Transitional Endoplasmic Reticulum Atpase

(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 Transitional Endoplasmic Reticulum Atpase
  Conformer 1
(PDB)
1ypw (B)
  Conformer 2
(PDB)
1yqi (C)
  Window Length 7
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 631 4.92   30 - 684
2 27 4.12   685 - 736

Sequence


           ________________________________________________________________________________________________________________________ 
 1ypw(B) : LKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLLKGKKRREAVCIVLSDDTCSDEKIRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLK 
         :                                                                                                                          
 1yqi(C) : **********IVDEAINEDNSVVSLSQPK-dELQLFRGDTVLLKGKKRREAVCIVLSDDTCSDEKIR-nRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLK 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1ypw(B) : PYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPDTVIHCEGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIAR 
         :                                                                                                                          
 1yqi(C) : PYFLEAYRPIRKGDIFLVRGG-rAVEFKVVETDPSPYCIVAPDTVIHCEGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKE-vELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIAR 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1ypw(B) : AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 
         :                                                                                                                          
 1yqi(C) : AVANETGAFFFLINGPEI-sKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTL-dGLKQRAHVIV-aATNRPNSIDPALRRFGRFDREVDIGIPDATG 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1ypw(B) : RLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYP 
         :                                                                                                                          
 1yqi(C) : RLEILQIHTKN-kLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKK-dLIDLEDETIDAEV-nSLAVT-dDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYP 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1ypw(B) : VEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTE----MDnVF 
         :                                                                                                                          
 1yqi(C) : VEHPDKFLKFG-tPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLT-wFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEdGsTKKNVF 
           ________________________________________________________________________________________________________________________ 

           _______________________________________________________________684__________________________________________________     
 1ypw(B) : IIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS----dVDLEFLAKMTNGFSGADLTEICQRACKLAIRESpVPEIRRDHFEEAMRF****************     
         :                                                                                                                          
 1yqi(C) : IIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAK-tNGFSGADLTEICQRACKLAIRES-vPEIRRDHFEEA-rFARRSVSDNDIRKYEfA     
           _______________________________________________________________684__________________________________________________     

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)
81.4
Translation
(A)
7.0
Closure
(%)
89.7
Bending Residues
( green )
  684 - 685
Bending Region Analysis

Dynamic Contact Graph

The dynamic contact graph is still being generated. Progress: Initialising

PyMOL Script

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