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)
1jqj (D)
  Conformer 2
(PDB)
1jqj (C)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 209 1.16   3 - 214
2 112 1.68   215 - 331

Sequence


           ________________________________________________________________________________________________________________________ 
 1jqj(D) : MIRLYPEQLRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDPNTDWNAIFSLCQAMSLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKA 
         :                                                                                                                          
 1jqj(C) : MIRLYPEQLRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDPNTDWNAIFSLCQAMSLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKA 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________203_____________________________________ 
 1jqj(D) : QENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQLNLELDDAANQVLCYCYEGNLLALAQALERLSLLWPDGKLTLPRVEQAVNDA---tPFHWVDALLMGKSKRALHILQQLRLEG 
         :                                                                                                                          
 1jqj(C) : QENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQLNLELDDAANQVLCYCYEGNLLALAQALERLSLLWPDGKLTLPRVEQAVNDAAHFTPFHWVDALLMGKSKRALHILQQLRLEG 
           ________________________________________________________________________________203_____________________________________ 

           ________________________________________________________________________________________                                 
 1jqj(D) : SEPVILLRTLQRELLLLVNLKRQSAHTPLRALFDKHRVWrRGMMGEALNRLSQTQLRQAVQLLTRTELTLKQDYGQaELEGLSLLLCH                                 
         :                                                                                                                          
 1jqj(C) : SEPVILLRTLQRELLLLVNLKRQSAHTPLRALFDKHRVWrRGMMGEALNRLSQTQLRQAVQLLTRTELTLKQDYGQaELEGLSLLLCH                                 
           ________________________________________________________________________________________                                 

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
82.7
Translation
(A)
7.4
Closure
(%)
66.8
Bending Residues
( green )
  203 - 215
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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