CABS-dock: Rank

Project name: Rank_07

Status: done

submitted: 2026-04-04 14:16:30, status changed: 2026-04-04 18:06:40

Project settings

Protein sequence(s)	GDQRFGDLVFRQLAPNVWQHTSYLDMPGFGAVASNGLIVRDGGRVLVVDTAWTDDQTAQILNWIKQEINLPVALAVVTHAHQDKMGGMDALHAAGIATYANALSNQLAPQEGMVAAQHSLTGWVEPATAPNFGPLKVFYPGPGHTSDNITVGIDGTDIAFGGCLIKDSKAKSLGNLGDADYAASARAFGAAFPKASMIVMSHSAPDSRAAITHTARMADKLR input pdb
Peptide sequence	GQCGCGG
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

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)	29.5971	4.35853	12.3662	129
cluster_2.pdb ( medoid)	27.0941	5.94225	37.8684	161
cluster_3.pdb ( medoid)	17.8739	5.31502	13.8856	95
cluster_4.pdb ( medoid)	14.6524	10.9197	45.7068	160
cluster_5.pdb ( medoid)	10.6176	8.00557	25.2208	85
cluster_6.pdb ( medoid)	7.98496	12.2731	39.7463	98
cluster_7.pdb ( medoid)	7.31604	14.8988	36.2758	109
cluster_8.pdb ( medoid)	5.48293	13.6788	48.0037	75
cluster_9.pdb ( medoid)	3.78359	15.5936	32.8856	59
cluster_10.pdb ( medoid)	1.62123	17.8877	35.2887	29