DNA Polymerase Eta

(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 DNA Polymerase Eta
  Conformer 1
(PDB)
1jih (A)
  Conformer 2
(PDB)
2r8j (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 303 0.8   3 - 90   92 - 96   101 - 114   126 - 272   274 - 299   382 - 395   426 - 434
2 119 0.87   91 - 91   97 - 100   115 - 125   396 - 425   435 - 507
3 83 0.67   273 - 273   300 - 381

Sequence


           __________________________________________________________________________________________90____96_100___________114____ 
 1jih(A) : **MSKFTWKELIQLGSPSKAYESSLACIAHIDMNAFFAQVEQMRCGLSKEDPVVCVQWNSIIAVSYAARKYGISRMDTIQEALKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQ 
         :                                                                                                                          
 2r8j(A) : GRMSKFTWKELIQLGSPSKAYESSLACIAHIDMNAFFAQVEQMRCGLSKEDPVVCVQWNSIIAVSYAARKYGISRMDTIQEALKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQ 
           __________________________________________________________________________________________90____96_100___________114____ 

           ____125_________________________________________________________________________________________________________________ 
 1jih(A) : ISVEDHKVSLEPYRRESRKALKIFKSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGGNYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVIL 
         :                                                                                                                          
 2r8j(A) : ISVEDHKVSLEPYRRESRKALKIFKSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGGNYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVIL 
           ____125_________________________________________________________________________________________________________________ 

           _______________________________272________________________299___________________________________________________________ 
 1jih(A) : ALGSQVCKGIRDSIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGGVLGKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRS 
         :                                                                                                                          
 2r8j(A) : ALGSQVCKGIRDSIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGGVLGKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRS 
           _______________________________272________________________299___________________________________________________________ 

           ____________________381___________395___________________________425__430________________________________________________ 
 1jih(A) : TSNIDPLKTADLAEKLFKLSRGRYGLPLSSRPVVKSMMSNKNLRGKSCNSIVDCISWLEVFCAELTSRIQDLEQEYNKIVIPRTVSISLKTKSYEVYRKSGPVAYKGINFQSHELLKVGI 
         :                                                                                                                          
 2r8j(A) : TSNIDPLKTADLAEKLFKLSRGRYGLPLSSRPVVKSMMSNKNLRGKSCNSIVDCISWLEVFCAELTSRIQDLEQEYNKIVIPRTVSISLKTKSYEVYRKSGPVAYKGINFQSHELLKVGI 
           ____________________381___________395___________________________425__430________________________________________________ 

           _______________________________                                                                                          
 1jih(A) : KFVTDLDIKGKNKSYYPLTKLSMTITNFDII                                                                                          
         :                                                                                                                          
 2r8j(A) : KFVTDLDIKGKNKSYYPLTKLSMTITNFDII                                                                                          
           _______________________________                                                                                          

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
9.5
Translation
(A)
-0.3
Closure
(%)
76.4
Bending Residues
( green )
  90 - 92
  96 - 97
  100 - 101
  114 - 115
  125 - 126
  395 - 396
  425 - 426
  430 - 436
Bending Region Analysis
Property Value
Fixed Domain
( blue )
1
Moving Domain
( yellow )
3
Rotation Angle
(deg)
8.2
Translation
(A)
-0.1
Closure
(%)
33.8
Bending Residues
( green )
  272 - 274
  299 - 300
  381 - 382
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

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

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

Movement classification: Shear

PyMOL Script

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