DNA Polymerase III, Beta Chain

(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 III, Beta Chain
  Conformer 1
(PDB)
1mmi (A)
  Conformer 2
(PDB)
1jql (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 239 1.53   118 - 224   233 - 364
2 123 0.95   3 - 117   225 - 232

Sequence


           _________________________________________________________________________________________________________________116____ 
 1mmi(A) : MKFTVEREHLLKPLQQVSGPLGGRPTLPILGNLLLQVADGTLSLTGTDLEMEMVARVALVQPHEPGATTVPARKFFDICRGLPEGAEIAVQLEGERMLVRSGRSRFSLSTLPAADFPNLD 
         :                                                                                                                          
 1jql(A) : MKFTVEREHLLKPLQQVSGPLGGRPTLPILGNLLLQVADGTLSLTGTDLEMEMVARVALVQPHEPGATTVPARKFFDICRGLPEGAEIAVQLEGERMLVRSGRSRFSLSTLPAADFPNLD 
           _________________________________________________________________________________________________________________116____ 

           _____________________________________________________________________________________________________224_____232________ 
 1mmi(A) : DWQSEVEFTLPQATMKRLIEATQFSMAHQDVRYYLNGMLFETEGEELRTVATDGHRLAVCSMPIGQSLPSHSVIVPRKGVIELMRMLDGGDNPLRVQIGSNNIRAHVGDFIFTSKLVDGR 
         :                                                                                                                          
 1jql(A) : DWQSEVEFTLPQATMKRLIEATQFSMAHQDVRYYLNGMLFETEGEELRTVATDGHRLAVCSMPIGQSLPSHSVIVPRKGVIELMRMLDGGDNPLRVQIGSNNIRAHVGDFIFTSKLVDGR 
           _____________________________________________________________________________________________________224_____232________ 

           ________________________________________________________________________________________________________________________ 
 1mmi(A) : FPDYRRVLPKNPDKHLEAGCDLLKQAFARAAILSNEKFRGVRLYVSENQLKITANNPEQEEAEEILDVTYSGAEMEIGFNVSYVLDVLNALKCENVRMMLTDSVSSVQIEDAASQSAAYV 
         :                                                                                                                          
 1jql(A) : FPDYRRVLPKNPDKHLEAGCDLLKQAFARAAAASNEKFRGVRLYVSENQLKITANNPEQEEAEEILDVTYSGAEMEIGFNVSYVLDVLNALKCENVRMMLTDSVSSVQIEDAASQSAAYV 
           ________________________________________________________________________________________________________________________ 

           ______                                                                                                                   
 1mmi(A) : VMPMRL                                                                                                                   
         :                                                                                                                          
 1jql(A) : VMPMRL                                                                                                                   
           ______                                                                                                                   

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
13.7
Translation
(A)
-0.6
Closure
(%)
78.2
Bending Residues
( green )
  116 - 122
  224 - 225
  232 - 233
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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