Nucleoside Diphosphate Kinase

(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 Nucleoside Diphosphate Kinase
  Conformer 1
(PDB)
2az1 (F)
  Conformer 2
(PDB)
2az3 (I)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 117 0.3   7 - 43   73 - 135   137 - 153
2 25 0.41   44 - 72   136 - 136

Sequence


           _______________________________________43___________________________72__________________________________________________ 
 2az1(F) : DHDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEH-----fDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSD 
         :                                                                                                                          
 2az3(I) : **DERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSD 
           _______________________________________43___________________________72__________________________________________________ 

           __________135_______________________                                                                                     
 2az1(F) : HEDEGANEREIALFFDDDELVDWDRDASAWVYEDLA                                                                                     
         :                                                                                                                          
 2az3(I) : HEDEGANEREIALFFDDDELVDWDRDASAWVYE***                                                                                     
           __________135_______________________                                                                                     

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
5.2
Translation
(A)
-0.1
Closure
(%)
68.7
Bending Residues
( green )
  43 - 44
  72 - 73
  135 - 143
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Shear

PyMOL Script

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