CABS-dock: braf_monomer_peptide

Project name: braf_monomer_peptide_11

Status: done

submitted: 2025-12-28 10:33:02, status changed: 2025-12-28 17:40:47

Project settings

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

Re-submit project

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

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)	38.0259	2.55089	43.5752	97
cluster_2.pdb ( medoid)	23.5392	6.58475	14.8739	155
cluster_3.pdb ( medoid)	17.5937	8.86683	20.2903	156
cluster_4.pdb ( medoid)	16.6872	4.5544	21.3509	76
cluster_5.pdb ( medoid)	11.3144	8.83831	43.0225	100
cluster_6.pdb ( medoid)	9.46646	8.45089	39.4099	80
cluster_7.pdb ( medoid)	7.6727	15.5095	45.2457	119
cluster_8.pdb ( medoid)	4.58657	14.8259	32.1311	68
cluster_9.pdb ( medoid)	4.50616	15.3124	41.4632	69
cluster_10.pdb ( medoid)	4.41667	18.1132	46.6295	80