DynDom - Protein Domain Motions

Transportin-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	Transportin-1
Conformer 1 (PDB)	2h4m (A)
Conformer 2 (PDB)	2h4m (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	474	1.14	8 - 541 543 - 549 553 - 555 595 - 595 597 - 600
2	332	0.47	542 - 542 550 - 552 556 - 594 596 - 596 601 - 888

Sequence

`________________________________________________________________________________________________________________________` `2h4m(A) : KPDEQGLQQILQLLKESQSPDTTIQRTVQQKpDFNNYLIFVLTKLKSEDEPTRSLSGLILKNNVKfQNFPNGVTDFIKSECLNNIGDSSPLIRATVGILITTIASKGELQNWPDLLPKLC` `:` `2h4m(B) : KPDEQGLQQILQLLKESQSPDTTIQRTVQQKpDFNNYLIFVLT---sEDEPTRSLSGLILKNN--fQNFPNGVTDFIKSECLNNIGDSSPLIRATVGILITTIASKGELQNWPDLLPKLC` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2h4m(A) : SLLDSEDYNTCEGAFGALQKICEDSAEILDSDVLDRPLNIMIPKFLQFFKHSSPKIRSHAVACVNQFIISRTQALMLHIDSFIENLFALAGDEEPEVRKNVCRALVMLLEVRMDRLLPHM` `:` `2h4m(B) : SLLDSEDYNTCEGAFGALQKICED------------pLNIMIPKFLQFFKHSSPKIRSHAVACVNQFIISRTQALMLHIDSFIENLFALAGDEEPEVRKNVCRALVMLLEVRMDRLLPHM` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2h4m(A) : HNIVEYMLQRTQDQDENVALEACEFWLTLAEQPICKDVLVRHLPKLIPVLVNGMKYSDIDIILLKtISDWNLRKCSAAALDVLANVYRDELLPHILPLLKELLFHHEWVVKESGILVLGA` `:` `2h4m(B) : HNIVEYMLQRTQDQDENVALEACEFWLTLAEQPICKDVLVRHLPKLIPVLVNGMKYSDIDIILLKtISDWNLRKCSAAALDVLANVYRDELLPHILPLLKELLFHHEWVVKESGILVLGA` `________________________________________________________________________________________________________________________` `___________________________________________________________________________________________________________________541__` `2h4m(A) : IAEGCMQGMIPYLPELIPHLIQCLSDKKALVRSITCWTLSRYAHWVVSQPPDTYLKPLMTELLKRILDSNKRVQEAACSAFATLEEEACTELVPYLAYILDTLVFAFSKYQHKNLLILYD` `:` `2h4m(B) : IAEGCMQGMIPYLPELIPHLIQCLSDKKALVRSITCWTLSRYAHWVVSQPPDTYLKPLMTELLKRILDSNKRVQEAACSAFATLEEEACTELVPYLAYILDTLVFAFSKYQHKNLLILYD` `___________________________________________________________________________________________________________________541__` `___549___555____________________________________594___600_______________________________________________________________` `2h4m(A) : AIGTLADSVGHHLNKPEYIQMLMPPLIQKWNMLKDEDKDLFPLLECLSSVATALQSGFLPYCEPVYQRCVNLVQKTLAQAMLNNAQPDQYEAPDKDFMIVALDLLSGLAEGLGGNIEQLV` `:` `2h4m(B) : AIGTLADSVGHHLNKPEYIQMLMPPLIQKWNMLKDEDKDLFPLLECLSSVATALQSGFLPYCEPVYQRCVNLVQKTLAQAMLNNAQPDQYEAPDKDFMIVALDLLSGLAEGLGGNIEQLV` `___549___555____________________________________594___600_______________________________________________________________` `________________________________________________________________________________________________________________________` `2h4m(A) : ARSNILTLMYQCMQDKMPEVRQSSFALLGDLTKACFQHVKPCIADFMPILGTNLNPEFISVCNNATWAIGEISIQMGIEMQPYIPMVLHQLVEIINRPNTPKTLLENTAITIGRLGYVCP` `:` `2h4m(B) : ARSNILTLMYQCMQDKMPEVRQSSFALLGDLTKACFQHVKPCIADFMPILGTNLNPEFISVCNNATWAIGEISIQMGIEMQPYIPMVLHQLVEIINRPNTPKTLLENTAITIGRLGYVCP` `________________________________________________________________________________________________________________________` `___________________________________________________________________________________________________________` `2h4m(A) : QEVAPMLQQFIRPWCTSLRNIRDNEEKDSAFRGICTMISVNPSGVIQDFIFFCDAVASWINPKDDLRDMFCKILHGFKNQVGDENWRRFSDQFPLPLKERLAAFYGV` `:` `2h4m(B) : QEVAPMLQQFIRPWCTSLRNIRDNEEKDSAFRGICTMISVNPSGVIQDFIFFCDAVASWINPKDDLRDMFCKILHGFKNQVGDENWRRFSDQFPLPLKERLAAFYGV` `___________________________________________________________________________________________________________`

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)	9.5
Translation (A)	0.0
Closure (%)	1.9
Bending Residues ( green )	541 - 543 549 - 550 552 - 553 555 - 557 594 - 597 600 - 601
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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