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)
1tt1 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 124 0.53   90 - 90   105 - 106   108 - 210   229 - 246
2 120 0.49   7 - 89   91 - 104   107 - 107   211 - 228   247 - 250

Sequence


           ______________________________________________________________________________________89____________104_________________ 
 2f36(A) : **TLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQND-KGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTPID 
         :                                                                                                                          
 1tt1(A) : NRSLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRKGTPID 
           ______________________________________________________________________________________90____________105_________________ 

           ______________________________________________________________________________________210_______________228_____________ 
 2f36(A) : SADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQEEG 
         :                                                                                                                          
 1tt1(A) : SADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAILQLQEEG 
           ______________________________________________________________________________________211_______________229_____________ 

           __246____________                                                                                                        
 2f36(A) : KLHMMKEKWWRGNGCPS                                                                                                        
         :                                                                                                                          
 1tt1(A) : KLHMMKEKWWR******                                                                                                        
           __247____________                                                                                                        

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
5.1
Translation
(A)
0.2
Closure
(%)
76.3
Bending Residues
( green )
  89 - 91
  104 - 108
  210 - 211
  228 - 230
  246 - 247
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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