DynDom - Protein Domain Motions

Glutamate Receptor, Ionotropic Kainate 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, Ionotropic Kainate 2
Conformer 1 (PDB)	4mh5 (A)
Conformer 2 (PDB)	6jfz (C)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	130	1.14	5 - 97 204 - 240
2	110	3.84	98 - 203 241 - 244

Sequence

`________________________________________________________________________________________________________________________` `4mh5(A) : **********************************************************************************************************************` `:` `6jfz(C) : HVIRIGGIFEYADGPNAQVMNAEEHAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLALGVVAIFGPSQGSTTNAVQSICNALEVPHIQLRWKHHPLDNKDTFYVNLY` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `4mh5(A) : ********************************************************************************************************************` `:` `6jfz(C) : PDYASLSHAILDLVQSLKWRSATVVYDDSTGLIRLQELIMAPSRYNIRLKIRQLPIDSDDSRPLLKEMKRGREFRIIFDCSHTMAAQILKQAMAMGMMTEYYHFIFTTLDLYALDLEPYR` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `4mh5(A) : ********************************************************************************************************************` `:` `6jfz(C) : YSGVNLTGFRILNVDNPHVSAIVEKWSMERdGVMMTDAALLYDAVHIVSVTYQRAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKV` `________________________________________________________________________________________________________________________` `___________________________________________________________________________________________________________________97___` `4mh5(A) : ******************GTNRSLIVTTLLEEPFVMFRKSDRTLYGNDRFEGYCIDLLKELAHILGFSYEIRLVEDGKYGAQDDKGQWNGMVKELIDHKADLAVAPLTITHVREKA` `:` `6jfz(C) : GVWSPADGLNItNRSLIVTTLLEEPFVMFRKSDRTLYGNDRFEGYCIDLLKELAHILGFSYEIRLVEDGKYGAQDDKGQWNGMVKELIDHKADLAVAPLTITHVREKAIDFSKPFMTLGV` `__________________________________________________________________________________________________________________506___` `________________________________________________________________________________________________________________________` `4mh5(A) : IDFSKP--FM------------------------------------------------------------------------TLGVSILYRKGTPIDSADDLAKQTKIEYGAVKDGATMT` `:` `6jfz(C) : SILYRKPNGTNPSVFSFLNPLSPDIWMYVLLAYLGVSVVLFVIARaLSTRIIGGIWWFFTLIIISSYTANLAAFLTVERMESPIDSADDLAKQTKIEYGAVKDGATMTFFKKSKISTFEK` `________________________________________________________________________________________________________________________` `______________________________________________________203__________________________________240________________________` `4mh5(A) : FFKKSKISTFEKMWAFMSSKPSALVKNNEEGIQRTLTADYALLMESTTIEYITQRNCNLTQIGGLIDSKGYGIGTPMGSPYRDKITIAILQLQEEDKLHIMKEKWWRGSGCP****` `:` `6jfz(C) : MWAFMSSKpSALVKNNeEGIQRTLTADYALLMESTTIEYITQRNCNLTQIGGLIDSKGYGIGTPMGSPYRDKITIAILQLQEEDKLHIMKEKWWRGqKIGGIFIVLAAGLVLSVLVAV` `______________________________________________________732__________________________________769________________________`

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)	24.2
Translation (A)	2.0
Closure (%)	99.9
Bending Residues ( green )	97 - 98 203 - 204 240 - 241
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

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