CABS-dock: Protein-Peptide

Project name: Protein-Peptide

Status: done

submitted: 2026-03-14 06:57:14, status changed: 2026-03-14 17:30:35

Project settings

Protein sequence(s)	RMSMVVSGLTPEEFMLVYKFARKHHITLTNLITEETTHVVMKTDAEFVCERTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFEVRGDVVNGRNHQGPKRARESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFTLGTGVHPIVVVQPDAWTEDNGFHAIGQMCEAPVVTREWVLDSVALYQCQELDTYLIPQIPISRSTSPTFNKQ input pdb
Peptide sequence	KIPKATPELGSSENSASSPPRFK
Simulation mc cycles	100
Peptide secondary structure psipred	CCCCCCCCCCCCCCCCCCCCCCC

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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)	17.5885	7.10692	34.3475	125
cluster_2.pdb ( medoid)	14.8576	7.26901	28.3413	108
cluster_3.pdb ( medoid)	13.4319	8.33837	27.7835	112
cluster_4.pdb ( medoid)	12.4173	9.90554	33.8783	123
cluster_5.pdb ( medoid)	11.8644	4.38288	23.0175	52
cluster_6.pdb ( medoid)	11.229	14.3378	46.9382	161
cluster_7.pdb ( medoid)	6.42753	8.24578	26.0624	53
cluster_8.pdb ( medoid)	6.10958	22.2601	49.9666	136
cluster_9.pdb ( medoid)	4.96868	14.4908	36.56	72
cluster_10.pdb ( medoid)	4.93117	11.7619	33.4204	58