Diaminopimelate Epimerase

(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 Diaminopimelate Epimerase
  Conformer 1
(PDB)
2gke (A)
  Conformer 2
(PDB)
1gqz (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 145 0.31   116 - 260
2 125 1.06   3 - 115   261 - 272

Sequence


           ________________________________________________________________________________________________________________115_____ 
 2gke(A) : MQFSKMHGLGNDFVVVDGVTQNVFFTPETIRRLANRHCGIGFDQLLIVEAPYDPELDFHYRIFNADGSEVSQCGNGARCFARFVTLKGLTNKKDISVSTQKGNMVLTVKDDNQIRVNMGE 
         :                                                                                                                          
 1gqz(A) : MQFSKMHGLGNDFVVVDGVTQNVFFTPETIRRLANRHCGIGFDQLLIVEAPYDPELDFHYRIFNADGSEVSQCGNGARCFARFVTLKGLTNKKDISVSTQKGNMVLTVKDDNQIRVNMGE 
           ________________________________________________________________________________________________________________115_____ 

           ________________________________________________________________________________________________________________________ 
 2gke(A) : PIWEPAKIPFTANKFEKNYILRTDIQTVLCGAVSMGNPHCVVQVDDIQTANVEQLGPLLESHERFPERVNAGFMQIINKEHIKLRVYERGAGETQACGSGACAAVAVGIMQGLLNNNVQV 
         :                                                                                                                          
 1gqz(A) : PIWEPAKIPFTANKFEKNYILRTDIQTVLCGAVSMGNPHCVVQVDDIQTANVEQLGPLLESHERFPERVNAGFMQIINKEHIKLRVYERGAGETQACGSGACAAVAVGIMQGLLNNNVQV 
           ________________________________________________________________________________________________________________________ 

           ________________259_______________                                                                                       
 2gke(A) : DLPGGSLMIEWNGVGHPLYMTGEATHIYDGFITL                                                                                       
         :                                                                                                                          
 1gqz(A) : DLPGGSLMIEWNGVGHPLYMTGEATHIYDGFITL                                                                                       
           ________________259_______________                                                                                       

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
18.1
Translation
(A)
0.8
Closure
(%)
53.2
Bending Residues
( green )
  115 - 117
  259 - 261
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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