D-Ribose-Binding 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-Ribose-Binding Protein
  Conformer 1
(PDB)
1urp (A)
  Conformer 2
(PDB)
2dri (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 137 0.43   102 - 234   266 - 269
2 130 0.6   3 - 101   235 - 265

Sequence


           __________________________________________________________________________________________________101___________________ 
 1urp(A) : KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRQATKGEVVSHIASDNVLGGKIAGDYIAKKA 
         :                                                                                                                          
 2dri(A) : KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRQATKGEVVSHIASDNVLGGKIAGDYIAKKA 
           __________________________________________________________________________________________________101___________________ 

           ______________________________________________________________________________________________________________233_______ 
 1urp(A) : GEGAKVIELQGIAGTSAARERGEGFQQAVAAHKFNVLASQPADFDRIKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGKSDVMVVGFDGTPDGEKAVNDGKLAATIAQLPDQI 
         :                                                                                                                          
 2dri(A) : GEGAKVIELQGIAGTSAARERGEGFQQAVAAHKFNVLASQPADFDRIKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGKSDVMVVGFDGTPDGEKAVNDGKLAATIAQLPDQI 
           ______________________________________________________________________________________________________________233_______ 

           ____________________263________                                                                                          
 1urp(A) : GAKGVETADKVLKGEKVQAKYPVDLKLVVKQ                                                                                          
         :                                                                                                                          
 2dri(A) : GAKGVETADKVLKGEKVQAKYPVDLKLVVKQ                                                                                          
           ____________________263________                                                                                          

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
41.3
Translation
(A)
0.4
Closure
(%)
62.7
Bending Residues
( green )
  101 - 104
  233 - 237
  263 - 267
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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