Spike Glycoprotein

(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 Spike Glycoprotein
  Conformer 1
(PDB) 		2j6j (A)
  Conformer 2
(PDB) 		2cmz (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 120 0.71   4 - 21   275 - 298   305 - 313   315 - 383
2 128 7.55   22 - 47   180 - 274   299 - 304   314 - 314
3 22 6.62   384 - 405
4 132 1.96   48 - 179

Sequence


           ___________________21________________________47_________________________________________________________________________ 
 2j6j(A) : KFTIVFPHNQKGNWKNVPSNYHYCPSSSDLNWHNDLIGTAIQVKMPKSHKAIQADGWMCHASKWVTTCDFRWYGPKYITQSIRSFTPSVEQCKESIEQTKQGTWLNPGFPPQSCGYATVT 
         :                                                                                                                          
 2cmz(B) : KFTIVFPHNQKGNWKNVPSNYHYCPSSSDLNWHNDLIGTAIQVKMPKSHKAIQADGWMCHASKWVTTCDFRWYGPKYITQSIRSFTPSVEQCKESIEQTKQGTWLNPGFPPQSCGYATVT 
           ___________________21________________________47_________________________________________________________________________ 

           ___________________________________________________174__________________________________________________________________ 
 2j6j(A) : DAEAVIVQVTPHHVLVDEYTGEWVDSQFINGKCSNYICPTVHNSTTWHSDYKVKGLCDSNLISMDITFFSEDGELSSLGKEGTGFRSNYFAYETGGKACKMQYCKHWGVRLPSGVWFEMA 
         :                                                                                                                          
 2cmz(B) : DAEAVIVQVTPHHVLVDEYTGEWVDSQFINGKCSNYICPTVHNSTTWHSDYKVKGLCDSNLISMDITFFSEDGELSSLGKEGTGFRSNYFAYETGGKACKMQYCKHWGVRLPSGVWFEMA 
           ___________________________________________________174__________________________________________________________________ 

           _______________________________274_____________________298____________313_______________________________________________ 
 2j6j(A) : DKDLFAAARFPECPEGSSISAPSQTSVDVSLIQDVERILDYSLCQETWSKIRAGLPISPVDLSYLAPKNPGTGPAFTIINGTLKYFETRYIRVDIAAPILSRMVGMISGTTTERELWDDW 
         :                                                                                                                          
 2cmz(B) : DKDLFAAARFPECPEGSSISAPSQTSVDVSLIQDVERILDYSLCQETWSKIRAGLPISPVDLSYLAPKNPGTGPAFTIINGTLKYFETRYIRVDIAAPILSRMVGMISGTTTERELWDDW 
           _______________________________274_____________________298____________313_______________________________________________ 

           ___________________382_______________________________                                                                    
 2j6j(A) : APYEDVEIGPNGVLRTSSGYKFPLYMIGHGMLDSDLHLSSKAQVFEHPHIQDA                                                                    
         :                                                                                                                          
 2cmz(B) : APYEDVEIGPNGVLRTSSGYKFPLYMIGHGMLDSDLHLSSKAQVFEHPHI***                                                                    
           ___________________382_______________________________                                                                    

Morph
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Status: Initialising

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Domain Pairs

Fixed Domain Moving Domain Rotation Angle Translation   (A) Closure Bending Residues  
1 2 145.1 2.6 5.4   21 - 22   274 - 276   298 - 305   313 - 315 Bending Region Analysis
1 3 176.2 -10.9 37.2   382 - 384 Bending Region Analysis
2 4 107.1 5.8 75.1   47 - 52   174 - 180 Bending Region Analysis

Dynamic Contact Graph

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

PyMOL Script

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