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

Domains

Domain Size Backbone RMSD
(A)		 Residues
1 168 0.69   6 - 146   244 - 244   247 - 285
2 99 0.59   147 - 243   245 - 246

Sequence


           ________________________________________________________________________________________________________________________ 
 4kcc(A) : STRLKIVTIHQEPFVYVKPTMSDGTCKEEFTVNGDPVKKVICTGPN--------hTVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERV-----kEWNGMMGELLSGQADMIV 
         :                                                                                                                          
 4kfq(A) : *TRLKIVTIHQEPFVYVKPTMSDGTCKEEFTVNGDPVKKVICTGPNDTSPGSPRHTVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERVNNSNKKEWNGMMGELLSGQADMIV 
           ________________________________________________________________________________________________________________________ 

           ___________________144________________________________________________________________________________________________24 
 4kcc(A) : APLTINNERAQYIEFSKPFKYQGLTILVKKGTRITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTG 
         :                                                                                                                          
 4kfq(A) : APLTINNERAQYIEFSKPFKYQGLTILVKKGTRITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTG 
           ___________________144________________________________________________________________________________________________24 

           3_________________________________________________                                                                       
 4kcc(A) : ELFFRSGFGIGMRKDSPWKQNVSLSILKSHENGFMEDLDKTWVRYQEC**                                                                       
         :                                                                                                                          
 4kfq(A) : ELFFRSGFGIGMRKDSPWKQNVSLSILKSHENGFMEDLDKTWVRYQECDS                                                                       
           3_________________________________________________                                                                       

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue ) 		1
Moving Domain
( red ) 		2
Rotation Angle
(deg) 		10.2
Translation
(A) 		0.0
Closure
(%) 		15.8
Bending Residues
( green ) 		  144 - 147
  243 - 247
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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