Inorganic Polyphosphate/atp-Nad 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 Inorganic Polyphosphate/atp-Nad Kinase
  Conformer 1
(PDB)
1yt5 (A)
  Conformer 2
(PDB)
1yt5 (D)
  Window Length 7
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 147 0.38   105 - 240   242 - 242   244 - 253
2 103 1.0   4 - 104   241 - 241   243 - 243

Sequence


           _____________________________________________________________________________________________________104________________ 
 1yt5(A) : MKIAILYREEREKEGEFLKEKISKEHEVIEFGEANAPGRVTADLIVVVGGDGTVLKAAKKAADGTPMVGFKAGRLGFLTSYTLDEIDRFLEDLRNWNFREETRWFIQIESELGNHLALND 
         :                                                                                                                          
 1yt5(D) : MKIAILYREEREKEGEFLKEKISKEHEVIEFGEANAPGRVTADLIVVVGGDGTVLKAAKKAADGTPMVGFKAGRLGFLTSYTLDEIDRFLEDLRNWNFREETRWFIQIESELGNHLALND 
           _____________________________________________________________________________________________________104________________ 

           _____________________________________________________________________________________________________________232________ 
 1yt5(A) : VTLERDLSGKMVEIEVEVEHHSSMWFFADGVVISTPTGSTAYSLSIGGPIIFPECEVLEISPIAPQFFLTRSVVIPSNFKVVVESQRDINMLVDGVLTGKTKRIEVKKSRRYVRILRPPE 
         :                                                                                                                          
 1yt5(D) : VTLERDLSGKMVEIEVEVEHHSSMWFFADGVVISTPTGSTAYSLSIGGPIIFPECEVLEISPIAPQFFLTRSVVIPSNFKVVVESQRDINMLVDGVLTGKTKRIEVKKSRRYVRILRPPE 
           _____________________________________________________________________________________________________________232________ 

           ________________                                                                                                         
 1yt5(A) : YDYVTVIRDKLGYGRR                                                                                                         
         :                                                                                                                          
 1yt5(D) : YDYVTVIRDKLGYGRR                                                                                                         
           ________________                                                                                                         

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
7.8
Translation
(A)
0.0
Closure
(%)
99.4
Bending Residues
( green )
  104 - 105
  232 - 244
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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