER?

Is this the occupancy of the inputs template structures? If so I-TASSER doesn't consider this, but any residues that you desire may be removed from the template structures before uploading them.
by robpearc
Fri May 14, 2021 12:30 pm
Forum: Main Forum
Topic: I-TASSER suit stuck at the step of "running pairing"
Replies: 3
Views: 1645

Re: I-TASSER suit stuck at the step of "running pairing"

Typically, this step should not take long. However, it may for longer proteins (length > 500). Were there any error messages output by the program?
by robpearc
Thu May 13, 2021 3:56 pm
Forum: Main Forum
Topic: Processing consultation
Replies: 3
Views: 1216

Re: Processing consultation

We are working on fixing the GPCR-I-TASSER server at the moment. In the meantime, if you need your results urgently, you may submit your sequence to I-TASSER, which can also effectively model GPCR structures.
by robpearc
Thu May 13, 2021 3:50 pm
Forum: Main Forum
Topic: Delay in processing
Replies: 1
Views: 822

Re: Delay in processing

Hello, We recently experienced a hardware failure on our old web server and moved to a new permanent server. We are working on addressing all of the issues that have emerged during the transition. Unfortunately, some servers are not fully functional yet, but we hope to have all these issues resolved...
by robpearc
Thu May 13, 2021 3:47 pm
Forum: Main Forum
Topic: Cluster Size of structural prediction
Replies: 1
Views: 735

Re: Cluster Size of structural prediction

You can find the number of decoys in each cluster as well as the cluster density in the cscore.txt file that is included in the zipped results directory. Additionally, you can access this file by clicking on the "Read more about cscore" link in the "Top 5 Final Models Predicted by I-T...
by robpearc
Wed May 12, 2021 3:05 pm
Forum: Main Forum
Topic: Delay in processing
Replies: 5
Views: 1718

Re: Delay in processing

Hello,

I will check on the status of your job. However, your provided ID should be SXXXXXX, so it looks like you are missing one digit. Do you have the full job ID or the email used for submission?
by robpearc
Wed May 12, 2021 3:02 pm
Forum: Main Forum
Topic: IonCom issues
Replies: 5
Views: 1827

Re: IonCom issues

Do you have your job id or email used to submit your jobs and I will check on the status of your submission.