CABS-dock: 1xkk3

Project name: 1xkk3

Status: done

submitted: 2023-06-01 22:32:54, status changed: 2023-06-02 06:27:07

Project settings

Protein sequence(s)	GEAPNQALLRILKETEFKKIKVLGSGAFGTVYKGLWIPEGEKVKIPVAIKELREATSPKANKEILDEAYVMASVDNPHVCRLLGICLTSTVQLITQLMPFGCLLDYVREHKDNIGSQYLLNWCVQIAKGMNYLEDRRLVHRDLAARNVLVKTPQHVKITDFGLAKLLGAEEKEYHAEGGKVPIKWMALESILHRIYTHQSDVWSYGVTVWELMTFGSKPYDGIPASEISSILEKGERLPQPPICTIDVYMIMVKCWMIDADSRPKFRELIIEFSKMARDPQRYLVIQGDERMHLPSPTDSNFYRALMDEEDMDDVVDADEY input pdb
Peptide sequence	VISDAYRLK
Simulation mc cycles	50
Peptide secondary structure psipred	CCCCCCCCC

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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

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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)	21.1954	9.76626	40.9755	207
cluster_2.pdb ( medoid)	19.3291	7.39818	32.7158	143
cluster_3.pdb ( medoid)	17.1123	8.18127	31.1288	140
cluster_4.pdb ( medoid)	13.9632	8.52242	25.8466	119
cluster_5.pdb ( medoid)	11.7693	8.07185	22.6698	95
cluster_6.pdb ( medoid)	10.9516	5.29604	18.1228	58
cluster_7.pdb ( medoid)	10.7982	5.92693	29.6826	64
cluster_8.pdb ( medoid)	5.12355	16.5901	39.3354	85
cluster_9.pdb ( medoid)	4.05423	12.3328	29.5467	50
cluster_10.pdb ( medoid)	3.57835	10.8989	31.2288	39