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 (A)
Window Length	7
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	131	3.19	6 - 97 205 - 240 242 - 244
2	108	2.04	98 - 204 241 - 241

Sequence

`________________________________________________________________________________________________________________________` `4mh5(A) : **********************************************************************************************************************` `:` `6jfz(A) : HVIRIGGIFEYADGPNAQVMNAEEHAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLALGVVAIFGPSQGSTTNAVQSICNALEVPHIQLRWKHHPLDNKDTFYVNLY` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `4mh5(A) : ********************************************************************************************************************` `:` `6jfz(A) : PDYASLSHAILDLVQSLKWRSATVVYDDSTGLIRLQELIMAPSRYNIRLKIRQLPIDSDDSRPLLKEMKRGREFRIIFDCSHTMAAQILKQAMAMGMMTEYYHFIFTTLDLYALDLEPYR` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `4mh5(A) : ********************************************************************************************************************` `:` `6jfz(A) : YSGVNLTGFRILNVDNPHVSAIVEKWSMERLQgVMMTDAALLYDAVHIVSVTYQRAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEK` `________________________________________________________________________________________________________________________` `___________________________________________________________________________________________________________________97___` `4mh5(A) : ******************GTNRSLIVTTLLEEPFVMFRKSDRTLYGNDRFEGYCIDLLKELAHILGFSYEIRLVEDGKYGAQDDKGQWNGMVKELIDHKADLAVAPLTITHVREKA` `:` `6jfz(A) : VGVWSPADGLNItNRSLIVTTLLEEPFVMFRKSDRTLYGNDRFEGYCIDLLKELAHILGFSYEIRLVEDGKYGAQDDKGQWNGMVKELIDHKADLAVAPLTITHVREKAIDFSKPFMTLG` `__________________________________________________________________________________________________________________505___` `________________________________________________________________________________________________________________________` `4mh5(A) : IDFSKPF--MT-----------------------------------------------------------------------LGVSILYRKGTPIDSADDLAKQTKIEYGAVKDGATMTF` `:` `6jfz(A) : VSILYRKPNGTNPSVFSFLNPLSPDIWMYVLLAYLGVSVVLFVIARlSTRIIGGIWWFFTLIIISSYTANLAAFLTVERMESPIDSADDLAKQTKIEYGAVKDGATMTFFKKSKISTFEK` `________________________________________________________________________________________________________________________` `_____________________________________________________203__________________________________240_________________________` `4mh5(A) : FKKSKISTFEKMWAFMSSKPSALVKNNEEGIQRTLTADYALLMESTTIEYITQRNCNLTQIGGLIDSKGYGIGTPMGSPYRDKITIAILQLQEEDKLHIMKEKWWRGSGCP*****` `:` `6jfz(A) : MWAFMSSKpSALVKNNeEGIQRTLTADYALLMESTTIEYITQRNCNLTQIGGLIDSKGYGIGTPMGSPYRDKITIAILQLQEEDKLHIMKEKWWRGqKIGGIFIVLAAGLVLSVLVAV` `_____________________________________________________731__________________________________768_________________________`

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)	25.9
Translation (A)	1.2
Closure (%)	100.0
Bending Residues ( green )	97 - 98 203 - 205 240 - 244
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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