Search found 5 matches

by xiaoqiah
Thu Mar 24, 2022 6:09 pm
Forum: Main Forum
Topic: SSIPe
Replies: 3
Views: 761

Re: SSIPe

Hello, this is not normal. The SSIPe will do the sequence alginment to generate the sequence_align.out file as well and the structure_align.out and sequence_align.out are used to generate the SSIP score. Because you did not obtain the sequence alignment, I guess there may be something wrong with the...
by xiaoqiah
Sat Jan 22, 2022 4:19 am
Forum: Main Forum
Topic: SSIPe
Replies: 3
Views: 761

Re: SSIPe

Thank you for the interest. Could you post a few examples for the differences. The SSIP scores are calculated based on interface structural and sequence alignments. And effective number of interface sequence alignments is calculated in sequence hit-order dependent manner. I guess the difference may ...
by xiaoqiah
Sat Jan 22, 2022 4:04 am
Forum: Main Forum
Topic: EvoEF Energy Details
Replies: 1
Views: 548

Re: EvoEF Energy Details

Thank you for your interest. Here are my answers to your questions: Q1: Why are reference energies positive? I guess I'm just wondering, how are they obtained/what are they based on? A1: Please refer to the main text of this paper (J. Mol. Biol. 2019, 431, 2467-2476) for the overview of parameters i...
by xiaoqiah
Mon Jul 12, 2021 4:44 am
Forum: Main Forum
Topic: SSIPe Error - Protein Chains
Replies: 1
Views: 659

Re: SSIPe Error - Protein Chains

Hello, Thanks for using the SSIPe service. You encountered this error because your pdb was identified as a monomer (single-chain protein) by the SSIPe server. Based on your description, this was probably because your pdb does not have the chain identifier(s). I suggest you do: (1) check if your prot...
by xiaoqiah
Tue Jun 29, 2021 2:15 am
Forum: Main Forum
Topic: Evodesign server error
Replies: 2
Views: 802

Re: Evodesign server error

Thank you for pointing out the issue. We will resolve it asap.