Glutamate Receptor, Ionotropic Kainate 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 Glutamate Receptor, Ionotropic Kainate 1
  Conformer 1
(PDB) 		6jfz (A)
  Conformer 2
(PDB) 		6jfy (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 510 1.56   5 - 505   734 - 769
2 100 1.17   506 - 514   641 - 730   770 - 770
3 66 1.97   515 - 529   604 - 638   771 - 802

Sequence


           ________________________________________________________________________________________________________________________ 
 6jfz(A) : HVIRIGGIFEYADGPNAQVMNAEEHAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLALGVVAIFGPSQGSTTNAVQSICNALEVPHIQLRWKHHPLDNKDTFYVNLY 
         :                                                                                                                          
 6jfy(A) : HVIRIGGIFEYADGPNAQVMNAEEHAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLALGVVAIFGPSQGSTTNAVQSICNALEVPHIQLRWKHHPLDNKDTFYVNLY 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 6jfz(A) : PDYASLSHAILDLVQSLKWRSATVVYDDSTGLIRLQELIMAPSRYNIRLKIRQLPIDSDDSRPLLKEMKRGREFRIIFDCSHTMAAQILKQAMAMGMMTEYYHFIFTTLDLYALDLEPYR 
         :                                                                                                                          
 6jfy(A) : PDYASLSHAILDLVQSLKWRSATVVYDDSTGLIRLQELIMAPSRYNIRLKIRQLPIDSDDSRPLLKEMKRGREFRIIFDCSHTMAAQILKQAMAMGMMTEYYHFIFTTLDLYALDLEPYR 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 6jfz(A) : YSGVNLTGFRILNVDNPHVSAIVEKWSMERLQgVMMTDAALLYDAVHIVSVTYQRAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEK 
         :                                                                                                                          
 6jfy(A) : YSGVNLTGFRILNVDNPHVSAIVEKWSMERLQgVMMTDAALLYDAVHIVSVTYQRAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEK 
           ________________________________________________________________________________________________________________________ 

           __________________________________________________________________________________________________________________505___ 
 6jfz(A) : VGVWSPADGLNItNRSLIVTTLLEEPFVMFRKSDRTLYGNDRFEGYCIDLLKELAHILGFSYEIRLVEDGKYGAQDDKGQWNGMVKELIDHKADLAVAPLTITHVREKAIDFSKPFMTLG 
         :                                                                                                                          
 6jfy(A) : VGVWSPADGLNI-nRSLIVTTLLEEPFVMFRKSDRTLYGNDRFEGYCIDLLKELAHILGFSYEIRLVEDGKYGAQDDKGQWNGMVKELIDHKADLAVAPLTITHVREKAIDFSKPFMTLG 
           __________________________________________________________________________________________________________________505___ 

           ___514__________________________________________________________________________638_____________________________________ 
 6jfz(A) : VSILYRKPNGTNPSVFSFLNPLSPDIWMYVLLAYLGVSVVLFVIARlSTRIIGGIWWFFTLIIISSYTANLAAFLTVERMESPIDSADDLAKQTKIEYGAVKDGATMTFFKKSKISTFEK 
         :                                                                                                                          
 6jfy(A) : VSILYRKPNGTNPSVFSFLNPLSPDIWMYVLLAYLGVSVVLFVIARlSTRIIGGIWWFFTLIIISSYTANLAAFLTVERMESPIDSADDLAKQTKIEYGAVKDGATMTFFKKSKISTFEK 
           ___514__________________________________________________________________________638_____________________________________ 

           ____________________________________________________730___________________________________768__________________________  
 6jfz(A) : MWAFMSSKpSALVKNNeEGIQRTLTADYALLMESTTIEYITQRNCNLTQIGGLIDSKGYGIGTPMGSPYRDKITIAILQLQEEDKLHIMKEKWWRG-qKIGGIFIVLAAGLVLSVLVAV  
         :                                                                                                                          
 6jfy(A) : MWAFMSSKPSALVKNNEEGIQRTLTADYALLMESTTIEYITQRNCNLTQIGGLIDSKGYGIGTPMGSPYRDKITIAILQLQEEDKLHIMKEKWWRGSqKIGGIFIVLAAGLVLSVLVAV  
           ____________________________________________________730___________________________________768__________________________  

Morph

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Domain Pairs

Fixed Domain Moving Domain Rotation Angle Translation   (A) Closure Bending Residues  
1 2 21.2 1.3 97.8   505 - 506   730 - 734   768 - 770 Bending Region Analysis
1 3 14.9 4.1 76.7   768 - 771 Bending Region Analysis
3 2 26.3 -0.5 87.6   514 - 517   638 - 641   770 - 771 Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification:

No Contacts

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification:

No Contacts

Conformer 1 Contact:
Residue 3 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 3

Movement classification:

No Contacts

PyMOL Script

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