CABS-dock: loop

Project name: loop

Status: done

submitted: 2025-11-12 10:58:01, status changed: 2025-11-12 11:54:24

Project settings

Protein sequence(s)	SGTTLFVALYDYEEARTEDDLSFHHKGEKFQQILNSSEGDDWWEARSLTTTGETGYYIPSNYVAPV input pdb
Peptide sequence	GSRSRTPSLPTPPTR
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)	20.862	9.58683	24.3384	200
cluster_2.pdb ( medoid)	19.4396	7.40755	25.1178	144
cluster_3.pdb ( medoid)	17.612	4.76947	14.022	84
cluster_4.pdb ( medoid)	16.451	3.95114	20.0348	65
cluster_5.pdb ( medoid)	12.6095	8.24775	18.7339	104
cluster_6.pdb ( medoid)	11.7287	7.58826	24.167	89
cluster_7.pdb ( medoid)	11.4791	7.40477	15.9013	85
cluster_8.pdb ( medoid)	9.00297	8.44166	20.9059	76
cluster_9.pdb ( medoid)	8.85514	11.7446	28.2668	104
cluster_10.pdb ( medoid)	3.47099	14.117	29.4705	49