DynDom - Protein Domain Motions

Vinculin Isoform 1

(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	Vinculin Isoform 1
Conformer 1 (PDB)	1tr2 (A)
Conformer 2 (PDB)	1tr2 (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	878	1.15	4 - 375 487 - 1059
2	110	0.85	376 - 486

Sequence

`________________________________________________________________________________________________________________________` `1tr2(A) : PVFHTRTIESILEPVAQQISHLVIhEEGEVDGKAIPDLTAPVAAVQAAVSNLVRVGKETVQTTEDQILKRDpPAFIKVENACTKLVQAAQlQSDPYSVPARDYLIDGSRGILSGTSDLLL` `:` `1tr2(B) : PVFHTRTIESILEPVAQQISHLVIhEEGEVDGKAIPDLTAPVAAVQAAVSNLVRVGKETVQTTEDQILKRDpPAFIKVENACTKLVQAAQlQSDPYSVPARDYLIDGSRGILSGTSDLLL` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1tr2(A) : TFDEAEVRKIIRVCKGILEYLTVAEVVETeDLVTYTKNLGPGtKaKiDERQQELTHQEHRVlVNSnTVKELLPVLISAkIFVTTKNSKNQGIEEALKNRNFTVEKsAEINEIIRVLQLTS` `:` `1tr2(B) : TFDEAEVRKIIRVCKGILEYLTVAEVVETeDLVTYTKNLGPGtKaKiDERQQELTHQEHRVlVNSnTVKELLPVLISAkIFVTTKNSKNQGIEEALKNRNFTVEKsAEINEIIRVLQLTS` `________________________________________________________________________________________________________________________` `____________________________________________________________________________________________________________________375_` `1tr2(A) : WDEDAWASKDTEAkRALASIDSKLNQAKGWLRDPSASPGDAGEQAIRQILDEAGKVGELCAGKERREILGTCKlGQtDQVADLRARGQGSSPVAqKAQQVSQGLDVLTAKVENAARKLEA` `:` `1tr2(B) : WDEDAWASKDTEAkRALASIDSKLNQAKGWLRDPSASPGDAGEQAIRQILDEAGKVGELCAGKERREILGTCKlGQtDQVADLRARGQGSSPVAqKAQQVSQGLDVLTAKVENAARKLEA` `____________________________________________________________________________________________________________________375_` `__________________________________________________________________________________________________________486___________` `1tr2(A) : tNSKQSIAKKIDAAQNWLADPNGGPEGEEQIRGALAEARKIAELCDDPKERDDILRSLGEISALTSKLADLRRQGKGDSPEARALAKQVATALQNLQTKTNRAVANSRPAKAAVHLEGKI` `:` `1tr2(B) : tNSKQSIAKKIDAAQNWLADPNGGPEGEEQIRGALAEARKIAELCDDPKERDDILRSLGEISALTSKLADLRRQGKGDSPEARALAKQVATALQNLQTKTNRAVANSRPAKAAVHLEGKI` `__________________________________________________________________________________________________________486___________` `________________________________________________________________________________________________________________________` `1tr2(A) : EQAQRWIDNPTVDDRGVGQAAIRGLVAEGHRLANVgPYRQDLLAKCDRVDQLTAQLADLAARGEGESPQARALASQLQDSLKDLKARqEAtQEVSDVFSDTTTPIKLLAVAATAPPDAPN` `:` `1tr2(B) : EQAQRWIDNPTVDDRGVGQAAIRGLVAEGHRLANVgPYRQDLLAKCDRVDQLTAQLADLAARGEGESPQARALASQLQDSLKDLKARqEAtQEVSDVFSDTTTPIKLLAVAATAPPDAPN` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1tr2(A) : REEVFDERAANFENHSGKLGATAEKAAAVGTANKSTVEGIQASVKTARELTPQVVSAARILLRNPGNQAAYEHFETkNQWIDNVEKtGLVDEAIDTKSLLDASEEAIKKDLDKCKVAaNI` `:` `1tr2(B) : REEVFDERAANFENHSGKLGATAEKAAAVGTANKSTVEGIQASVKTARELTPQVVSAARILLRNPGNQAAYEHFETkNQWIDNVEKtGLVDEAIDTKSLLDASEEAIKKDLDKCKVAaNI` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1tr2(A) : QPQlVAGATSIARRANRILLVAKREVENSEDPKFREAVKAASDELSKTISPvdAKAVAGNISDPGLQKSFLDSGYRILGAVAKVREAFQPQEPDFPpPEEKDEEFPEQKAGEVINQPaAR` `:` `1tr2(B) : QPQlVAGATSIARRANRILLVAKREVENSEDPKFREAVKAASDELSKTISPvdAKAVAGNISDPGLQKSFLDSGYRILGAVAKVREAFQPQEPDFPpPEEKDEEFPEQKAGEVINQPaAR` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1tr2(A) : QLHDEARKWSSKGNDIIAAAKRaLLaEsRLVRGGSGTKRALIQCAKDIAKASDEVTRLAKEVAKQCTDKRIRTNLLQVCERIPTISTQLKILSTVKATlGRTNISDEESEQATElVHNAQ` `:` `1tr2(B) : QLHDEARKWSSKGNDIIAAAKRaLLaEsRLVRGGSGTKRALIQCAKDIAKASDEVTRLAKEVAKQCTDKRIRTNLLQVCERIPTISTQLKILSTVKATlGRTNISDEESEQATElVHNAQ` `________________________________________________________________________________________________________________________` `_________________________________` `1tr2(A) : NLqSVKETVREAEAASIKIRTDAGFTLRWVRK*` `:` `1tr2(B) : NLqSVKETVREAEAASIKIRTDAGFTLRWVRKT` `_________________________________`

Morph

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Status: Initialising

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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	13.3
Translation (A)	0.6
Closure (%)	65.4
Bending Residues ( green )	375 - 376 486 - 487
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

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