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)
2w2l (D)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 205 0.39   110 - 314
2 135 0.38   4 - 109   315 - 343

Sequence


           _________________________________________________________________________________________________________108____________ 
 2w2k(A) : *PRPRVLLLGDPARHLDDLWSDFQQKFEVIPANLTTHDGFKQALREKRYGDFEAIIKLAVENGTESYPWNADLISHLPSSLKVFAAAGAGFDWLDLDALNERGVAFANSRGAGDTATSDL 
         :                                                                                                                          
 2w2l(D) : MPRPRVLLLGDPARHLDDLWSDFQQKFEVIPANLTTHDGFKQALREKRYGDFEAIIKLAVENGTESYPWNADIISHLPSSLKVFAAAGAGFDWLDLDALNERGVAFANSRGAGDTATSDL 
           _________________________________________________________________________________________________________108____________ 

           ________________________________________________________________________________________________________________________ 
 2w2k(A) : ALYLILSVFRLASYSERAARTGDPETFNRVHLEIGKSAHNPRGHVLGAVGLGAIQKEIARKAVHGLGMKLVYYDVAPADAETEKALGAERVDSLEELARRSDCVSVSVPYMKLTHHLIDE 
         :                                                                                                                          
 2w2l(D) : ALYLILSVFRLASYSERAARTGDPETFNRVHLEIGKSAHNPRGHVLGAVGLGAIQKEIARKAVHGLGMKLVYYDVAPADAETEKALGAERVDSLEELARRSDCVSVSVPYMKLTHHLIDE 
           ________________________________________________________________________________________________________________________ 

           ______________________________________________________________________313_________________________________               
 2w2k(A) : AFFAAMKPGSRIVNTARGPVISQDALIAALKSGKLLSAGLDVHEFEPQVSKELIEMKHVTLTTHIGGVAIETFHEFERLTMTNIDRFLLQGKPLLTPAGKVFAPSS               
         :                                                                                                                          
 2w2l(D) : AFFAAMKPGSRIVNTARGPVISQDALIAALKSGKLLSAGLDVHEFEPQVSKELIEMKHVTLTTHIGGVAIETFHEFERLTMTNIDRFLLQGKPLLTPAGKVFAPS*               
           ______________________________________________________________________313_________________________________               

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
12.5
Translation
(A)
0.2
Closure
(%)
99.0
Bending Residues
( green )
  108 - 112
  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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