DNA Polymerase IV

(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
  Conformer 1
(PDB)
4f50 (A)
  Conformer 2
(PDB)
1k1s (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 240 1.63   3 - 246   277 - 277
2 89 1.02   247 - 276   282 - 340

Sequence


           ________________________________________________________________________________________________________________________ 
 4f50(A) : MIVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYS--sGAVATANYEARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEGNFENGI 
         :                                                                                                                          
 1k1s(A) : MIVIFVDFDYFFAQVEEVLNPQYKGKPLVVSVYSGtSGAVATANYEARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNKVEGNFENGI 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 4f50(A) : ELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYSEPVENKSK 
         :                                                                                                                          
 1k1s(A) : ELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYSEPVENKSK 
           ________________________________________________________________________________________________________________________ 

           246___________________________276_____________________________________________________________________                   
 4f50(A) : IPHGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQKILEEDERK-IRRIGVRFSKFI**                   
         :                                                                                                                          
 1k1s(A) : IPHGRYLTLPYNTRDVKVILPYLKKAINEAYNKVNG-IPMRITVIAIMEDLDILSKGKKFKHGISIDNAYKVAEDLLRELLVRDKRRNVRRIGVKLDNIIIN                   
           246___________________________276_____________________________________________________________________                   

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
22.6
Translation
(A)
-1.0
Closure
(%)
57.2
Bending Residues
( green )
  246 - 247
  276 - 282
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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