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

Domains

Domain Size Backbone RMSD
(A)
Residues
1 144 0.76   5 - 109   214 - 252
2 107 0.99   110 - 213   253 - 255

Sequence


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

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

           _________251_______                                                                                                      
 3s2v(B) : EGKLHMMKEKWWRGNGCP*                                                                                                      
         :                                                                                                                          
 2i0c(A) : EGKLHMMKEKWWRGNGCPS                                                                                                      
           _________252_______                                                                                                      

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
36.0
Translation
(A)
0.7
Closure
(%)
99.1
Bending Residues
( green )
  108 - 110
  210 - 214
  251 - 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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