Polymerase Pb2

(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 Polymerase Pb2
  Conformer 1
(PDB) 		4wsb (C)
  Conformer 2
(PDB) 		8h69 (C)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 508 4.11   3 - 320   492 - 681
2 163 1.39   321 - 491

Sequence


           ________________________________________________________________________________________________________________________ 
 4wsb(C) : SMERIKELMEMVKNSRMREILTTTSVDHMAVIKKYTSGRQEKNPALRMKWMMAMKYPISASSRIREMIPEKDEDGNTLWTNTKDAGSNRVLVSPNAVTWWNRAGPVSDVVHYPRVYKMYF 
         :                                                                                                                          
 8h69(C) : *MERIKELRDLMSQSRTREILTKTTVDHMAIIKKYTSGRQEKNPALRMKWMMAMKYPITADKRIMEMIPERNEQGQTLWSKTNDAGSDRVMVSPLAVTWWNRNGPTTSTVHYPKVYKTYF 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 4wsb(C) : DRLERLTHGTFGPVKFYNQVKVRKRVDINPGHKDLTSREAQEVIMEVVFPNEVGARTLSSDAQLTITKEKKEELKNCKISPIMVAYMLERELVRRTRFLPIAGATSSTYVEVLHLTQGTC 
         :                                                                                                                          
 8h69(C) : EKVERLKHGTFGPVHFRNQVKIRRRVDINPGHADLSAKEAQDVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERELVRKTRFLPVAGGTSSVYIEVLHLTQGTC 
           ________________________________________________________________________________________________________________________ 

           ______________________________________________________________________________320_______________________________________ 
 4wsb(C) : WEQQYTPGGEAENDDLDQTLIIASRNIVRRSIVAIDPLASLLSMCHTTSISSEPLVEILRSNPTDEQAVNICKAALGIRINNSFSFGGYNFKRVKGSSQRTEKAVLTGNLQTLTMTIFEG 
         :                                                                                                                          
 8h69(C) : WEQMYTPGGEVRNDDVDQSLIIAARNIVRRATVSADPLASLLEMCHSTQIGGIRMVDILRQNPTEEQAVDICKAAMGLRISSSFSFGGFTFKRTSGSSVKKEEEVLTGNLQTLKIRVHEG 
           ______________________________________________________________________________320_______________________________________ 

           ________________________________________________________________________________________________________________________ 
 4wsb(C) : YEEFNVSGKRASAVLKKGAQRLIQAIIGGRTLEDILNLMITLMVFSQEEKMLKAVRGDLNFVNRANQRLNPMYQLLRHFQKDSSTLLKNWGTEEIDPIMGIAGIMPDGTINKTQTLMGVR 
         :                                                                                                                          
 8h69(C) : YEEFTMVGRRATAILRKATRRLIQLIVSGRDEQSIAEAIIVAMVFSQEDCMIKAVRGDLNFVNRANQRLNPMHQLLRHFQKDAKVLFQNWGIEPIDNVMGMIGILPDMTPSAEMSLRGVR 
           ________________________________________________________________________________________________________________________ 

           _491____________________________________________________________________________________________________________________ 
 4wsb(C) : LSQ--------nERIRVNIDKYLRVRNEKGELLISPEEVSEAQGQEKLPINYNSSLMWEVNGPESILTNTYHWIIKNWELLKTQWMTDPTVLYNRIEFEPFQTLIPKGNRAIYSGFTRTL 
         :                                                                                                                          
 8h69(C) : VSKMGVDEYSSTERVVVSIDRFLRVRDQQGNVLLSPEEVSETQGTEKLTITYSSSMMWEINGPESVLVNTYQWIIRNWETVKIQWSQDPTMLYNKMEFESFQSLVPKAARGQYSGFVRTL 
           _491____________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 4wsb(C) : FQQMRDVEGTFDSIQIIKLLPFSAHPPSLGRTQFSSFTLNIRGAPLRLLIRGNSQVFNYNQMENVIIVLGKSVGSPERSILTESSSIESAVLRGFLILGKANSKYGPVLTIGELDKLGRG 
         :                                                                                                                          
 8h69(C) : FQQMRDVLGTFDTVQIIKLLPFAAAPPEQSRMQFSSLTVNVRGSGMRILVRGNSPVFNYNKATKRLTVLGKDAGALTEDPDEGT************************************ 
           ________________________________________________________________________________________________________________________ 

           ______________________                                                                                                   
 4wsb(C) : EKANVLIGQGDTVLVMKRKRDS                                                                                                   
         :                                                                                                                          
 8h69(C) : **********************                                                                                                   
           ______________________                                                                                                   

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		119.8
Translation
(A) 		1.2
Closure
(%) 		66.6
Bending Residues
( green ) 		  320 - 324
  491 - 492
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

PyMOL Script

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