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)
4nf8 (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 173 0.93   5 - 145   243 - 287
2 97 0.53   146 - 242

Sequence


           ________________________________________________________________________________________________________________________ 
 4kcc(A) : STRLKIVTIHQEPFVYVKPTMSDGTCKEEFTVNGDPVKKVICTGPN--------hTVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERV---kEWNGMMGELLSGQADMIVAP 
         :                                                                                                                          
 4nf8(A) : STRLKIVTIHQEPFVYVKPTMSDGTCKEEFTVNGDPVKKVICTGPNDTSPGSPRHTVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERVsNKKEWNGMMGELLSGQADMIVAP 
           ________________________________________________________________________________________________________________________ 

           __________________145_____________________________________________________________________________________________241___ 
 4kcc(A) : LTINNERAQYIEFSKPFKYQGLTILVKKGTRITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTGEL 
         :                                                                                                                          
 4nf8(A) : LTINNERAQYIEFSKPFKYQGLTILVKKGTRITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTGEL 
           __________________145_____________________________________________________________________________________________241___ 

           ______________________________________________                                                                           
 4kcc(A) : FFRSGFGIGMRKDSPWKQNVSLSILKSHENGFMEDLDKTWVRYQEC                                                                           
         :                                                                                                                          
 4nf8(A) : FFRSGFGIGMRKDSPWKQNVSLSILKSHENGFMEDLDKTWVRYQE*                                                                           
           ______________________________________________                                                                           

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
24.0
Translation
(A)
-0.8
Closure
(%)
99.9
Bending Residues
( green )
  145 - 146
  241 - 245
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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