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 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 309 19.55   3 - 5   7 - 9   22 - 274   299 - 308   311 - 315   326 - 330   357 - 358   363 - 364   373 - 373   382 - 382   384 - 407
2 96 0.78   6 - 6   10 - 21   275 - 298   309 - 310   316 - 325   331 - 356   359 - 362   365 - 372   374 - 381   383 - 383

Sequence


           __3________________21___________________________________________________________________________________________________ 
 2j6j(A) : KFTIVFPHNQKGNWKNVPSNYHYCPSSSDLNWHNDLIGTAIQVKMPKSHKAIQADGWMCHASKWVTTCDFRWYGPKYITQSIRSFTPSVEQCKESIEQTKQGTWLNPGFPPQSCGYATVT 
         :                                                                                                                          
 2cmz(A) : KFTIVFPHNQKGNWKNVPSNYHYCPSSSDLNWHNDLIGTAIQVKMPKSHKAIQADGWMCHASKWVTTCDFRWYGPKYITQSIRSFTPSVEQCKESIEQTKQGTWLNPGFPPQSCGYATVT 
           __3________________21___________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 2j6j(A) : DAEAVIVQVTPHHVLVDEYTGEWVDSQFINGKCSNYICPTVHNSTTWHSDYKVKGLCDSNLISMDITFFSEDGELSSLGKEGTGFRSNYFAYETGGKACKMQYCKHWGVRLPSGVWFEMA 
         :                                                                                                                          
 2cmz(A) : DAEAVIVQVTPHHVLVDEYTGEWVDSQFINGKCSNYICPTVHNSTTWHSDYKVKGLCDSNLISMDITFFSEDGELSSLGKEGTGFRSNYFAYETGGKACKMQYCKHWGVRLPSGVWFEMA 
           ________________________________________________________________________________________________________________________ 

           _______________________________274_____________________298________________________325____________________________356___3 
 2j6j(A) : DKDLFAAARFPECPEGSSISAPSQTSVDVSLIQDVERILDYSLCQETWSKIRAGLPISPVDLSYLAPKNPGTGPAFTIINGTLKYFETRYIRVDIAAPILSRMVGMISGTTTERELWDDW 
         :                                                                                                                          
 2cmz(A) : DKDLFAAARFPECPEGSSISAPSQTSVDVSLIQDVERILDYSLCQETWSKIRAGLPISPVDLSYLAPKNPGTGPAFTIINGTLKYFETRYIRVDIAAPILSRMVGMISGTTTERELWDDW 
           _______________________________274_____________________298________________________325____________________________356___3 

           62_______372______381________________________________                                                                    
 2j6j(A) : APYEDVEIGPNGVLRTSSGYKFPLYMIGHGMLDSDLHLSSKAQVFEHPHIQDA                                                                    
         :                                                                                                                          
 2cmz(A) : APYEDVEIGPNGVLRTSSGYKFPLYMIGHGMLDSDLHLSSKAQVFEHPH****                                                                    
           62_______372______381________________________________                                                                    

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) 		176.2
Translation
(A) 		-8.7
Closure
(%) 		4.1
Bending Residues
( green ) 		  3 - 14
  21 - 35
  274 - 276
  298 - 316
  325 - 331
  356 - 359
  362 - 365
  372 - 374
  381 - 390
Bending Region Analysis

Dynamic Contact Graph

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

PyMOL Script

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