Poly(a) RNA Polymerase Protein Cid1

(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 Poly(a) RNA Polymerase Protein Cid1
  Conformer 1
(PDB) 		4ud5 (A)
  Conformer 2
(PDB) 		4ud4 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 240 0.55   43 - 56   63 - 65   88 - 103   107 - 117   166 - 377
2 76 0.86   57 - 62   66 - 87   104 - 106   118 - 165

Sequence


           _______________56____62_65____________________87____________102_106_____________________________________________________ 
 4ud5(A) : *HKEFTKFCYEVYNEIKISDKEFKEKRAALDTLRLCLKRISPDAELVAFGSLESGLALKNSDMDLCVLMDS---sDTIALQFYEELIAEGFEGAFLQAARIPIIKLTSDTKNGFGASFQC 
         :                                                                                                                          
 4ud4(A) : SHKEFTKFCYEVYNEIKISDKEFKEKRAALDTLRLCLKRISPDAELVAFGSLESGLALKNSDMDLCVLMDSRVQSDTIALQFYEELIAEGFEGAFLQAARIPIIKLTSD---gFGASFQC 
           _______________56____62_65____________________87____________102_106_____________________________________________________ 

           ___165__________________________________________________________________________________________________________________ 
 4ud5(A) : DIGFNNRLAIHNTLLLSSYTKLDARLKPMVLLVKHWAKRKQINSPYFGTLSSYGYVLMVLYYLIHVIKPPVFPNLLLSPLKQEKIVDGFDVGFDDKLEDIPPSQNYSSLGSLLHGFFAFY 
         :                                                                                                                          
 4ud4(A) : DIGFNNRLAIHNTLLLSSYTKLDARLKPMVLLVKHWAKRKQINSPYFGTLSSYGYVLMVLYYLIHVIKPPVFPNLLLSPLKQEKIVDGFDVGFDDKLEDIPPSQNYSSLGSLLHGFFAFY 
           ___165__________________________________________________________________________________________________________________ 

           ______________________________________________________________________________________________________                   
 4ud5(A) : AYAFEPREKVVTFRRPDGYLTKQEKGWTSATEHTGSADQIIKDRYILAIEDPFEISHNVGRTVSSSGLYRIRGEFMAASRLLNSRSYPIPYDSLFEEAPIPP                   
         :                                                                                                                          
 4ud4(A) : AYAFEPREKVVTFRRPDGYLTKQEKGWT-------------kDRYILAIEDPFEISHNVGRTVSSSGLYRIRGEFMAASRLLNSRSYPIPYDSLFEEAPI**                   
           ______________________________________________________________________________________________________                   

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		8.5
Translation
(A) 		0.0
Closure
(%) 		10.1
Bending Residues
( green ) 		  56 - 57
  62 - 63
  65 - 66
  87 - 88
  102 - 104
  106 - 118
  165 - 166
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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