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)
2i0c (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 143 0.65   6 - 108   213 - 252
2 107 0.92   109 - 212   253 - 255

Sequence


           __________________________________________________________________________________________________________108___________ 
 3s2v(B) : GANRTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQND-KGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTP 
         :                                                                                                                          
 2i0c(B) : ***RSLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITCVREKVIDFSKPFMTLGISILYRKGTP 
           __________________________________________________________________________________________________________109___________ 

           ________________________________________________________________________________________210_____________________________ 
 3s2v(B) : IDSADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQE 
         :                                                                                                                          
 2i0c(B) : IDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAICQLQE 
           ________________________________________________________________________________________211_____________________________ 

           __________252______                                                                                                      
 3s2v(B) : EGKLHMMKEKWWRGNGCP*                                                                                                      
         :                                                                                                                          
 2i0c(B) : EGKLHMMKEKWWRGNGCPS                                                                                                      
           __________253______                                                                                                      

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
33.3
Translation
(A)
0.4
Closure
(%)
99.8
Bending Residues
( green )
  108 - 109
  210 - 213
  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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