Glutamate Receptor Ionotropic, Delta-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, Delta-2
  Conformer 1
(PDB)
5cc2 (A)
  Conformer 2
(PDB)
2v3u (A)
  Window Length 7
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 142 1.88   6 - 105   196 - 198   214 - 255
2 100 1.13   106 - 195   199 - 213

Sequence


           ______________________________________________________________________________________________________105_______________ 
 5cc2(A) : **VVLRVVTVLEEPFVMVSENVLGKPKKYQGFSIDVLDALSNYLGFNYEIYVAPDHKYGSPQEDGTWNGLVGELVFKRADIGISALTITPDRENVVDFTTRYMDYSVGVLLRRGTSIQSL 
         :                                                                                                                          
 2v3u(A) : GGVVLRVVTVLEEPFVMVSENVLGKPKKYQGFSIDVLDALSNYLGFNYEIYVAPDHKYGSPQEDGTWNGLVGELVFKRADIGISALTITPDRENVVDFTTRYMDYSVGVLLRRGTSIQSL 
           ______________________________________________________________________________________________________105_______________ 

           ________________________________________________________________________195_______________213___________________________ 
 5cc2(A) : QDLSKQTDIPYGTVLDSAVYQHVRMKGLNPFERDSMYSQMWRMINRSNGSENNVLESQAGIQKVKYGNYAFVWDAAVLEYVAINDPDCSFYTVGNTVADRGYGIALQHGSPYRDVFSQRI 
         :                                                                                                                          
 2v3u(A) : QDLSKQTDIPYGTVLDSAVYQHVRMKGLNPFERDSMYSQMWRMINR-----nNVLESQAGIQKVKYGNYAFVWDAAVLEYVAINDPDCSFYTVG---aDRGYGIALQHGSPYRDVFSQRI 
           ________________________________________________________________________195_______________213___________________________ 

           _____________________                                                                                                    
 5cc2(A) : LELQQSGDMDILKHKWWP***                                                                                                    
         :                                                                                                                          
 2v3u(A) : LELQQSGDMDILKHKWWPKNG                                                                                                    
           _____________________                                                                                                    

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
19.6
Translation
(A)
1.3
Closure
(%)
94.6
Bending Residues
( green )
  105 - 106
  195 - 196
  198 - 199
  213 - 214
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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