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)
1ycj (B)
  Conformer 2
(PDB)
2pbw (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 136 0.37   434 - 532   764 - 800
2 113 0.57   533 - 763   801 - 802

Sequence


           ____________________________________________________________________________________________________532_________________ 
 1ycj(B) : ANRTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQNDKGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTPID 
         :                                                                                                                          
 2pbw(B) : **RTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQNDKGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTPID 
           ____________________________________________________________________________________________________104_________________ 

           ___________________________________________________________________________________________763__________________________ 
 1ycj(B) : SADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQEEG 
         :                                                                                                                          
 2pbw(B) : SADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQEEG 
           ___________________________________________________________________________________________215__________________________ 

           ______798_______                                                                                                         
 1ycj(B) : KLHMMKEKWWRGNGCP                                                                                                         
         :                                                                                                                          
 2pbw(B) : KLHMMKEKWWRGNGC*                                                                                                         
           ______250_______                                                                                                         

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
12.9
Translation
(A)
-0.1
Closure
(%)
97.4
Bending Residues
( green )
  532 - 533
  763 - 764
  798 - 802
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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