D-Mandelate Dehydrogenase

(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-Mandelate Dehydrogenase
  Conformer 1
(PDB)
2w2k (A)
  Conformer 2
(PDB)
2w2k (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 205 0.25   110 - 314
2 135 0.37   4 - 109   315 - 343

Sequence


           _________________________________________________________________________________________________________109____________ 
 2w2k(A) : PRPRVLLLGDPARHLDDLWSDFQQKFEVIPANLTTHDGFKQALREKRYGDFEAIIKLAVENGTESYPWNADLISHLPSSLKVFAAAGAGFDWLDLDALNERGVAFANSRGAGDTATSDLA 
         :                                                                                                                          
 2w2k(B) : PRPRVLLLGDPARHLDDLWSDFQQKFEVIPANLTTHDGFKQALREKRYGDFEAIIKLAVENGTESYPWNADLISHLPSSLKVFAAAGAGFDWLDLDALNERGVAFANSRGAGDTATSDLA 
           _________________________________________________________________________________________________________109____________ 

           ________________________________________________________________________________________________________________________ 
 2w2k(A) : LYLILSVFRLASYSERAARTGDPETFNRVHLEIGKSAHNPRGHVLGAVGLGAIQKEIARKAVHGLGMKLVYYDVAPADAETEKALGAERVDSLEELARRSDCVSVSVPYMKLTHHLIDEA 
         :                                                                                                                          
 2w2k(B) : LYLILSVFRLASYSERAARTGDPETFNRVHLEIGKSAHNPRGHVLGAVGLGAIQKEIARKAVHGLGMKLVYYDVAPADAETEKALGAERVDSLEELARRSDCVSVSVPYMKLTHHLIDEA 
           ________________________________________________________________________________________________________________________ 

           _____________________________________________________________________313_________________________________                
 2w2k(A) : FFAAMKPGSRIVNTARGPVISQDALIAALKSGKLLSAGLDVHEFEPQVSKELIEMKHVTLTTHIGGVAIETFHEFERLTMTNIDRFLLQGKPLLTPAGKVFAPSS                
         :                                                                                                                          
 2w2k(B) : FFAAMKPGSRIVNTARGPVISQDALIAALKSGKLLSAGLDVHEFEPNVSKELIEMKHVTLTTHIGGVAIETFHEFERLTMTNIDRFLLQGKPLLTPAGKVFAPS*                
           _____________________________________________________________________313_________________________________                

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
10.8
Translation
(A)
0.3
Closure
(%)
96.9
Bending Residues
( green )
  109 - 110
  313 - 315
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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