CABS-dock: MHC2+OmpU10

Project name: MHC2+OmpU10

Status: done

submitted: 2025-12-30 09:18:49, status changed: 2025-12-30 18:09:14

Project settings

Protein sequence(s)	HAIKDHVISQFGAGDAFTDGELQSVGELMLADANQDDDWFELKMMEEFRAVDQDPYFVTPSVFCNTDETCQNVAHIFIDNGEFIQPTVKVAPPESRISNSNTITLMCLVTGFFPPEISITWFKNGQELTEGSTYTTNSVDEPADLFYDCKVNHQGTYEPMGLTVEEPGVQHFVHQFMYGEGSEVFDFDSDEYFYVDKRELGRPDAWVNGEVVPAELRSIQPAEHWDRNQLLEECRAHNGTLESVRVLLDRYYWNSQKESILRTRAVTMSCRHNYEIFVPPTVKVFPKPSIEKNGNVTLICLVTGFYPKHIEVKWLLNGQELPAQVGYYVNGSELQFQDALDDICPTVEKSGLYSCRVEHSGVFEPIGLEWEH input pdb
Peptide sequence	RGEFDALQVQATYQA
Simulation mc cycles	50
Peptide secondary structure psipred	CCCCCCEEEEEEECC

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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)	47.0302	0.807992	8.15861	38
cluster_2.pdb ( medoid)	31.6371	3.3821	18.4522	107
cluster_3.pdb ( medoid)	22.7477	7.69309	17.4702	175
cluster_4.pdb ( medoid)	20.5743	5.49228	24.6476	113
cluster_5.pdb ( medoid)	19.9482	10.026	24.6194	200
cluster_6.pdb ( medoid)	16.5904	6.02759	13.0465	100
cluster_7.pdb ( medoid)	14.7642	2.43833	20.6493	36
cluster_8.pdb ( medoid)	14.0984	10.143	35.1312	143
cluster_9.pdb ( medoid)	11.0997	3.69378	8.50843	41
cluster_10.pdb ( medoid)	3.86373	12.1644	25.2584	47