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) 		2cmz (B)
  Conformer 2
(PDB) 		2cmz (C)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 104 0.67   37 - 51   177 - 189   191 - 260   267 - 268   402 - 405
2 174 0.5   3 - 36   190 - 190   261 - 266   269 - 401
3 125 0.35   52 - 176

Sequence


           ________________________________34_____________49_______________________________________________________________________ 
 2cmz(B) : KFTIVFPHNQKGNWKNVPSNYHYCPSSSDLNWHNDLIGTAIQVKMPKSHKAIQADGWMCHASKWVTTCDFRWYGPKYITQSIRSFTPSVEQCKESIEQTKQGTWLNPGFPPQSCGYATVT 
         :                                                                                                                          
 2cmz(C) : KFTIVFPHNQKGNWKNVPSNYHYCPSSSDLNWHNDLIGTAIQVKMPKSHKAIQADGWMCHASKWVTTCDFRWYGPKYITQSIRSFTPSVEQCKESIEQTKQGTWLNPGFPPQSCGYATVT 
           ________________________________34_____________49_______________________________________________________________________ 

           _________________________________________________172______________189___________________________________________________ 
 2cmz(B) : DAEAVIVQVTPHHVLVDEYTGEWVDSQFINGKCSNYICPTVHNSTTWHSDYKVKGLCDSNLISMDITFFSEDGELSSLGKEGTGFRSNYFAYETGGKACKMQYCKHWGVRLPSGVWFEMA 
         :                                                                                                                          
 2cmz(C) : DAEAVIVQVTPHHVLVDEYTGEWVDSQFINGKCSNYICPTVHNSTTWHSDYKVKGLCDSNLISMDITFFSEDGELSSLGKEGTGFRSNYFAYETGGKACKMQYCKHWGVRLPSGVWFEMA 
           _________________________________________________172______________189___________________________________________________ 

           _________________260____________________________________________________________________________________________________ 
 2cmz(B) : DKDLFAAARFPECPEGSSISAPSQTSVDVSLIQDVERILDYSLCQETWSKIRAGLPISPVDLSYLAPKNPGTGPAFTIINGTLKYFETRYIRVDIAAPILSRMVGMISGTTTERELWDDW 
         :                                                                                                                          
 2cmz(C) : DKDLFAAARFPECPEGSSISAPSQTSVDVSLIQDVERILDYSLCQETWSKIRAGLPISPVDLSYLAPKNPGTGPAFTIINGTLKYFETRYIRVDIAAPILSRMVGMISGTTTERELWDDW 
           _________________260____________________________________________________________________________________________________ 

           ____________________________________399___________                                                                       
 2cmz(B) : APYEDVEIGPNGVLRTSSGYKFPLYMIGHGMLDSDLHLSSKAQVFEHPHI                                                                       
         :                                                                                                                          
 2cmz(C) : APYEDVEIGPNGVLRTSSGYKFPLYMIGHGMLDSDLHLSSKAQVFEHP**                                                                       
           ____________________________________399___________                                                                       

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) 		9.1
Translation
(A) 		-0.4
Closure
(%) 		56.2
Bending Residues
( green ) 		  34 - 37
  189 - 194
  260 - 269
  399 - 402
Bending Region Analysis
Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( yellow ) 		3
Rotation Angle
(deg) 		8.7
Translation
(A) 		-0.1
Closure
(%) 		56.7
Bending Residues
( green ) 		  49 - 55
  172 - 179
Bending Region Analysis

Dynamic Contact Graph

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

PyMOL Script

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