DNA Topoisomerase III

(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 Topoisomerase III
  Conformer 1
(PDB)
1i7d (A)
  Conformer 2
(PDB)
1d6m (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 368 1.07   196 - 515   521 - 568
2 231 1.59   3 - 195   516 - 520   569 - 607

Sequence


           ________________________________________________________________________________________________________________________ 
 1i7d(A) : MRLFIAEKPSLARAIADVLPKPHRKGDGFIECGNGQVVTWCIGHLLEQAQPDAYDSRYARWNLADLPIVPEKWQLQPRPSVTKQLNVIKRFLHEASEIVHAGDPDREGQLLVDEVLDYLQ 
         :                                                                                                                          
 1d6m(A) : MRLFIAEKPSLARAIADVLPKPHRKGDGFIECGNGQVVTWCIGHLLEQAQPDAYDSRYARWNLADLPIVPEKWQLQPRPSVTKQLNVIKRFLHEASEIVHAGDPDREGQLLVDEVLDYLQ 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________195_____________________________________________ 
 1i7d(A) : LAPEKRQQVQRCLINDLNPQAVERAIDRLRSNSEFVPLCVSALARARADWLYGINMTRAYTILGRNAGYQGVLSVGRVQTPVLGLVVRRDEEIENFVAKDFFEVKAHIVTPADERFTAIW 
         :                                                                                                                          
 1d6m(A) : LAPEKRQQVQRCLINDLNPQAVERAIDRLRSNSEFVPLCVSALARARADWLYGINMTRAYTILG------gVLSVGRVQTPVLGLVVRRDEEIENFVAKDFFEVKAHIVTPADERFTAIW 
           ________________________________________________________________________195_____________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1i7d(A) : QPSEACEPYQDEEGRLLHRPLAEHVVNRISGQPAIVTSYNDKRESESAPLPFSLSALQIEAAKRFGLSAQNVLDICQKLYETHKLITFPRSDCRYLPEEHFAGRHAVMNAISVHAPDLLP 
         :                                                                                                                          
 1d6m(A) : QPSEACEPYQDEEGRLLHRPLAEHVVNRISGQPAIVTSYNDKRESESAPLPFSLSALQIEAAKRFGLSAQNVLDICQKLYETHKLITYPRSDCRYLPEEHFAGRHAVMNAISVHAPDLLP 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1i7d(A) : QPVVDPDIRNRCWDDKKVDAHHAIIPTARSSAINLTENEAKVYNLIARQYLMQFCPDAVFRKCVIELDIAKGKFVAKARFLAEAGWRTLLGSKERDEENDGTPLPVVAKGDELLCEKGEV 
         :                                                                                                                          
 1d6m(A) : QPVVDPDIRNRCWDDKKVDAHHAIIPTARSSAINLTENEAKVYNLIARQYLMQFCPDAVFRKCVIELDIAKGKFVAKARFLAEAGWRTLLGSKERDEENDGTPLPVVAKGDELLCEKGEV 
           ________________________________________________________________________________________________________________________ 

           ______________________505____________________________________________________________568________________________________ 
 1i7d(A) : VERQTQPPRHFTDATLLSAMTGIARFVQDKDLKKILRATDGLGTEATRAGIIELLFKRGFLTKKGRYIHSTDAGKALFHSLPEMATRPDMTAHWESVLTQISEKQCRYQDFMQPLVGTLY 
         :                                                                                                                          
 1d6m(A) : VERQTQPPRHFTDATLLSAMTGIARFVQDKDLKKILRATDGLGTEATRAGIIELLFKRGFLTKKGRYIHSTDAGKALFHSLPEMATRPDMTAHWESVLTQISEKQCRYQDFMQPLVGTLY 
           ______________________505____________________________________________________________568________________________________ 

           ____________________                                                                                                     
 1i7d(A) : QLIDQAKRTPVRQFRGIVAP                                                                                                     
         :                                                                                                                          
 1d6m(A) : QLIDQAKRT***********                                                                                                     
           ____________________                                                                                                     

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
22.4
Translation
(A)
0.3
Closure
(%)
33.6
Bending Residues
( green )
  195 - 196
  505 - 525
  568 - 569
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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