Polymerase (Dna Directed) Kappa

(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 (Dna Directed) Kappa
  Conformer 1
(PDB) 		1t94 (A)
  Conformer 2
(PDB) 		1t94 (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 277 2.3   77 - 414
2 92 2.58   415 - 513

Sequence


           ________________________________________________________________________________________________________________________ 
 1t94(A) : KAQITSQQLRKAQLQVDRFAMELEQSRNLSNTIVHIDMDAFYAAVEMRDNPELKDKPIAVGSMSMLSTSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEVKEILADYDP 
         :                                                                                                                          
 1t94(B) : ****TSQQLRKAQLQVDRFAMELEQSRNLSNTIVHIDMDAFYAAVEMRDNPELKDKPIAVGSMSMLSTSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEVKEILADYDP 
           ________________________________________________________________________________________________________________________ 

           ________________________________________________________________________________________________________________________ 
 1t94(A) : NFMAMSLDEAYLNITKHLEERQNWPEDKRRYFIKMvENDNPGKEVNKLSEHERSISPLLFnPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQI 
         :                                                                                                                          
 1t94(B) : NFMAMSLDEAYLNITKHLEERQNWPEDKRRYFIK-------------------------------qNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQI 
           ________________________________________________________________________________________________________________________ 

           ___________________________________________________________________405__________________________________________________ 
 1t94(A) : LPNRQAVMDFIKDLPIRKVSGIGKVTEKMLKALGIITCTELYQQRALLSLLFSETSWHYFLHISLGLGSTHLg--kSMSVERTFSEINKAEEQYSLCQELCSELAQDLQ---lKGRTVTI 
         :                                                                                                                          
 1t94(B) : LPNRQAVMDFIKDLPIRKVSGIGKVTEKMLKALGIITCTELYQQRALLSLLFSETSWHYFLHISLGLGSTHLTRrKSMSVERTFSEINKAEEQYSLCQELCSELAQDLQKERLKGRTVTI 
           ___________________________________________________________________405__________________________________________________ 

           __________________________________________________________                                                               
 1t94(A) : KLKNVNFEVKTRASvSSVVST--eIFAIAKELLKTEIDADFPHPLRLRLMGVRISS**                                                               
         :                                                                                                                          
 1t94(B) : KLKNVNFEVKTRAS-TsVVSTAEEIFAIAKELLKTEIDADFPHPLRLRLMGVRISSFP                                                               
           __________________________________________________________                                                               

Morph
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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		57.7
Translation
(A) 		14.4
Closure
(%) 		94.9
Bending Residues
( green ) 		  405 - 415
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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