CABS-dock: CED4_3a

Project name: CED4_3a_CABS

Status: done

submitted: 2025-02-04 23:25:55, status changed: 2025-02-06 08:52:45

Project settings

Protein sequence(s)	TQYIFHEEDMNFVDAPTISRVFDEKTMYRNFSSPRGMCLIINNEHFEQMPTRNGTKADKDNLTNLFRCMGYTVICKDNLTGRGMLLTIRDFAKHESHGDSAILVILSHGEENVIIGVDDIPISTHEIYDLLNAANAPRLANKPKIVFVQASRGERRDNGFPVRKKPSQADILIAYATTAQYVSWRNSARGSWFIQAVCEVFSTHAKDMDVVELLTEVNKKVACGFQTSQGSNILKQMPEMTSRLLKKFYFWPEARNTQYIFHEEDMNFVDAPTISRVFDEKTMYRNFSSPRGMCLIINNEHFEQMPTRNGTKADKDNLTNLFRCMGYTVICKDNLTGRGMLLTIRDFAKHESHGDSAILVILSHGEENVIIGVDDIPISTHEIYDLLNAANAPRLANKPKIVFVQASRRKKPSQADILIAYATTGSWFIQAVCEVFSTHAKDMDVVELLTEVNKKVACGMPEMTSRLLKKFYFWPEARN input pdb
Peptide sequence	MKEMLDRKLLLGNVPKQMTC
Simulation mc cycles	50
Peptide secondary structure psipred	CHHHHHHHHHHCCCCCCCCC

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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)	71.5003	1.44055	9.71876	103
cluster_2.pdb ( medoid)	19.3852	5.98395	21.5086	116
cluster_3.pdb ( medoid)	17.8778	5.42572	23.9987	97
cluster_4.pdb ( medoid)	16.907	5.67812	18.2392	96
cluster_5.pdb ( medoid)	16.0006	6.87472	28.1513	110
cluster_6.pdb ( medoid)	15.4005	11.8178	43.6127	182
cluster_7.pdb ( medoid)	11.5094	7.73279	16.5848	89
cluster_8.pdb ( medoid)	11.5007	9.91242	35.371	114
cluster_9.pdb ( medoid)	5.53942	6.31835	15.5966	35
cluster_10.pdb ( medoid)	2.97583	19.4904	35.1777	58