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)
3oen (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 158 1.74   9 - 135   237 - 283
2 81 0.86   136 - 236

Sequence


           ________________________________________________________________________________________________________________________ 
 4nf5(B) : *NHLSIVTLEEAPFVIVEDI------cVRNTVPCRKFVKINNSTNEGMNVKKCCKGFCIDILKKLSRTVKFTYDLYLVTNGKHGKKVNNVWNGMIGEVVYQRAVMAVGSLTINEERSEVV 
         :                                                                                                                          
 3oen(A) : TQHLTVATLEERPFVIVEPADPISGTCIRDSVPCRS----------QLpEKRCCKGFCIDILKRLAHTIGFSYDLYLVTNGKHGKKIDGVWNGMIGEVFYQRADMAIGSLTINEERSEIV 
           ________________________________________________________________________________________________________________________ 

           _______135_______________________________________________________________________________________________233____________ 
 4nf5(B) : DFSVPFVETGISVMVSRGTQVTGLSDKKFQRPHDYSPPFRFGTVPNGSTERNIRNNYPYMHQYMTRFNQRGVEDALVSLKTGKLDAFIYDAAVLNYKAGRDEGCKLVTIGSGYIFATTGY 
         :                                                                                                                          
 3oen(A) : DFSVPFVETGISVMVAR--------------------pLKFGTVPNGSTEKNIRSNYPDMHSYMVRYNQPRVEEALTQLKAGKLDAFIYDAAVLNYMARKDEGCKLVTIGSGKVFATTGY 
           _______135_______________________________________________________________________________________________233____________ 

           ________________________________________                                                                                 
 4nf5(B) : GIALQKGSPWKRQIDLALLQFVGDGEMEELETLWLTGICH                                                                                 
         :                                                                                                                          
 3oen(A) : GIALHKGSRWKRPIDLALLQFLGDDEIEMLERLWLSGICH                                                                                 
           ________________________________________                                                                                 

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
17.4
Translation
(A)
-0.3
Closure
(%)
98.3
Bending Residues
( green )
  135 - 136
  233 - 240
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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