D-Allose-Binding Periplasmic 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 D-Allose-Binding Periplasmic Protein
  Conformer 1
(PDB)
1gub (A)
  Conformer 2
(PDB)
1rpj (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 147 0.54   3 - 112   246 - 282
2 137 0.66   113 - 245   283 - 286

Sequence


           _____________________________________________________________________________________________________________112________ 
 1gub(A) : AAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVMPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAK 
         :                                                                                                                          
 1rpj(A) : AAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVMPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAK 
           _____________________________________________________________________________________________________________112________ 

           ________________________________________________________________________________________________________________________ 
 1gub(A) : GASFIIDKLGAEGGEVAIIEGKAGNASGEARRNGATEAFKKASQIKLVASQPADWDRIKALDVATNVLQRNPNIKAIYCANDTMAMGVAQAVANAGKTGKVLVVGTDGIPEARKMVEAGQ 
         :                                                                                                                          
 1rpj(A) : GASFIIDKLGAEGGEVAIIEGKAGNASGEARRNGATEAFKKASQIKLVASQPADWDRIKALDVATNVLQRNPNIKAIYCANDTMAMGVAQAVANAGKTGKVLVVGTDGIPEARKMVEAGQ 
           ________________________________________________________________________________________________________________________ 

           __245_________________________________281_______                                                                         
 1gub(A) : MTATVAQNPADIGATGLKLMVDAEKSGKVIPLDKAPEFKLVDSILVTQ                                                                         
         :                                                                                                                          
 1rpj(A) : MTATVAQNPADIGATGLKLMVDAEKSGKVIPLDKAPEFKLVDSILVTQ                                                                         
           __245_________________________________281_______                                                                         

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)
37.0
Translation
(A)
0.7
Closure
(%)
82.6
Bending Residues
( green )
  112 - 114
  245 - 246
  281 - 285
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

PyMOL Script

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