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)
4nf5 (A)
  Conformer 2
(PDB)
4nf6 (A)
  Window Length 7
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 202 0.33   7 - 145   150 - 150   174 - 184   211 - 232   238 - 238   245 - 283
2 59 0.38   146 - 149   151 - 173   185 - 210   233 - 237   244 - 244

Sequence


           ________________________________________________________________________________________________________________________ 
 4nf5(A) : TRLKIVTIHQEPFVYVKPTMSDGTCKEEFTVNGDPVKKVICTGP--tVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERVNsNKKEWNGMMGELLSGQADMIVAPLTINNERA 
         :                                                                                                                          
 4nf6(A) : TRLKIVTIHQEPFVYVKPTMSDGTCKEEFTVNGDPVKKVICTGPNhTVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERVNsNKKEWNGMMGELLSGQADMIVAPLTINNERA 
           ________________________________________________________________________________________________________________________ 

           __________145_149_____________________173_____181__________________________210___________________232__237_______________ 
 4nf5(A) : QYIEFSKPFKYQGLTILVKKGTRITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTGELFFRSGFGI 
         :                                                                                                                          
 4nf6(A) : QYIEFSKPFKYQGLTILVKKGTRITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTGELFFRSGFGI 
           __________145_149_____________________173_____181__________________________210___________________232__237_______________ 

           ______________________________________                                                                                   
 4nf5(A) : GMRKDSPWKQNVSLSILKSHENGFMEDLDKTWVR****                                                                                   
         :                                                                                                                          
 4nf6(A) : GMRKDSPWKQNVSLSILKSHENGFMEDLDKTWVRYQEC                                                                                   
           ______________________________________                                                                                   

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
3.5
Translation
(A)
0.0
Closure
(%)
21.6
Bending Residues
( green )
  145 - 146
  149 - 151
  173 - 174
  181 - 191
  210 - 211
  232 - 233
  237 - 245
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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