Adenylate 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 Adenylate Kinase
  Conformer 1
(PDB)
1s3g (A)
  Conformer 2
(PDB)
4ake (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 131 2.38   3 - 29   63 - 123   164 - 211
2 33 1.19   30 - 62
3 40 1.06   124 - 163

Sequence


           ___________________________29_______________________________62__________________________________________________________ 
 1s3g(A) : MNIVLMGLPGAGKGTQADRIVEKYGTPHISTGDMFRAAIQEGTELGVKAKSFMDQGALVPDEVTIGIVRERLSKSDCDNGFLLDGFPRTVPQAEALDQLLADMGRKIEHVLNIQVEKEEL 
         :                                                                                                                          
 4ake(A) : MRIILLGAPGAGKGTQAQFIMEKYGIPQISTGDMLRAAVKSGSELGKQAKDIMDAGKLVTDELVIALVKERIAQEDCRNGFLLDGFPRTIPQADA----MKEAGINVDYVLEFDVPDELI 
           ___________________________29_______________________________62__________________________________________________________ 

           123_____________________________________163____________________________________________________________                  
 1s3g(A) : IARLTGRRICKVCGTSYHLLFNPPQVEGKCDKDGGELYQRADDNPDTVTNRLEVNMNQTAPLLAFYDSKEV------LVNINGQKDIKDVFKDLDVILQGNGQ                  
         :                                                                                                                          
 4ake(A) : VDRIVGRRVHAPSGRVYHVKFNPPKVEGKDDVTGEELTTRKDDQEETVRKRLVEYHQMTAPLIGYY-SKEAEAGNTKYAKVDGTKPVAEVRADLEKILG****                  
           119_____________________________________159____________________________________________________________                  

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
50.9
Translation
(A)
0.8
Closure
(%)
100.0
Bending Residues
( green )
  29 - 30
  62 - 63
Bending Region Analysis
Property Value
Fixed Domain
( blue )
1
Moving Domain
( yellow )
3
Rotation Angle
(deg)
52.0
Translation
(A)
1.1
Closure
(%)
94.4
Bending Residues
( green )
  123 - 125
  163 - 164
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification: Hinge

PyMOL Script

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