CABS-dock: Sukarna Basu

Project name: Sukarna Basu

Status: done

submitted: 2025-12-13 01:46:02, status changed: 2025-12-13 13:06:25

Project settings

Protein sequence(s)	VKSLKKEYSNENAVVKRMQSLQLDCVAVPSSRSNSATEQPGSLHSSQGLGMGPVEESWFAPSLEHPQEENEPSLQSKLQDEANYHLYGSRMDRQTKQQPRQNVAYNREEERRRRVSHDPFAQQRPYENFQNTEGKGTAYSSAASHGNAVHQPSGLTSQPQVLYQNNGLYSSHGFGTRPLDPGTAGPRVWYRPIPSHMPSLHNIPVPETNYLGNTPTMPFSSLPPTDESIKYTIYNSTGIQIGAYNYMEIGGTSSSLLDSTNTNFKEEPAAKYQAIFDNTTSLTDKHLDPIRENLGKHWKNCARKLGFTQSQIDEIDHDYERDGLKEKVYQMLQKWVMREGIKGATVGKLAQALHQCSRIDLLSSLIYVSQN input pdb
Peptide sequence	RRVIVQVQCGSNSR
Simulation mc cycles	50
Peptide secondary structure psipred	CCEEEEEEECCCCC

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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)	16.4549	8.20423	38.454	135
cluster_2.pdb ( medoid)	15.6178	9.02817	53.8325	141
cluster_3.pdb ( medoid)	8.42192	16.9795	53.052	143
cluster_4.pdb ( medoid)	8.37685	18.384	57.7683	154
cluster_5.pdb ( medoid)	7.47239	8.43104	31.8896	63
cluster_6.pdb ( medoid)	7.33685	8.58679	47.6319	63
cluster_7.pdb ( medoid)	7.22113	9.27833	29.1592	67
cluster_8.pdb ( medoid)	7.02914	13.942	41.2705	98
cluster_9.pdb ( medoid)	3.70958	21.8353	53.6087	81
cluster_10.pdb ( medoid)	1.99468	27.5734	50.3721	55