Diaminopimelic Acid 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 Diaminopimelic Acid Dehydrogenase
  Conformer 1
(PDB)
3dap (A)
  Conformer 2
(PDB)
1dap (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 232 0.68   3 - 144   171 - 183   242 - 318
2 84 0.58   145 - 170   184 - 241

Sequence


           ________________________________________________________________________________________________________________________ 
 3dap(A) : MTNIRVAIVGYGNLGRSVEKLIAKQPDMDLVGIFSRRATLDTKTPVFDVADVDKHADDVDVLFLCMGSATDIPEQAPKFAQFACTVDTYDNHRDIPRHRQVMNEAATAAGNVALVSTGWD 
         :                                                                                                                          
 1dap(B) : MTNIRVAIVGYGNLGRSVEKLIAKQPDMDLVGIFSRRATLDTKTPVFDVADVDKHADDVDVLFLCMGSATDIPEQAPKFAQFACTVDTYDNHRDIPRHRQVMNEAATAAGNVALVSTGWD 
           ________________________________________________________________________________________________________________________ 

           ____________________143________________________170___________________________________________________________________240 
 3dap(A) : PGMFSINRVYAAAVLAEHQQHTFWGPGLSQGHSDALRRIPGVQKAVQYTLPSEDALEKARRGEAGDLTGKQTHKRQCFVVADAADHERIENDIRTMPDYFVGYEVEVNFIDEATFDSEHT 
         :                                                                                                                          
 1dap(B) : PGMFSINRVYAAAVLAEHQQHTFWGPGLSQGHSDALRRIPGVQKAVQYTLPSEDALEKARRGEAGDLTGKQTHKRQCFVVADAADHERIENDIRTMPDYFVGYEVEVNFIDEATFDSEHT 
           ____________________143________________________170___________________________________________________________________240 

           ________________________________________________________________________________                                         
 3dap(A) : GMPHGGHVITTGDTGGFNHTVEYILKLDRNPDFTASSQIAFGRAAHRMKQQGQSGAFTVLEVAPYLLSPENLDDLIARDV                                         
         :                                                                                                                          
 1dap(B) : GMPHGGHVITTGDTGGFNHTVEYILKLDRNPDFTASSQIAFGRAAHRMKQQGQSGAFTVLEVAPYLLSPENLDDLIARDV                                         
           ________________________________________________________________________________                                         

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
43.3
Translation
(A)
-0.7
Closure
(%)
99.1
Bending Residues
( green )
  143 - 146
  170 - 185
  240 - 242
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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