CABS-dock: COMMD1-dimer-L2-8

Project name: COMMD1-dimer-L2-8

Status: done

submitted: 2026-07-08 16:30:33, status changed: 2026-07-09 01:08:54

Project settings

Protein sequence(s)	MAAGELEGGKPLSGLLNALAQDTFGYPGITEELLRSQLYPEVPPEEFRPFLAKMRGILKSIASADMDFNQLEAFLTAQTKKQGGITSDQAAVISKFWKSKTKIRESLMNQSRWNSGLRGLSWRVDGKSQSRSAQITPVAIIELELGKYGQESEFLCLEFDEVKVNQILKTLSEVEESISTLISMAAGELEGGKPLSGLLNALAQDTFGYPGITEELLRSQLYPEVPPEEFRPFLAKMRGILKSIASADMDFNQLEAFLTAQTKKQGGITSDQAAVISKFWKSKTKIRESLMNQSRWNSGLRGLSWRVDGKSQSRSAQITPVAIIELELGKYGQESEFLCLEFDEVKVNQILKTLSEVEESISTLIS input pdb
Peptide sequence	HARIKPTFRRLKWKYKGKFW
Simulation mc cycles	50
Peptide secondary structure psipred	CCCCCCCCCCCCCEECCCCC

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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 3Dmol (WebGL)

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

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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)	46.2676	2.18295	29.129	101
cluster_2.pdb ( medoid)	14.9377	8.76975	41.0261	131
cluster_3.pdb ( medoid)	13.1451	8.97674	41.3153	118
cluster_4.pdb ( medoid)	12.1005	8.26413	22.928	100
cluster_5.pdb ( medoid)	9.11137	8.78023	32.6909	80
cluster_6.pdb ( medoid)	9.03474	7.74787	22.0244	70
cluster_7.pdb ( medoid)	6.89906	7.82715	18.0455	54
cluster_8.pdb ( medoid)	5.91299	18.434	34.9708	109
cluster_9.pdb ( medoid)	5.54088	11.5505	43.4255	64
cluster_10.pdb ( medoid)	5.31483	13.7351	36.2765	73