DynDom - Protein Domain Motions

E3 Ubiquitin-Protein Ligase Parkin

(All numbering and residues are taken from first PDB file)

Run Details Domains Sequence Morph Domain Pairs Contact Graph

DynDom run details

Property	Value
Name	E3 Ubiquitin-Protein Ligase Parkin
Conformer 1 (PDB)	5c1z (A)
Conformer 2 (PDB)	5n2w (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	313	2.26	3 - 317 391 - 463
2	59	6.2	318 - 382

Sequence

`________________________________________________________________________________________________________________________` `5c1z(A) : MIVFVRFNSSHGFPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELRNDWTVQNCDLDQQSIVHIVQRPWRKGQEMNATNSFYVYCKGPCQRVQPGKLRVQCSTCRQATLTLTQGP` `:` `5n2w(A) : MIVFVRFNSSHGFPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELRNDWTVQNCDLDQQSIVHIVQRPW-------aTNSFYVYCKGPCQRVQPGKLRVQCSTCRQATLTLTQGP` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `5c1z(A) : SCWDDVLIPNRMSGECQSPHCPGTSAEFFFKCGAHPTSDKETSVALHLIATNSRNITCITCTDVRSPVLVFQCNSRHVICLDCFHLYCVTRLNDRQFVHDPQLGYSLPCVAGCPNSLIKE` `:` `5n2w(A) : SCWDDVLIPNRMSGECQSPHCPGTSAEFFFKCGAHPtSDKETSVALHLIATNSRNITCITCTDVRSPVLVFQCNSRHVICLDCFHLYCVTRLNDRQFVHDPQLGYSLPCVAGCPNSLIKE` `________________________________________________________________________________________________________________________` `______________317________________________________________________________376____________________________________________` `5c1z(A) : LHHFRILGEEQYNRYQQYGAEECVLQMGGVLCPRPGCGAGLLPEPDQRKVTCEgN-----gFAFCRECKEAYHEGECSAVFEyRVDERAAEQARWEA-tTKPCPRCHVPVEKNGGCMHMK` `:` `5n2w(A) : LHHFRILGEEQYNRYQQYGAEECVLQMGgVLCPRPGCGAGLLPEPDCRKVTCEGGNGLGCGFAFCRECKEAYHEGECtTQ-AYRVDERAAEQARWEAkTTKPCPRCHVPVEKNGGCMHMK` `______________317________________________________________________________376____________________________________________` `______________________________` `5c1z(A) : CPQPQCRLEWCWNCGCEWNRVCMGDHWFDV` `:` `5n2w(A) : CPQPQCRLEWCWNCGCEWNRVCMGDHWFDV` `______________________________`

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	48.0
Translation (A)	3.9
Closure (%)	97.6
Bending Residues ( green )	317 - 318 376 - 392
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Hinge

PyMOL Script

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