CABS-dock: braf_monomer_peptide

Project name: braf_monomer_peptide_9

Status: done

submitted: 2025-12-28 10:31:33, status changed: 2025-12-28 17:32:38

Project settings

Protein sequence(s)	DWEIPDGQITVGQRIGSGSFGTVYKGKWHGDVAVKMLNVTAPTPQQQLQAFKNEVGVLRKTRHVNILLFMGYSTKPQLAIVTQWCEGSSLYKHLHASETKFEMKKLIDIARQTARGMDYLHAKSIIHRRDLKSNNIFLHEDNNTVKIGDFGLATVKSRWSGSHQFEQLSGSILWMAPEVIRMQDSNPYSFQSDVYAFGIVLYELMTGQLPYSNINNNRDQIIEMVGRGSLSPDLSKVRSNCPKRMKRLMAEECLKKKRDERPSFPRILAEIEELARE input pdb
Peptide sequence	LRKTRHVNILLFM
Simulation mc cycles	50
Peptide secondary structure psipred	CCCCCCEEEEEEC

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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)	45.2465	5.7463	26.6986	260
cluster_2.pdb ( medoid)	44.78	2.30013	14.2877	103
cluster_3.pdb ( medoid)	20.5394	3.50545	8.45581	72
cluster_4.pdb ( medoid)	17.7836	8.82838	33.1312	157
cluster_5.pdb ( medoid)	15.8541	9.96585	26.8454	158
cluster_6.pdb ( medoid)	7.45488	10.3288	28.2476	77
cluster_7.pdb ( medoid)	6.1498	5.85385	26.5103	36
cluster_8.pdb ( medoid)	5.37476	12.2796	30.886	66
cluster_9.pdb ( medoid)	3.85603	10.114	32.8294	39
cluster_10.pdb ( medoid)	2.4812	12.897	30.2004	32