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)
3gbb (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 142 0.62   5 - 107   214 - 252
2 109 1.29   108 - 213   253 - 255

Sequence


           _______________________________________________________________________________________________________106______________ 
 3s2v(B) : GANRTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQNDKGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTPI 
         :                                                                                                                          
 3gbb(A) : **NRTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQNDKGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTPI 
           _______________________________________________________________________________________________________106______________ 

           _______________________________________________________________________________________210______________________________ 
 3s2v(B) : DSADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQEE 
         :                                                                                                                          
 3gbb(A) : DSADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQEE 
           _______________________________________________________________________________________210______________________________ 

           _________252_____                                                                                                        
 3s2v(B) : GKLHMMKEKWWRGNGCP                                                                                                        
         :                                                                                                                          
 3gbb(A) : GKLHMMKEKWWRGNGCP                                                                                                        
           _________252_____                                                                                                        

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
33.6
Translation
(A)
0.3
Closure
(%)
99.5
Bending Residues
( green )
  106 - 108
  210 - 215
  252 - 255
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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