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)
3s2v (B)
  Conformer 2
(PDB)
1yae (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 144 0.66   7 - 109   212 - 252
2 101 0.77   110 - 211   253 - 254

Sequence


           __________________________________________________________________________________________________________________109___ 
 3s2v(B) : *******GANRTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQND-KGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISI 
         :                                                                                                                          
 1yae(A) : PANITDSLSNRSLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISI 
           __________________________________________________________________________________________________________________537___ 

           ______________________________________________________________________________________________209_______________________ 
 3s2v(B) : LYRKGTPIDSADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITI 
         :                                                                                                                          
 1yae(A) : LYRK---iDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITI 
           ______________________________________________________________________________________________757_______________________ 

           _______________250_______                                                                                                
 3s2v(B) : AILQLQEEGKLHMMKEKWWRGNGCP                                                                                                
         :                                                                                                                          
 1yae(A) : AILQLQEEGKLHMMKEKWWRGNGC*                                                                                                
           _______________798_______                                                                                                

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
24.3
Translation
(A)
0.4
Closure
(%)
98.5
Bending Residues
( green )
  109 - 110
  209 - 213
  250 - 254
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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