CABS-dock: emindegilim_sekans88

Project name: emindegilim_sekans88_3.?deneme

Status: done

submitted: 2025-08-02 19:18:18, status changed: 2025-08-04 11:58:40

Project settings

Protein sequence(s)	IRVFAIPPSFASIFLTKSTKLTCLVTDLTTYDSVTISWTRQNGEAVKTHTNISESHPNATFSAVGEASISEDDWNSGERFTCTVTHTDLPSPLKQTISRPKGVALHRPDVYLLPPAREQLNLRESATITCLVTGFSPADVFVQWMQRGQPLSPEKYVTSAPMPEPQAPGRYFAHSILTVSEEEWNTGETYTCVVAHEALPNRVTERTVDKSTIRVFAIPPSFASIFLTKSTKLTCLVTDLTTYDSVTISWTRQNGEAVKTHTNISESHPNATFSAVGEASISEDDWNSGERFTCTVTHTDLPSPLKQTISRPKGVALHRPDVYLLPPAREQLNLRESATITCLVTGFSPADVFVQWMQRGQPLSPEKYVTSAPMPEPQAPGRYFAHSILTVSEEEWNTGETYTCVVAHEALPNRVTERTVDKST input pdb
Peptide sequence	SQSAGITASSVISQR
Simulation mc cycles	200
Peptide secondary structure psipred	CCCCCCCHHHHHCCC

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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)	28.868	7.51699	28.5484	217
cluster_2.pdb ( medoid)	22.0493	9.252	21.2903	204
cluster_3.pdb ( medoid)	14.237	10.6062	39.701	151
cluster_4.pdb ( medoid)	10.5436	5.40613	12.1859	57
cluster_5.pdb ( medoid)	9.07244	8.15657	20.6826	74
cluster_6.pdb ( medoid)	6.64408	15.8035	38.6639	105
cluster_7.pdb ( medoid)	4.42388	8.58975	28.0568	38
cluster_8.pdb ( medoid)	4.39524	13.1961	34.8668	58
cluster_9.pdb ( medoid)	3.43464	11.646	26.1002	40
cluster_10.pdb ( medoid)	3.2625	17.1648	33.8755	56