CABS-dock: Rank

Project name: Rank_04

Status: done

submitted: 2026-04-04 14:11:59, status changed: 2026-04-04 18:03:53

Project settings

Protein sequence(s)	GDQRFGDLVFRQLAPNVWQHTSYLDMPGFGAVASNGLIVRDGGRVLVVDTAWTDDQTAQILNWIKQEINLPVALAVVTHAHQDKMGGMDALHAAGIATYANALSNQLAPQEGMVAAQHSLTGWVEPATAPNFGPLKVFYPGPGHTSDNITVGIDGTDIAFGGCLIKDSKAKSLGNLGDADYAASARAFGAAFPKASMIVMSHSAPDSRAAITHTARMADKLR input pdb
Peptide sequence	PFCGCGG
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)	47.0128	2.61631	13.8987	123
cluster_2.pdb ( medoid)	24.5692	6.43082	32.2429	158
cluster_3.pdb ( medoid)	24.3814	8.20296	32.3416	200
cluster_4.pdb ( medoid)	17.8247	5.66629	29.4438	101
cluster_5.pdb ( medoid)	6.62903	8.29684	22.3345	55
cluster_6.pdb ( medoid)	6.16396	15.8989	41.0388	98
cluster_7.pdb ( medoid)	5.16609	18.3891	46.4062	95
cluster_8.pdb ( medoid)	4.66981	18.4162	38.9192	86
cluster_9.pdb ( medoid)	3.22602	14.569	36.8714	47
cluster_10.pdb ( medoid)	2.32711	15.8996	35.9058	37