CABS-dock: 1P8J

Project name: 1P8J_69

Status: done

submitted: 2025-07-02 04:41:08, status changed: 2025-07-02 21:12:18

Project settings

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

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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 3Dmol (WebGL)

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

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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)	30.9116	4.72315	11.1044	146
cluster_2.pdb ( medoid)	26.3767	9.32643	26.0717	246
cluster_3.pdb ( medoid)	25.8358	3.94801	20.6982	102
cluster_4.pdb ( medoid)	16.1873	6.11591	14.6529	99
cluster_5.pdb ( medoid)	14.9606	6.68423	24.6827	100
cluster_6.pdb ( medoid)	14.3792	10.3622	27.6471	149
cluster_7.pdb ( medoid)	8.34092	6.83378	12.4332	57
cluster_8.pdb ( medoid)	7.91701	5.55766	10.4858	44
cluster_9.pdb ( medoid)	6.99077	5.86487	10.557	41
cluster_10.pdb ( medoid)	2.69115	5.94542	14.0505	16