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)
2w2l (A)
  Conformer 2
(PDB)
2w2l (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 201 0.25   111 - 311
2 140 0.32   4 - 110   312 - 344

Sequence


           ___________________________________________________________________________________________________________110__________ 
 2w2l(A) : MPRPRVLLLGDPARHLDDLWSDFQQKFEVIPANLTTHDGFKQALREKRYGDFEAIIKLAVENGTESYPWNADLISHLPSSLKVFAAAGAGFDWLDLDALNERGVAFANSRGAGDTATSDL 
         :                                                                                                                          
 2w2l(B) : *PRPRVLLLGDPARHLDDLWSDFQQKFEVIPANLTTHDGFKQALREKRYGDFEAIIKLAVENGTESYPWNADLISHLPSSLKVFAAAGAGFDWLDLDALNERGVAFANSRGAGDTATSDL 
           ___________________________________________________________________________________________________________110__________ 

           ________________________________________________________________________________________________________________________ 
 2w2l(A) : ALYLILSVFRLASYSERAARTGDPETFNRVHLEIGKSAHNPRGHVLGAVGLGAIQKEIARKAVHGLGMKLVYYDVAPADAETEKALGAERVDSLEELARRSDCVSVSVPYMKLTHHLIDE 
         :                                                                                                                          
 2w2l(B) : ALYLILSVFRLASYSERAARTGDPETFNRVHLEIGKSAHNPRGHVLGAVGLGAIQKEIARKAVHGLGMKLVYYDVAPADAETEKALGAERVDSLEELARRSDCVSVSVPYMKLTHHLIDE 
           ________________________________________________________________________________________________________________________ 

           ____________________________________________________________________311___________________________________               
 2w2l(A) : AFFAAMKPGSRIVNTARGPVISQDALIAALKSGKLLSAGLDVHEFEPQVSKELIEMKHVTLTTHIGGVAIETFHEFERLTMTNIDRFLLQGKPLLTPAGKVFAPSS               
         :                                                                                                                          
 2w2l(B) : AFFAAMKPGSRIVNTARGPVISQDALIAALKSGKLLSAGLDVHEFEPQVSKELIEMKHVTLTTHIGGVAIETFHEFERLTMTNIDRFLLQGKPLLTPAGKVFAPSS               
           ____________________________________________________________________311___________________________________               

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
3.5
Translation
(A)
-0.1
Closure
(%)
41.3
Bending Residues
( green )
  110 - 111
  311 - 312
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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