DNA Polymerase IV (Family Y)

(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 IV (Family Y)
  Conformer 1
(PDB)
2rdi (A)
  Conformer 2
(PDB)
3bq0 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 241 3.62   3 - 247   275 - 276
2 90 1.03   248 - 274   277 - 340

Sequence


           ________________________________________________________________________________________________________________________ 
 2rdi(A) : MIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFsG---AVATANYEARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVR-DYREAY 
         :                                                                                                                          
 3bq0(A) : MIVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGtSGAVATANYEARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEGNFENGI 
           ________________________________________________________________________________________________________________________ 

           _________________________________________________________________________________________________________________238____ 
 2rdi(A) : NLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRVR 
         :                                                                                                                          
 3bq0(A) : ELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYSEPVENKSK 
           _________________________________________________________________________________________________________________239____ 

           _____________________________274______________________________________________________________________                   
 2rdi(A) : KSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQKILEEDERK-IRRIGVRFSKFIT*                   
         :                                                                                                                          
 3bq0(A) : IPHGRYLTLPYNTRDVKVILPYLKKAINEAYNKVNG-IPMRITVIAIMEDLDILSKGKKFKHGISIDNAYKVAEDLLRELLVRDKRRNVRRIGVKLDNIIIN                   
           _____________________________275______________________________________________________________________                   

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
169.2
Translation
(A)
-6.8
Closure
(%)
4.4
Bending Residues
( green )
  238 - 248
  274 - 278
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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