CABS-dock: Rank

Project name: Rank_6

Status: done

submitted: 2026-04-04 14:15:23, status changed: 2026-04-04 18:08:55

Project settings

Protein sequence(s)	GDQRFGDLVFRQLAPNVWQHTSYLDMPGFGAVASNGLIVRDGGRVLVVDTAWTDDQTAQILNWIKQEINLPVALAVVTHAHQDKMGGMDALHAAGIATYANALSNQLAPQEGMVAAQHSLTGWVEPATAPNFGPLKVFYPGPGHTSDNITVGIDGTDIAFGGCLIKDSKAKSLGNLGDADYAASARAFGAAFPKASMIVMSHSAPDSRAAITHTARMADKLR input pdb
Peptide sequence	PLCGCGGA
Simulation mc cycles	50
Peptide secondary structure psipred	CCCCCCCC

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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)	35.6926	2.10127	6.46074	75
cluster_2.pdb ( medoid)	31.5852	7.53517	38.1626	238
cluster_3.pdb ( medoid)	30.5463	4.05942	21.8305	124
cluster_4.pdb ( medoid)	13.7559	5.5249	13.8439	76
cluster_5.pdb ( medoid)	10.9783	16.0316	53.0744	176
cluster_6.pdb ( medoid)	8.60727	10.8048	33.535	93
cluster_7.pdb ( medoid)	5.97806	16.3933	38.0332	98
cluster_8.pdb ( medoid)	3.58768	12.5429	34.3585	45
cluster_9.pdb ( medoid)	2.59464	15.8018	32.9748	41
cluster_10.pdb ( medoid)	2.56854	13.2371	32.4725	34