Glutamate Receptor Ionotropic, Nmda 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, Nmda 1
  Conformer 1
(PDB)
4kcc (A)
  Conformer 2
(PDB)
4nf4 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 246 1.08   6 - 175   197 - 285
2 21 0.36   176 - 196

Sequence


           ________________________________________________________________________________________________________________________ 
 4kcc(A) : STRLKIVTIHQEPFVYVKPTMSDGTCKEEFTVNGDPVKKVICTGPN-----hTVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERVk-EWNGMMGELLSGQADMIVAPLTINN 
         :                                                                                                                          
 4nf4(A) : *TRLKIVTIHQEPFVYVKPTMSDGTCKEEFTVNGDPVKKVICTGPNDgSPRHTVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERVkKEWNGMMGELLSGQADMIVAPLTINN 
           ________________________________________________________________________________________________________________________ 

           ___________________________________________175__________________196_____________________________________________________ 
 4kcc(A) : ERAQYIEFSKPFKYQGLTILVKKGTRITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTGELFFRSG 
         :                                                                                                                          
 4nf4(A) : ERAQYIEFSKPFKYQGLTILVKKGTRITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTGELFFRSG 
           ___________________________________________175__________________196_____________________________________________________ 

           _________________________________________                                                                                
 4kcc(A) : FGIGMRKDSPWKQNVSLSILKSHENGFMEDLDKTWVRYQEC                                                                                
         :                                                                                                                          
 4nf4(A) : FGIGMRKDSPWKQNVSLSILKSHENGFMEDLDKTWVRY***                                                                                
           _________________________________________                                                                                

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
8.0
Translation
(A)
0.5
Closure
(%)
22.0
Bending Residues
( green )
  175 - 176
  196 - 197
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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