Capsid Protein

(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 Capsid Protein
  Conformer 1
(PDB)
2gh8 (C)
  Conformer 2
(PDB)
2gh8 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 432 1.17   162 - 208   225 - 250   298 - 307   344 - 365   369 - 639   646 - 701
2 108 1.84   209 - 224   251 - 297   308 - 343   366 - 368   640 - 645

Sequence


           ______________________________________________208_____________224______________________249______________________________ 
 2gh8(C) : EIVTEEQGTVVQQQPAPAPTALATLATASTGKSVEQEWMTFFSYHTSINWSTVESQGKILYSQALNPSINPYLDHIAKLYSTWSGGIDVRFTVSGSGVFGGKLAALLVPPGVEPIESVSM 
         :                                                                                                                          
 2gh8(A) : EIVTEEQGTVVQQQPAPAPTALATLATASTGKSVEQEWMTFFSYHTSINWSTVESQGKILYSQALNPSINPYLDHIAKLYSTWSGGIDVRFTVSGSGVFGGKLAALLVPPGVEPIESVSM 
           ______________________________________________208_____________224______________________249______________________________ 

           _______________297_______307_________________________________343___________________365__________________________________ 
 2gh8(C) : LQYPHVLFDARQTEPVIFTIPDIRKTLFHSMDETDTTKLVIMVYNELINPYENGVENKTTCSITVETRPSADFTFALLKPPGSLIKHGSIPSDLIPRNSAHWMGNRWWSTISGFSVQPRV 
         :                                                                                                                          
 2gh8(A) : LQYPHVLFDARQTEPVIFTIPDIRKTLFHSMDETDTTKLVIMVYNELINPYENGVENKTTCSITVETRPSADFTFALLKPPGSLIKHGSIPSDLIPRNSAHWMGNRWWSTISGFSVQPRV 
           _______________297_______307_________________________________343___________________365__________________________________ 

           ________________________________________________________________________________________________________________________ 
 2gh8(C) : FQSNRHFDFDSTTTGWSTPYYVPIEIKIQGKVGSNNKWFHVIDTDKALVPGIPDGWPDTTIPDETKATNGNFSYGESYRAGSTTIKPNENSTHFKGTYICGTLSTVEIPENDEQQIKTEA 
         :                                                                                                                          
 2gh8(A) : FQSNRHFDFDSTTTGWSTPYYVPIEIKIQGKVGSNNKWFHVIDTDKALVPGIPDGWPDTTIPDETKATNGNFSYGESYRAGSTTIKPNENSTHFKGTYICGTLSTVEIPENDEQQIKTEA 
           ________________________________________________________________________________________________________________________ 

           _____________________________________________________________________________________________________________________639 
 2gh8(C) : EKKSQTMYVVTADFKDTIVKPQHKISPQKLVVYFDGPEKDLTMSATLSPLGYTLVDEQPVGSVSSRVVRIATLPEAFTQGGNYPIFYVNKIKVGYFDRATTNCYNSQILMTSQRLAEGNY 
         :                                                                                                                          
 2gh8(A) : EKKSQTMYVVTADFKDTIVKPQHKISPQKLVVYFDGPEKDLTMSATLSPLGYTLVDEQPVGSVSSRVVRIATLPEAFTQGGNYPIFYVNKIKVGYFDRATTNCYNSQILMTSQRLAEGNY 
           _____________________________________________________________________________________________________________________639 

           ___645__________________________________________________________                                                         
 2gh8(C) : NLPPDSLAVYRITDSSSQWFDIGINHDGFSYVGLSDLPNDLSFPLTSTFMGVQLARVKLASKVK                                                         
         :                                                                                                                          
 2gh8(A) : NLPPDSLAVYRITDSSSQWFDIGINHDGFSYVGLSDLPNDLSFPLTSTFMGVQLARVKLASKVK                                                         
           ___645__________________________________________________________                                                         

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
13.7
Translation
(A)
-0.5
Closure
(%)
89.2
Bending Residues
( green )
  208 - 209
  224 - 225
  249 - 251
  297 - 298
  307 - 308
  343 - 344
  365 - 366
  368 - 369
  639 - 640
  645 - 646
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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