CABS-dock: TTP_short-4j8s

Project name: TTP_short-4j8s

Status: done

submitted: 2026-01-19 15:43:17, status changed: 2026-01-19 18:08:19

Project settings

Protein sequence(s)	QQTDLSQVWPEANQHFSKEIDDEANSYFQRIYNHPPHHPTMSVDEVLEMLQRFKDSTIKREREVFNCMLRNLFEEYRFFPQYPDKELHITACLFGGIIEKGLVTYMALGLALRYVLEALRKPFGSKMYYFGIAALDRFKNRLKDYPQYCQHLASSISHFMQFPHHLQQEYIEYGQQSRDPPVK input pdb
Peptide sequence	RRLPIFN
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

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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)	37.5986	3.67035	13.9747	138
cluster_2.pdb ( medoid)	31.5493	4.08883	15.4795	129
cluster_3.pdb ( medoid)	30.7936	3.08506	5.83187	95
cluster_4.pdb ( medoid)	24.7947	4.55742	16.1019	113
cluster_5.pdb ( medoid)	21.5527	6.07813	25.2883	131
cluster_6.pdb ( medoid)	16.3169	8.21235	29.7524	134
cluster_7.pdb ( medoid)	14.0827	4.47358	21.1624	63
cluster_8.pdb ( medoid)	12.1716	5.58678	13.8707	68
cluster_9.pdb ( medoid)	10.5722	7.28325	19.0562	77
cluster_10.pdb ( medoid)	7.05294	7.37281	23.5876	52