DynDom - Protein Domain Motions

Glutamate Receptor 2, Linker, Glutamate Receptor 2

(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 2, Linker, Glutamate Receptor 2
Conformer 1 (PDB)	3tza (A)
Conformer 2 (PDB)	4u2p (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	140	0.61	1 - 93 180 - 185 202 - 242
2	103	1.31	94 - 179 186 - 201 243 - 243

Sequence

`________________________________________________________________________________________________________________________` `3tza(A) : **********************************************************************************************************************` `:` `4u2p(A) : IQIGGLFPRGADQEYSAFRVGMVQFSTSEFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPTDGTHPFVIQMRPDLKGALLSLIEYYQWD` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `3tza(A) : ********************************************************************************************************************` `:` `4u2p(A) : KFAYLYDSDRGLSTLQAVLDSAAEKKWQVTAINVGNINNDKKDETYRSLFQDLELKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDLLKIQFGGAEVSGFQIVDYD` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `3tza(A) : ********************************************************************************************************************` `:` `4u2p(A) : DSLVSKFIERWSTLEEKEYPGAHTATIKYTSALTYDAVQVMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLSGNIKFDQNGKRINYTINIMELKTNGPRKI` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `3tza(A) : *******************************ANKTVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIA` `:` `4u2p(A) : GYWSEVDKMVVTLTEDDTSGLEQKTVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVI` `________________________________________________________________________________________________________________________` `________93______________________________________________________________________________________________________________` `3tza(A) : IAPLTITLVREEVIDFSK----------------------------------------------------------------------------PFMSLGISIMIKKGTPIESAEDLSKQ` `:` `4u2p(A) : DFSKPFMSLGISIMIKKPQKSKPGVFSFLDPLAYEIWMAIVFAYIGVSVVLFLVSRpRSLSARIVAGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLSKQTEIAYGTLDSGSTK` `_______499______________________________________________________________________________________________________________` `_________________________________________________179___185_____________201______________________________________242_____` `3tza(A) : TEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGNAVNLAVLKLNEQGLLDKL` `:` `4u2p(A) : EFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGTPVNLAVLKLSEQGVLDKLKNKWWYDKGECGAK` `_________________________________________________708___714_____________730______________________________________771_____` `___________________________________` `3tza(A) : KNKWWYDKGECG*********************` `:` `4u2p(A) : DSGSKEKTSALSLSNVAGVFYILVGGLGLAMLVAL` `___________________________________`

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	9.4
Translation (A)	-0.2
Closure (%)	97.8
Bending Residues ( green )	93 - 94 179 - 180 185 - 186 201 - 202 242 - 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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