CABS-dock: PEPTIDE9

Project name: PEPTIDE9

Status: done

submitted: 2025-07-02 09:29:49, status changed: 2025-07-02 12:16:39

Project settings

Protein sequence(s)	EYPTVSEIPVGEVRLYQIADGVWSHIATQSFDGAVYPSNGLIVRDGDELLLIDTAWGAKNTAALLAEIEKQIGLPVTRAVSTHFHDDRVGGVDVLRAAGVATYASPSTRRLAEVEGNEIPTHSLEGLSSSGDAVRFGPVELFYPGAAHSTDNLVVYVPSASVLYGGCAIYELSRTSAGNVADADLAEWPTSIERIQQHYPEAQFVIPGHGLPGGLDLLKHTTNVVKAHTN input pdb
Peptide sequence	FFYNYKK
Simulation mc cycles	50
Peptide secondary structure psipred	CCCCCCC

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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)	26.8809	5.17096	29.2171	139
cluster_2.pdb ( medoid)	13.6715	13.2392	38.1501	181
cluster_3.pdb ( medoid)	13.4554	10.925	26.6074	147
cluster_4.pdb ( medoid)	11.9132	9.90495	29.311	118
cluster_5.pdb ( medoid)	11.601	11.206	29.6606	130
cluster_6.pdb ( medoid)	11.0945	6.2193	20.7027	69
cluster_7.pdb ( medoid)	7.94395	7.6788	28.7287	61
cluster_8.pdb ( medoid)	6.83513	7.75406	22.4668	53
cluster_9.pdb ( medoid)	5.57944	12.1876	23.7386	68
cluster_10.pdb ( medoid)	3.32769	10.2173	20.1336	34