CABS-dock: PEPTIDE1

Project name: PEPTIDE1

Status: done

submitted: 2025-07-02 09:23:29, status changed: 2025-07-02 13:44:25

Project settings

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

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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)	29.9054	3.37732	6.58553	101
cluster_2.pdb ( medoid)	21.7432	6.71473	27.9129	146
cluster_3.pdb ( medoid)	16.5999	7.77113	32.5046	129
cluster_4.pdb ( medoid)	16.1777	7.60305	20.3722	123
cluster_5.pdb ( medoid)	14.1783	11.3554	29.7599	161
cluster_6.pdb ( medoid)	10.7707	4.54939	12.6212	49
cluster_7.pdb ( medoid)	7.92885	9.333	34.8618	74
cluster_8.pdb ( medoid)	7.89328	7.98147	14.9798	63
cluster_9.pdb ( medoid)	7.11363	12.9329	29.7819	92
cluster_10.pdb ( medoid)	4.79565	12.9284	42.358	62