DNA Polymerase Beta

(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 Beta
  Conformer 1
(PDB)
1bpd (A)
  Conformer 2
(PDB)
2bpg (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 163 1.17   93 - 179   186 - 264
2 80 0.82   11 - 90
3 75 1.11   180 - 185   265 - 333

Sequence


           ____________________________________________________________________________86__________________________________________ 
 1bpd(A) : ETLNGGITDMLVELANFEKNVSQAIHKYNAYRKAASVIAKYPHKIKSGAEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKN 
         :                                                                                                                          
 2bpg(A) : ETLNGGITDMLVELANFEKNVSQAIHKYNAYRKAASVIAKYPHKIKSGAEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKN 
           ____________________________________________________________________________86__________________________________________ 

           ________________________________________________179___185_______________________________________________________________ 
 1bpd(A) : EDKLNHHQRIGLKYFEDFEKRIPREEMLQMQDIVLNEVKKLDPEYIATVCGSFRRGAESSGDMDVLLTHPNFTSESSKQPKLLHRVVEQLQKVRFITDTLSKGETKFMGVCQLPSENeYP 
         :                                                                                                                          
 2bpg(A) : EDKLNHHQRIGLKYFEDFEKRIPREEMLQMQDIVLNEVKKLDPEYIATVCGSFRRGAESSGDMDVLLTHPNFTSESSKQPKLLHRVVEQLQKVRFITDTLSKGETKFMGVCQLPSENeYP 
           ________________________________________________179___185_______________________________________________________________ 

           __________264_______________________________________________________________________                                     
 1bpd(A) : HRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEQDIFDYIQWRYREPKDRSE                                     
         :                                                                                                                          
 2bpg(A) : HRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEQDIFDYIQWRYREPKDRSE                                     
           __________264_______________________________________________________________________                                     

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
78.2
Translation
(A)
-0.2
Closure
(%)
97.2
Bending Residues
( green )
  86 - 93
Bending Region Analysis
Property Value
Fixed Domain
( blue )
1
Moving Domain
( yellow )
3
Rotation Angle
(deg)
22.3
Translation
(A)
-1.0
Closure
(%)
69.1
Bending Residues
( green )
  179 - 180
  185 - 186
  264 - 265
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

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

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

Movement classification:

No Contacts

PyMOL Script

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