Project name: RYBPcit56

Status: done

submitted: 2026-07-23 22:03:45, status changed: 2026-07-24 05:20:48
Project settings
Protein sequence(s) PWIMTPNTQPPQEVYACSIFENEDFLKSVTTLAMKAKCKLTICPEEENMDDQWMQDEMEIGYIQAPHKTLPVVFDSPRNRGLKEFPIKRVMGPDFGYVTRGPQTGGISGLDSFGNLEVSPPVTVRGKEYPLGRILFGDSCYPSNDSRQMHQALQDFLSAQQVQAPVKLYSDWLSVGHVDEFLSFVPAPDRKGFRLLLASPRSCYKLFQEQQNEGHGEALLFEGIKKKKQQKIKNILSNKTLREHNSFVERCIDWNRELLKRELGLAESDIIDIPQLFKLKEFSKAEAFFPNMVNMLVLGKHLGIPKPFGPVINGRCCLEEKVCSLLEPLGLQCTFINDFFTYHIRHGEVHCGTNVRRKPFSFKWWNMVP input pdb
Peptide sequence KGTSTRKPQINSQLVAQQY
Simulation mc cycles50
Peptide secondary structure CCCCCCCCCCCCCCCCCCC
Contact information
645:A 9:PEP 5.0 1.0
Re-submit project
Zoom/rotate predicted model of the complex using mouse. Click the "View" button on the right panel to load the appropriate model. View in JSmol (pure html5/js) if you got rendering problems.
Models are ranked and numbered according to their occurrence in docking trajectory (1 = most probable result).
Representative conformations
model_1 Download
model_2 Download
model_3 Download
model_4 Download
model_5 Download
model_6 Download
model_7 Download
model_8 Download
model_9 Download
model_10 Download
 
Download all files
Click the "View" button to load the contact map of appropriate model.
Representative conformations
model_1 View
model_2 View
model_3 View
model_4 View
model_5 View
model_6 View
model_7 View
model_8 View
model_9 View
model_10 View

Receptor residuePeptide residue
Receptor residuePeptide residue
Receptor residuePeptide residue
Select trajectory from the right panel to display animation in JSmol. Note that it may hangs browser window for few minutes or ever.
Trajectories
replica_1 Download
replica_2 Download
replica_3 Download
replica_4 Download
replica_5 Download
replica_6 Download
replica_7 Download
replica_8 Download
replica_9 Download
replica_10 Download
Selected model: model_1.pdb (most representative model of the best cluster) download the model
Details about clusters
cluster namecluster density average rmsdmax rmsdnumber of elements
cluster_1.pdb ( medoid) 49.8459 5.03552 16.0903 251
cluster_2.pdb ( medoid) 40.3543 3.34537 7.42673 135
cluster_3.pdb ( medoid) 28.0324 3.06788 10.086 86
cluster_4.pdb ( medoid) 24.0624 3.57404 7.38172 86
cluster_5.pdb ( medoid) 20.9267 5.20865 19.1818 109
cluster_6.pdb ( medoid) 18.6081 5.15904 13.1198 96
cluster_7.pdb ( medoid) 15.8743 4.97661 15.0752 79
cluster_8.pdb ( medoid) 9.24154 7.03346 15.8137 65
cluster_9.pdb ( medoid) 8.58822 5.70549 14.95 49
cluster_10.pdb ( medoid) 5.14412 8.55345 18.86 44

 
Laboratory of Computational Biology, 2020