CABS-dock: Pepm-Met-Unbiased

Project name: Pepm-Met-Unbiased

Status: done

submitted: 2025-06-22 18:51:19, status changed: 2025-06-22 22:54:49

Project settings

Protein sequence(s)	AGSYKKIRSNVYVDVKPLSGYEATTCNCKKPDDDTRKGCVDDCLNRMIFAECSPNTCPCGEQCCNQRIQRHEWVQCLERFRAEEKGWGIRTKEPLKAGQFIIEYLGEVVSEQEFRNRMIEQYHNHSDHYCLNLDSGMVIDSYRMGNEARFINHSCDPNCEMQKWSVNGVYRIGLYALKDMPAGTELTYDYNFHSFNVEKQQLCKCGFEKCRGIIG input pdb
Peptide sequence	LPLSGGIKYPVYNHD
Simulation mc cycles	50
Peptide secondary structure psipred	CCCCCCCCCCCCCCC

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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)	28.1145	4.23269	21.1582	119
cluster_2.pdb ( medoid)	19.6029	9.38636	30.9573	184
cluster_3.pdb ( medoid)	17.5604	7.45996	25.7994	131
cluster_4.pdb ( medoid)	15.5446	11.3866	26.6822	177
cluster_5.pdb ( medoid)	14.5917	7.33295	14.4436	107
cluster_6.pdb ( medoid)	9.09119	8.35975	29.5601	76
cluster_7.pdb ( medoid)	7.56162	10.183	37.7491	77
cluster_8.pdb ( medoid)	7.49969	9.33372	28.9125	70
cluster_9.pdb ( medoid)	4.99753	7.20356	17.7477	36
cluster_10.pdb ( medoid)	2.3312	9.86615	19.8026	23