DNA Polymerase I

(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 I
  Conformer 1
(PDB)
1xwl  
  Conformer 2
(PDB)
1lv5 (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 437 0.93   299 - 508   583 - 679   745 - 874
2 74 1.02   509 - 582
3 35 0.51   680 - 714
4 30 0.51   715 - 744

Sequence


           ________________________________________________________________________________________________________________________ 
 1xwl    : AKMAFTLADRVTEEMLADKAALVVEVVEENYHDAPIVGIAVVNEHGRFFLRPETALADPQFVAWLGDETKKKSMFDSKRAAVALKWKGIELCGVSFDLLLAAYLLDPAQGVDDVAAAAKM 
         :                                                                                                                          
 1lv5(B) : AKMAFTLADRVTEEMLADKAALVVEVVEENYHAAPIVGIAVVNEHGRFFLRPETALADPQFVAWLGDETKKKSMFDSKRAAVALKWKGIELCGVSFDLLLAAYLLDPAQGVDDVAAAAKM 
           ________________________________________________________________________________________________________________________ 

           ____________________________________________________________________________________503_________________________________ 
 1xwl    : KQYEAVRPDEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFLDELRRNEQDRLLVELEQPLSSILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGV 
         :                                                                                                                          
 1lv5(B) : KQYEAVRPDEAVYGKGAKRAVPDEPVLAEHLVRKAAAIWELERPFLDELRRNEQDRLLVELEQPLSSILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGV 
           ____________________________________________________________________________________503_________________________________ 

           ___________________________________________582__________________________________________________________________________ 
 1xwl    : ILFEKLQLPVLKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVRPDTKKVHTIFNQALTQTGRLSSTEPNLQNIPIRLEEGRKIRQAFVPSESDWLIFAADYSQ 
         :                                                                                                                          
 1lv5(B) : ILFEKLQLPVLKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVRPDTKKVHTIFNQALTQTGRLSSTEPNLQNIPIRLEEGRKIRQAFVPSESDWLIFAADYSQ 
           ___________________________________________582__________________________________________________________________________ 

           ___________________678_________________________________714___________________________744________________________________ 
 1xwl    : IELRVLAHIAEDDNLMEAFRRDLDIHTKTAMDIFQVSEDEVTPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEAKQKGYVTTLLHRRRYLPDI 
         :                                                                                                                          
 1lv5(B) : IELRVLAHIAEDDNLMEAFRRDLDIHTKTAMDIFQVSEDEVTPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEAKQKGYVTTLLHRRRYLPDI 
           ___________________678_________________________________714___________________________744________________________________ 

           ____________________________________________________________________________________________________                     
 1xwl    : TSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLNARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPLKVDYHYGSTWYDAK                     
         :                                                                                                                          
 1lv5(B) : TSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLNARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPLKVDYHYGSTWYDAK                     
           ____________________________________________________________________________________________________                     

Morph

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Status: Initialising

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Domain Pairs

Fixed Domain Moving Domain Rotation Angle Translation   (A) Closure Bending Residues  
1 2 22.3 0.3 32.7   503 - 509   582 - 588 Bending Region Analysis
1 3 44.8 -0.8 88.4   678 - 680 Bending Region Analysis
1 4 12.9 -1.0 90.8   744 - 745 Bending Region Analysis
3 4 42.9 0.1 3.3   714 - 716 Bending Region Analysis

Dynamic Contact Graph

The dynamic contact graph is still being generated. Progress: Initialising

PyMOL Script

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