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) 		2f36 (A)
  Conformer 2
(PDB) 		4bdr (A)
  Window Length 13
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 121 0.48   11 - 17   34 - 110   212 - 248
2 119 0.72   18 - 33   111 - 211   249 - 250

Sequence


           ___________17______________33_________________________________________________________________________108_______________ 
 2f36(A) : TLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQND-KGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTPIDSA 
         :                                                                                                                          
 4bdr(A) : SLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRKGTPIDSA 
           __________444_____________460_________________________________________________________________________536_______________ 

           _____________________________________________________________________________________211________________________________ 
 2f36(A) : DDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQEEGKL 
         :                                                                                                                          
 4bdr(A) : DDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYADKITIAILQLQEEGKL 
           _____________________________________________________________________________________759________________________________ 

           __248__________                                                                                                          
 2f36(A) : HMMKEKWWRGNGCPS                                                                                                          
         :                                                                                                                          
 4bdr(A) : HMMKEKWWRGNGC**                                                                                                          
           __796__________                                                                                                          

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		5.6
Translation
(A) 		-0.1
Closure
(%) 		90.1
Bending Residues
( green ) 		  17 - 18
  33 - 34
  108 - 111
  211 - 214
  248 - 249
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

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