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 (B)
Conformer 2 (PDB)	2ot8 (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	466	2.19	13 - 551 553 - 554 595 - 595 597 - 600
2	330	0.77	552 - 552 555 - 594 596 - 596 601 - 888

Sequence

`________________________________________________________________________________________________________________________` `2h4m(B) : KPDEQGLQQILQLLKESQSPDTTIQRTVQQKpD-----FNNYLIFVLTsEDEPTRSLSGLILKNN----fQNFPNGVTDFIKSECLNNIGDSSPLIRATVGILITTIASKGELQNWPDLL` `:` `2ot8(A) : ****QGLQQILQLLKESQ---tTIQRTVQQKLEQLNQYfNNYLIFVLTKe--PTRSLSGLILKNNVKAHFQNFPNGVTDFIKSECLNNIGDSSPLIRATVGILITTIASKGELQNWPDLL` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2h4m(B) : PKLCSLLDSEDYNTCEGAFGALQKICED------------pLNIMIPKFLQFFKHSSPKIRSHAVACVNQFIISRTQALMLHIDSFIENLFALAGDEEPEVRKNVCRALVMLLEVRMDRL` `:` `2ot8(A) : PKLCSLLDSEDYNTCEGAFGALQKICEDSAEILDSDVLDRPLNIMIPKFLQFFKHSSPKIRSHAVACVNQFIISRTQALMLHIDSFIENLFALAGDEEPEVRKNVCRALVMLLEVRMDRL` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2h4m(B) : LPHMHNIVEYMLQRTQDQDENVALEACEFWLTLAEQPICKDVLVRHLPKLIPVLVNGMKYSDIDIILLK--tISDWNLRKCSAAALDVLANVYRDELLPHILPLLKELLFHHEWVVKESG` `:` `2ot8(A) : LPHMHNIVEYMLQRTQDQDENVALEACEFWLTLAEQPICKDVLVRHLPKLIPVLVNGMKYSDIDIILLKdDTISDWNLRKCSAAALDVLANVYRDELLPHILPLLKELLFHHEWVVKESG` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2h4m(B) : ILVLGAIAEGCMQGMIPYLPELIPHLIQCLSDKKALVRSITCWTLSRYAHWVVSQPPDTYLKPLMTELLKRILDSNKRVQEAACSAFATLEEEACTELVPYLAYILDTLVFAFSKYQHKN` `:` `2ot8(A) : ILVLGAIAEGCMQGMIPYLPELIPHLIQCLSDKKALVRSITCWTLSRYAHWVVSQPPDTYLKPLMTELLKRILDSNKRVQEAACSAFATLEEEACTELVPYLAYILDTLVFAFSKYQHKN` `________________________________________________________________________________________________________________________` `___________551________________________________________594___600_________________________________________________________` `2h4m(B) : LLILYDAIGTLADSVGHHLNKPEYIQMLMPPLIQKWNMLKDEDKDLFPLLECLSSVATALQSGFLPYCEPVYQRCVNLVQKTLAQAMLNNAQPDQYEAPDKDFMIVALDLLSGLAEGLGG` `:` `2ot8(A) : LLILYDAIGTLADSVGHHLNKPEYIQMLMPPLIQKWNMLKDEDKDLFPLLECLSSVATALQSGFLPYCEPVYQRCVNLVQKTLAQAMLNNAQPDQYEAPDKDFMIVALDLLSGLAEGLGG` `___________551________________________________________594___600_________________________________________________________` `________________________________________________________________________________________________________________________` `2h4m(B) : NIEQLVARSNILTLMYQCMQDKMPEVRQSSFALLGDLTKACFQHVKPCIADFMPILGTNLNPEFISVCNNATWAIGEISIQMGIEMQPYIPMVLHQLVEIINRPNTPKTLLENTAITIGR` `:` `2ot8(A) : NIEQLVARSNILTLMYQCMQDKMPEVRQSSFALLGDLTKACFQHVKPCIADFMPILGTNLNPEFISVCNNATWAIGEISIQMGIEMQPYIPMVLHQLVEIINRPNTPKTLLENTAITIGR` `________________________________________________________________________________________________________________________` `_________________________________________________________________________________________________________________` `2h4m(B) : LGYVCPQEVAPMLQQFIRPWCTSLRNIRDNEEKDSAFRGICTMISVNPSGVIQDFIFFCDAVASWINPKDDLRDMFCKILHGFKNQVGDENWRRFSDQFPLPLKERLAAFYGV` `:` `2ot8(A) : LGYVCPQEVAPMLQQFIRPWCTSLRNIRDNEEKDSAFRGICTMISVNPSGVIQDFIFFCDAVASWINPKDDLRDMFCKILHGFKNQVGDENWRRFSDQFPLPLKERLAAFYGV` `_________________________________________________________________________________________________________________`

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)	9.9
Translation (A)	0.7
Closure (%)	2.6
Bending Residues ( green )	551 - 555 594 - 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: Hinge

PyMOL Script

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