Glutamate Receptor, Ionotropic Kainate 2

(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 2
  Conformer 1
(PDB)
1yae (F)
  Conformer 2
(PDB)
1s50 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 124 1.21   431 - 517   520 - 532   764 - 791   798 - 798
2 92 1.17   518 - 519   533 - 763   792 - 797

Sequence


           ____________________________________________________________________________________________517____________532__________ 
 1yae(F) : NITDSLSNRSLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELId----LAVAPLAITYVREK-iDFSKPFMTLGISILY 
         :                                                                                                                          
 1s50(A) : ******SNRSLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILY 
           _____________________________________________________________________________________________90____________105__________ 

           __________________________________________________________________________________________________763___________________ 
 1yae(F) : -----------------iEYGAVEDGATMTFFk---------MWAFMSSRRQS-lVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAI 
         :                                                                                                                          
 1s50(A) : RKGTPIDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAI 
           __________________________________________________________________________________________________216___________________ 

           ______791___797_________                                                                                                 
 1yae(F) : LQLQEEGKLHMMKEKWWR******                                                                                                 
         :                                                                                                                          
 1s50(A) : LQLQEEGKLHMMKEKWWRGNGCPE                                                                                                 
           ______244___250_________                                                                                                 

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
11.8
Translation
(A)
-0.4
Closure
(%)
84.2
Bending Residues
( green )
  517 - 520
  532 - 533
  763 - 764
  791 - 792
  797 - 798
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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