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)
4e0x (A)
  Conformer 2
(PDB)
3gba (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 123 0.42   6 - 62   71 - 89   92 - 104   217 - 250
2 122 1.15   63 - 70   90 - 91   105 - 216

Sequence


           ____________________________________________________________62______70_________________89____________104________________ 
 4e0x(A) : ***RTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQNDKGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTPI 
         :                                                                                                                          
 3gba(B) : GANRTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQNDKGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTPI 
           ____________________________________________________________62______70_________________89____________104________________ 

           _____________________________________________________________________________________________216________________________ 
 4e0x(A) : DSADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQEE 
         :                                                                                                                          
 3gba(B) : DSADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQEE 
           _____________________________________________________________________________________________216________________________ 

           _________________                                                                                                        
 4e0x(A) : GKLHMMKEKWWR*****                                                                                                        
         :                                                                                                                          
 3gba(B) : GKLHMMKEKWWRGNGCP                                                                                                        
           _________________                                                                                                        

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
9.8
Translation
(A)
0.1
Closure
(%)
95.0
Bending Residues
( green )
  62 - 63
  70 - 71
  89 - 92
  104 - 105
  216 - 217
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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