DNA Polymerase III, Delta Subunit

(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, Delta Subunit
  Conformer 1
(PDB)
1xxh (F)
  Conformer 2
(PDB)
1jr3 (D)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 205 1.15   4 - 209
2 124 0.33   210 - 336

Sequence


           ________________________________________________________________________________________________________________________ 
 1xxh(F) : *IRLYPEQLRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDPNTDWNAIFSLCQA-sLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKA 
         :                                                                                                                          
 1jr3(D) : MIRLYPEQLRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDPNTDWNAIFSLCQAMSLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKA 
           ________________________________________________________________________________________________________________________ 

           ______________________________________________________________________________________209_______________________________ 
 1xxh(F) : QENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQLNLELDDAANQVLCYCYEGNLLALAQALERLSLLWPDGKLTLPRVEQAVNDAAHFTPFHWVDALL-gKSKRALHILQQLRLEG 
         :                                                                                                                          
 1jr3(D) : QENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQLNLELDDAANQVLCYCYEGNLLALAQALERLSLLWPDGKLTLPRVEQAVNDAAHFTPFHWVDALLMGKSKRALHILQQLRLEG 
           ______________________________________________________________________________________209_______________________________ 

           __________________________________________________________________________________________________                       
 1xxh(F) : SEPVILLRTLQRELLLLVNLKRQSAHTPLRALFDKHRVWQNRRG--gEALNRLSQTQLRQAVQLLTRTELTLKQDYGQSVWAELEGLSLLLCHKPLAD                       
         :                                                                                                                          
 1jr3(D) : SEPVILLRTLQRELLLLVNLKRQSAHTPLRALFDKHRVWQNRRGMMGEALNRLSQTQLRQAVQLLTRTELTLKQDYGQSVWAELEGLSLLLCHKPLAD                       
           __________________________________________________________________________________________________                       

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
23.8
Translation
(A)
0.4
Closure
(%)
12.8
Bending Residues
( green )
  209 - 212
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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