CABS-dock: d3

Project name: d3_4

Status: done

submitted: 2026-06-03 02:34:47, status changed: 2026-06-03 12:02:18

Project settings

Protein sequence(s)	SLELQEHCSLKPYNTFGIDVRARLLAHARDEADVREALALARERGLPLLVIGGGSNLLLTRDVEALVLRMASQGRRIVSDAADSVLVEAEAGEAWDPFVQWSLERGLAGLENLSLIPGTVGAAPMQNIGAYGVELKDVFDSLTALDRQDGTLREFDRQACRFGYRDSLFKQEPDRWLILRVRLRLTRRERLHLDYGPVRQRLEEEGIASPTARDVSRVICAIRREKLPDPAVLGNAGSFFKNPLVDATQAERLRQAFPDLVGYPQADGRLKLAAGWLIDKGGWKGFRDGPVGVHAQQALVLVNHGGATGAQVRALAERIQEDVRRRFGVELEPEPNLY input pdb
Peptide sequence	VPDPVRGLHPVPQPLVPV
Simulation mc cycles	50
Peptide secondary structure psipred	CCCCCCCCCCCCCCCCCC

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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)	107.02	0.934404	4.23397	100
cluster_2.pdb ( medoid)	31.9513	3.47404	20.2874	111
cluster_3.pdb ( medoid)	23.0341	4.47162	33.4469	103
cluster_4.pdb ( medoid)	20.9425	7.54447	30.9071	158
cluster_5.pdb ( medoid)	10.0438	11.2507	30.4117	113
cluster_6.pdb ( medoid)	8.86515	6.65528	14.5388	59
cluster_7.pdb ( medoid)	7.90361	17.3339	36.3934	137
cluster_8.pdb ( medoid)	7.75698	14.8254	45.5076	115
cluster_9.pdb ( medoid)	7.4781	8.95949	29.322	67
cluster_10.pdb ( medoid)	1.94015	19.0707	40.164	37