DynDom - Protein Domain Motions

Transient Receptor Potential Cation Channel Subfamily V Member 1

(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	Transient Receptor Potential Cation Channel Subfamily V Member 1
Conformer 1 (PDB)	3j5p (D)
Conformer 2 (PDB)	3j5q (G)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	304	1.1	113 - 352 355 - 357 387 - 425 429 - 429 499 - 511 695 - 707
2	52	0.7	353 - 354 358 - 386 708 - 760
3	232	1.51	426 - 428 430 - 498 512 - 694

Sequence

`________________________________________________________________________________________________________________________` `3j5p(D) : LYDRRSIFDAVAQSNCQELESLLPFLQRSKKRLTDSEFKDPETGKTCLLKAMLNLHNGQNDTIALLLDVARKTDSLKQFVNASYTDSYYKGQTALHIAIERRNMTLVTLLVENGADVQAA` `:` `3j5q(G) : LYDRRSIFDAVAQSNCQELESLLPFLQRSKKRLTDSEFKDPETGKTCLLKAMLNLHNGQNDTIALLLDVARKTDSLKQFVNASYTDSYYKGQTALHIAIERRNMTLVTLLVENGADVQAA` `________________________________________________________________________________________________________________________` `_______________________________________________________________________________________________________________________3` `3j5p(D) : ANGDFFKKTKGRPGFYFGELPLSLAACTNQLAIVKFLLQNSWQPADISARDSVGNTVLHALVEVADNTVDNTKFVTSMYNEILILGAKLHPTLKLEEITNRKGLTPLALAASSGKIGVLA` `:` `3j5q(G) : ANGDFFKKTKGRPGFYFGELPLSLAACTNQLAIVKFLLQNSWQPADISARDSVGNTVLHALVEVADNTVDNTKFVTSMYNEILILGAKLHPTLKLEEITNRKGLTPLALAASSGKIGVLA` `_______________________________________________________________________________________________________________________3` `52__357_________________________385_____________________________________425_____________________________________________` `3j5p(D) : YILQREIHEPECRHLSRKFTEWAYGPVHSSLYDLSCIDTCEKNSVLEVIAYSSSETPNRHDMLLVEPLNRLLQDKWDRFVKRIFYFNFFVYCLYMIIFTAAAYYRPVEGLPPYKLKNTVG` `:` `3j5q(G) : YILQREIHEPECRHLSRKFTEWAYGPVHSSLYDLSCIDTCEKNSVLEVIAYSSSETPNRHDMLLVEPLNRLLQDKWDRFVKRIFYFNFFVYCLYMIIFTAAAYYRPVEGLPPYKLKNTVG` `52__357_________________________385_____________________________________425_____________________________________________` `_________________________498_____511____________________________________________________________________________________` `3j5p(D) : DYFRVTGEILSVSGGVYFFFRGIQYFLQRRPSvDSYSEILFFVQSLFMLVSVVLYFSQRKEYVASMVFSLAMGWTNMLYYTRGFQQMGIYAVMIEKMILRDLCRFMFVYLVFLFGFSTAV` `:` `3j5q(G) : DYFRVTGEILSVSGGVYFFFRGIQYFLQRRPSvDSYSEILFFVQSLFMLVSVVLYFSQRKEYVASMVFSLAMGWTNMLYYTRGFQQMGIYAVMIEKMILRDLCRFMFVYLVFLFGFSTAV` `_________________________498_____511____________________________________________________________________________________` `_________________________________________________________________________694__________707_______________________` `3j5p(D) : VTLIEDGKYNSLYSTCLELFKFTIGMGDLEFTENYDFKAVFIILLLAYVILTYILLLNMLIALMGETVNKIAQESKNIWKLQRAITILDTEKSFLKCMRKAxXXXXXXXXXX` `:` `3j5q(G) : VTLIEDGKYNSLYSTCLELFKFTIGMGDLEFTENYDFKAVFIILLLAYVILTYILLLNMLIALMGETVNKIAQESKNIWKLQRAITILDTEKSFLKCMRKAxXXXXXXXXXX` `_________________________________________________________________________694__________707_______________________`

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
For more advanced options, right click on the model.

play backwards

pause

play forwards

Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	12.6
Translation (A)	-0.3
Closure (%)	82.1
Bending Residues ( green )	352 - 355 357 - 358 385 - 387 707 - 710
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	12.7
Translation (A)	-0.3
Closure (%)	29.8
Bending Residues ( green )	425 - 426 428 - 430 498 - 500 511 - 512 694 - 695
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

Conformer 1 Contact:
Residue 1 ———› Residue 3

Conformer 2 Contact:
Residue 3 ———› Residue 1

Movement classification: Shear

PyMOL Script

Download and extract PyMOL PML script file

Download