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)
1jx4 (A)
  Conformer 2
(PDB)
1n48 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 154 0.71   4 - 145   160 - 164   234 - 242
2 81 0.35   146 - 159   165 - 233
3 96 0.38   243 - 339

Sequence


           ________________________________________________________________________________________________________________________ 
 1jx4(A) : *IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYLP-rKEVYQQVSSRI-nLLREYSEKIEIASIDEAYLDISDKVRDYRE 
         :                                                                                                                          
 1n48(A) : MIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYRE 
           ________________________________________________________________________________________________________________________ 

           ______________________145___________159__164_________________________________________________________________232___238__ 
 1jx4(A) : AYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAAD-aKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKG-iGEAKAKYLISLARDEYNEPIRTR 
         :                                                                                                                          
 1n48(A) : AYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTR 
           ______________________145___________159__164_________________________________________________________________232___238__ 

           ______________________________________________________________________________________________________                   
 1jx4(A) : VRKSIGRIVT-kRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFI*                   
         :                                                                                                                          
 1n48(A) : VRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFIE                   
           ______________________________________________________________________________________________________                   

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
6.3
Translation
(A)
0.3
Closure
(%)
98.5
Bending Residues
( green )
  145 - 146
  159 - 161
  164 - 165
  232 - 236
Bending Region Analysis
Property Value
Fixed Domain
( blue )
1
Moving Domain
( yellow )
3
Rotation Angle
(deg)
57.0
Translation
(A)
3.8
Closure
(%)
99.8
Bending Residues
( green )
  238 - 244
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Mixed

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification: Hinge

PyMOL Script

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