DNA Ligase

(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 Ligase
  Conformer 1
(PDB)
1v9p (B)
  Conformer 2
(PDB)
1v9p (A)
  Window Length 9
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 351 0.8   2005 - 2272   2280 - 2320   2324 - 2331   2340 - 2346   2367 - 2368   2373 - 2374   2377 - 2399
2 225 0.76   2273 - 2279   2321 - 2323   2332 - 2339   2347 - 2366   2369 - 2372   2375 - 2376   2400 - 2580

Sequence


           ________________________________________________________________________________________________________________________ 
 1v9p(B) : MTREEARRRINELRDLIRYHNYRYYVLADPEISDAEYDRLLRELKELEERFPEFKSPDSPTEQVGARPLEPTFRPVRHPTRMYSLDNAFTYEEVLAFEERLERALGRKRPFLYTVEHKVD 
         :                                                                                                                          
 1v9p(A) : MTREEARRRINELRDLIRYHNYRYYVLADPEISDAEYDRLLRELKELEERFPEFKSPDSPTEQVGARPLEPTFRPVRHPTRMYSLDNAFTYEEVLAFEERLERALGRKRPFLYTVEHKVD 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1v9p(B) : GLSVNLYYEEGVLVFGATRGDGEVGEEVTQNLLTIPTIPRRLKGVPDRLEVRGEVYMPIEAFLRLNEELEERGEKVFKNPRNAAAGSLRQKDPRVTAKRGLRATFYALGLGLEESGLKSQ 
         :                                                                                                                          
 1v9p(A) : GLSVNLYYEEGVLVFGATRGDGEVGEEVTQNLLTIPTIPRRLKGVPDRLEVRGEVYMPIEAFLRLNEELEERGEKVFKNPRNAAAGSLRQKDPRVTAKRGLRATFYALGLGLEESGLKSQ 
           ________________________________________________________________________________________________________________________ 

           ____________________________2272___2279___________________________________2318_2323____2331____2339___2346______________ 
 1v9p(B) : YELLLWLKEKGFPVEHGYEKALGAEGVEEVYRRFLAQRHALPFEADGVVVKLDDLALWRELGYTARAPRFALAYKFPAEEKETRLLDVVFQVGRTGRVTPVGVLEPVFIEGSEVSRVTLH 
         :                                                                                                                          
 1v9p(A) : YELLLWLKEKGFPVEHGYEKALGAEGVEEVYRRFLAQRHALPFEADGVVVKLDDLALWRELGYTARAPRFALAYKFPAEEKETRLLDVVFQVGRTGRVTPVGVLEPVFIEGSEVSRVTLH 
           _____________________________272____279____________________________________318__323_____331_____339____346______________ 

           __2366__2372_______________________2399_________________________________________________________________________________ 
 1v9p(B) : NESYIEELDIRIGDWVLVHKAGGVIPEVLRVLKERRTGEERPIRWPETCPECGHRLVKEGKVHRCPNPLCPAKRFEAIRHYASRKAMDIEGLGEKLIERLLEKGLVRDVADLYHLRKEDL 
         :                                                                                                                          
 1v9p(A) : NESYIEELDIRIGDWVLVHKAGGVIPEVLRVLKERRTGEERPIRWPETCPECGHRLVKEGKVHRCPNPLCPAKRFEAIRHYASRKAMDIEGLGEKLIERLLEKGLVRDVADLYHLRKEDL 
           ___366___372________________________399_________________________________________________________________________________ 

           ________________________________________________________________________________________________________                 
 1v9p(B) : LGLERMGEKSAQNLLRQIEESKHRGLERLLYALGLPGVGEVLARNLARRFGTMDRLLEASLEELLEVEEVGELTARAILETLKDPAFRDLVRRLKEAGVSMESK                 
         :                                                                                                                          
 1v9p(A) : LGLERMGEKSAQNLLRQIEESKHRGLERLLYALGLPGVGEVLARNLARRFGTMDRLLEASLEELLEVEEVGELTARAILETLKDPAFRDLVRRLKEAGVSMESK                 
           ________________________________________________________________________________________________________                 

Morph

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Status: Initialising

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
3.3
Translation
(A)
-0.3
Closure
(%)
47.4
Bending Residues
( green )
  2272 - 2276
  2279 - 2280
  2318 - 2321
  2323 - 2324
  2331 - 2332
  2339 - 2340
  2346 - 2347
  2366 - 2369
  2372 - 2377
  2399 - 2402
Bending Region Analysis

Dynamic Contact Graph

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

PyMOL Script

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