Glutamate Receptor Ionotropic, Nmda 2A

(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 2A
  Conformer 1
(PDB)
4nf5 (B)
  Conformer 2
(PDB)
3oel (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 147 1.08   9 - 135   243 - 282
2 107 1.62   136 - 242

Sequence


           ________________________________________________________________________________________________________________________ 
 4nf5(B) : NHLSIVTLEEAPFVIVEDI------cVRNTVPCRKFVKINNSTNEGMNVKKCCKGFCIDILKKLSRTVKFTYDLYLVTNGKHGKKVNNVWNGMIGEVVYQRAVMAVGSLTINEERSEVVD 
         :                                                                                                                          
 3oel(A) : QHLTVATLEERPFVIVEPADPISGTCIRDSVPCRS--------------QrCCKGFCIDILKRLAHTIGFSYDLYLVTNGKHGKKIDGVWNGMIGEVFYQRADMAIGSLTINEERSEIVD 
           ________________________________________________________________________________________________________________________ 

           ______135_______________________________________________________________________________________________233_____________ 
 4nf5(B) : FSVPFVETGISVMVSRGTQVTGLSDKKFQRPHDYSPPFRFGTVPNGSTERNIRNNYPYMHQYMTRFNQRGVEDALVSLKTGKLDAFIYDAAVLNYKAGRDEGCKLVTIGSGYIFATTGYG 
         :                                                                                                                          
 3oel(A) : FSVPFVETGISVMVARGTTVSGLSDRKFQRPQEQYPPLKFGTVPNGSTEKNIRSNYPDMHSYMVRYNQPRVEEALTQLKAGKLDAFIYDAAVLNYMARKDEGCKLVTIGSGKVFATTGYG 
           ______135_______________________________________________________________________________________________233_____________ 

           _______________________________________                                                                                  
 4nf5(B) : IALQKGSPWKRQIDLALLQFVGDGEMEELETLWLTGICH                                                                                  
         :                                                                                                                          
 3oel(A) : IALHKGSRWKRPIDLALLQFLGDDEIEMLERLWLSGIC*                                                                                  
           _______________________________________                                                                                  

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
20.1
Translation
(A)
-0.2
Closure
(%)
99.1
Bending Residues
( green )
  135 - 136
  233 - 243
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Mixed

PyMOL Script

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