CABS-dock: 1P8J

Project name: 1P8J_66

Status: done

submitted: 2025-07-02 04:39:36, status changed: 2025-07-02 21:16:27

Project settings

Protein sequence(s)	VYQEPTDPKFPQQWYLSGVTQRDLNVKEAWAQGFTGHGIVVSILDDGIEKNHPDLAGNYDPGASFDVNDQDPDPQPRYTQMNDNRHGTRCAGEVAAVANNGVCGVGVAYNARIGGVRMLDGEVTDAVEARSLGLNPNHIHIYSASWGPEDDGKTVDGPARLAEEAFFRGVSQGRGGLGSIFVWASGNGGREHDSCNCDGYTNSIYTLSISSATQFGNVPWYSEACSSTLATTYSSGNQNEKQIVTTDLRQKCTESHTGTSASAPLAAGIIALTLEANKNLTWRDMQHLVVQTSKPAHLNADDWATNGVGRKVSHSYGYGLLDAGAMVALAQNWTTVAPQRKCIVEILVEPKDIGKRLEVRKAVTACLGEPNHITRLEHVQARLTLSYNRRGDLAIHLISPMGTRSTLLAARPHDYSADGFNDWAFMTTHSWDEDPAGEWVLEIENTSEANNYGTLTKFTLVLYGTAPEGL input pdb
Peptide sequence	VGVIKAVDKKAGGAGKVT
Simulation mc cycles	50
Peptide secondary structure psipred	CCCEEECCCCCCCCCCCC

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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

Contact cutoff (Å)

	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 residue	Peptide residue

Receptor residue	Peptide residue

Receptor residue	Peptide 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 name	cluster density	average rmsd	max rmsd	number of elements
cluster_1.pdb ( medoid)	32.0827	7.07546	44.6624	227
cluster_2.pdb ( medoid)	25.2812	4.54884	27.4159	115
cluster_3.pdb ( medoid)	23.4289	4.35361	12.5186	102
cluster_4.pdb ( medoid)	18.2704	8.21001	31.5671	150
cluster_5.pdb ( medoid)	8.28939	14.4763	41.3484	120
cluster_6.pdb ( medoid)	7.47347	11.6412	45.471	87
cluster_7.pdb ( medoid)	4.24814	11.7699	40.126	50
cluster_8.pdb ( medoid)	3.94962	17.2168	39.9635	68
cluster_9.pdb ( medoid)	3.40981	12.3174	40.1849	42
cluster_10.pdb ( medoid)	1.84321	21.1588	41.498	39