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) 		2f36 (A)
  Conformer 2
(PDB) 		1ftl (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 145 1.3   7 - 108   194 - 195   213 - 253
2 102 1.41   109 - 193   196 - 212

Sequence


           ______________________________________________________________________________________________________108_______________ 
 2f36(A) : TLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQN-DKGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTPIDSA 
         :                                                                                                                          
 1ftl(B) : TVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKGTPIESA 
           ______________________________________________________________________________________________________109_______________ 

           _____________________________________________________________________193_________________212____________________________ 
 2f36(A) : DDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTD--YALLMESTSIEYVTQRN-CNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQEE 
         :                                                                                                                          
 1ftl(B) : EDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGNAVNLAVLKLNEQ 
           _____________________________________________________________________196_________________216____________________________ 

           ___________________                                                                                                      
 2f36(A) : GKLHMMKEKWWRGNG-CPS                                                                                                      
         :                                                                                                                          
 1ftl(B) : GLLDKLKNKWWYDKGEC**                                                                                                      
           ___________________                                                                                                      

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		3.4
Translation
(A) 		0.2
Closure
(%) 		99.2
Bending Residues
( green ) 		  70 - 71
  74 - 85
  91 - 95
  98 - 102
  104 - 105
  135 - 136
  406 - 407
  442 - 443
  447 - 450
  470 - 471
  473 - 474
  479 - 481
  484 - 485
  491 - 493
  507 - 508
  511 - 512
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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