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)
4h8i (B)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 162 0.77   6 - 109   119 - 120   192 - 198   207 - 255
2 88 0.74   110 - 118   121 - 191   199 - 206

Sequence


           ___________________________________________________________________________________________________________109______118_ 
 3s2v(B) : GANRTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQND-KGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTP 
         :                                                                                                                          
 4h8i(B) : **NRSLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRKGTP 
           ___________________________________________________________________________________________________________110______119_ 

           _____________________________________________________________________191____198_____206_________________________________ 
 3s2v(B) : IDSADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQE 
         :                                                                                                                          
 4h8i(B) : IDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAILQLQE 
           _____________________________________________________________________192____199_____207_________________________________ 

           __________________                                                                                                       
 3s2v(B) : EGKLHMMKEKWWRGNGCP                                                                                                       
         :                                                                                                                          
 4h8i(B) : EGKLHMMKEKWWRGNGCP                                                                                                       
           __________________                                                                                                       

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
10.3
Translation
(A)
-0.1
Closure
(%)
99.9
Bending Residues
( green )
  109 - 110
  118 - 121
  191 - 192
  198 - 199
  206 - 207
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Mixed

PyMOL Script

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