CABS-dock: 3OPU

Project name: 3OPU_PEP

Status: done

submitted: 2026-04-05 08:37:39, status changed: 2026-04-05 14:59:29

Project settings

Protein sequence(s)	YIKPTKVNKNENGVVIDDKTVLAGSTNYYELTWDLDQYKNDRSSADTIQKGFYYVDDYPEEALELRQDLVKITDANGNEVTGVSVDNYTSLEAAPQEIRDVLSKAGIRPKGAFQIFRADNPREFYDTYVKTGIDLKIVSPMVVKKQMGQTGGSYENQAYQIDFGNGYASNIVINNVPKINPKKDVTLTLDPADTNNVDGQTIPLNTVFNYRLIGGIIPANHSEELFEYNFYDDYDQTGDHYTGQYKVFAKVDIILKNGVIIKSGTELTQYTTAEVDTTKGAITIKFKEAFLRSVSIDSAFQAESYIQMKRIAVGTFENTYINTVNGVTYSSNTVKTTT input pdb
Peptide sequence	TQANFNTLRSLGVKGAVVKA
Simulation mc cycles	50
Peptide secondary structure psipred	CCCCHHHHHHCCCCCEEEEC

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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 3Dmol (WebGL)

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)	22.6964	4.49411	38.121	102
cluster_2.pdb ( medoid)	15.3811	7.21664	27.3651	111
cluster_3.pdb ( medoid)	14.989	8.13929	20.5356	122
cluster_4.pdb ( medoid)	11.55	9.52384	24.3997	110
cluster_5.pdb ( medoid)	10.2048	12.6411	25.6417	129
cluster_6.pdb ( medoid)	7.90486	7.84327	18.5355	62
cluster_7.pdb ( medoid)	5.71913	19.2337	38.0086	110
cluster_8.pdb ( medoid)	2.97788	17.1263	32.383	51
cluster_9.pdb ( medoid)	2.47097	15.7833	26.0898	39
cluster_10.pdb ( medoid)	1.98498	13.0984	29.8926	26