Glutamate Receptor, Ionotropic Kainate 1

(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 Glutamate Receptor, Ionotropic Kainate 1
  Conformer 1
(PDB)
1ycj (B)
  Conformer 2
(PDB)
1fto (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 141 1.32   435 - 536   763 - 801
2 106 1.53   537 - 762

Sequence


           _________________________________________________________________________________________________________536____________ 
 1ycj(B) : ANRTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQN-DKGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTPI 
         :                                                                                                                          
 1fto(A) : ***TVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKGTPI 
           _________________________________________________________________________________________________________109____________ 

           ______________________________________________________________________________________________762_______________________ 
 1ycj(B) : DSADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTD--YALLMESTSIEYVTQRN-CNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQL 
         :                                                                                                                          
 1fto(A) : ESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGNAVNLAVLKL 
           ______________________________________________________________________________________________218_______________________ 

           _____________________                                                                                                    
 1ycj(B) : QEEGKLHMMKEKWWRGNG-CP                                                                                                    
         :                                                                                                                          
 1fto(A) : NEQGLLDKLKNKWWYDKGEC*                                                                                                    
           _____________________                                                                                                    

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
27.2
Translation
(A)
-0.1
Closure
(%)
93.0
Bending Residues
( green )
  536 - 537
  762 - 763
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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