CABS-dock: C_short-4j8s

Project name: C_short-4j8s

Status: done

submitted: 2026-01-19 15:41:21, status changed: 2026-01-19 20:30:39

Project settings

Protein sequence(s)	QQTDLSQVWPEANQHFSKEIDDEANSYFQRIYNHPPHHPTMSVDEVLEMLQRFKDSTIKREREVFNCMLRNLFEEYRFFPQYPDKELHITACLFGGIIEKGLVTYMALGLALRYVLEALRKPFGSKMYYFGIAALDRFKNRLKDYPQYCQHLASSISHFMQFPHHLQQEYIEYGQQSRDPPVK input pdb
Peptide sequence	SKRLPQWT
Simulation mc cycles	50
Peptide secondary structure psipred	CCCCCCCC

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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)	31.99	4.87653	18.62	156
cluster_2.pdb ( medoid)	31.0685	4.98898	14.725	155
cluster_3.pdb ( medoid)	23.1706	5.22214	20.6375	121
cluster_4.pdb ( medoid)	22.1567	6.40889	28.9001	142
cluster_5.pdb ( medoid)	16.0781	7.1526	19.4763	115
cluster_6.pdb ( medoid)	13.5328	3.32525	11.7672	45
cluster_7.pdb ( medoid)	11.52	4.86111	13.1241	56
cluster_8.pdb ( medoid)	7.74857	10.9698	38.4623	85
cluster_9.pdb ( medoid)	6.56889	8.06833	20.71	53
cluster_10.pdb ( medoid)	4.51791	15.9366	35.6175	72