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 (D)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 145 0.7   7 - 109   212 - 253
2 99 0.72   110 - 211

Sequence


           ________________________________________________________________________________________________________________109_____ 
 3s2v(B) : *****GANRTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQND-KGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILY 
         :                                                                                                                          
 1yae(D) : NITDSLSNRSLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILY 
           ________________________________________________________________________________________________________________537_____ 

           ____________________________________________________________________________________________209_________________________ 
 3s2v(B) : RKGTPIDSADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAI 
         :                                                                                                                          
 1yae(D) : RK---iDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAI 
           ____________________________________________________________________________________________757_________________________ 

           _______________________                                                                                                  
 3s2v(B) : LQLQEEGKLHMMKEKWWRGNGCP                                                                                                  
         :                                                                                                                          
 1yae(D) : LQLQEEGKLHMMKEKWWRGNGC*                                                                                                  
           _______________________                                                                                                  

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
24.2
Translation
(A)
0.2
Closure
(%)
97.1
Bending Residues
( green )
  109 - 110
  209 - 213
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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