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)
1jxl (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 139 0.25   4 - 34   36 - 36   39 - 110   122 - 145   160 - 165   232 - 235   237 - 239
2 99 0.24   35 - 35   37 - 38   243 - 339
3 88 0.22   113 - 121   146 - 159   166 - 231   236 - 236

Sequence


           ________________________________34_________________________________________________________________________110________12 
 1jx4(A) : *IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYLP-rKEVYQQVSSRI-nLLREYSEKIEIASIDEAYLDISDKVRDYRE 
         :                                                                                                                          
 1jxl(A) : MIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYRE 
           ________________________________34_________________________________________________________________________110________12 

           1_____________________145___________159___165_______________________________________________________________231_____239_ 
 1jx4(A) : AYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAAD-aKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKG-iGEAKAKYLISLARDEYNEPIRTR 
         :                                                                                                                          
 1jxl(A) : AYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTR 
           1_____________________145___________159___165_______________________________________________________________231_____239_ 

           _____________________________________________________________________________________________________                    
 1jx4(A) : VRKSIGRIVT-kRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFI                    
         :                                                                                                                          
 1jxl(A) : VRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQKILEEDERKIRRIGVRFSKFI                    
           _____________________________________________________________________________________________________                    

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
For more advanced options, right click on the model.


Show console


play backwards pause play forwards

Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
3.9
Translation
(A)
-0.3
Closure
(%)
62.6
Bending Residues
( green )
  34 - 41
  239 - 243
Bending Region Analysis
Property Value
Fixed Domain
( blue )
1
Moving Domain
( yellow )
3
Rotation Angle
(deg)
3.2
Translation
(A)
0.2
Closure
(%)
78.0
Bending Residues
( green )
  110 - 113
  121 - 122
  145 - 146
  159 - 160
  165 - 166
  231 - 237
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification:

No Contacts

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

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

Movement classification: Shear

PyMOL Script

Download and extract PyMOL PML script file Download