DynDom - Protein Domain Motions

Glycogen [Starch] Synthase Isoform 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	Glycogen [Starch] Synthase Isoform 2
Conformer 1 (PDB)	3naz (B)
Conformer 2 (PDB)	4kqm (C)
Window Length	9
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	245	0.6	285 - 370 431 - 594
2	303	0.5	6 - 273 599 - 635
3	47	1.05	371 - 430

Sequence

`________________________________________________________________________________________________________________________` `3naz(B) : SRDLQNHLLFETATEVANRVGGIYSVLKSKAPITVAQYKDHYHLIGPLNKATYQNEVDILDWKKPEAFSDEMRPVQHALQTMESRGVHFVYGRWLIEGAPKVILFDLDSVRGYSNEWKGD` `:` `4kqm(C) : SRDLQNHLLFETATEVANRVGGIYSVLKSKAPITVAQYKDHYHLIGPLNKATYQNEVDILDWKKPEAFSDEMRPVQHALQTMESRGVHFVYGRWLIEGAPKVILFDLDSVRGYSNEWKGD` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `3naz(B) : LWSLVGIPSPENDFETNDAILLGYTVAWFLGEVAHLDSQHAIVAHFHEWLAGVALPLCRKRRIDVVTIFTTHATLLGRYLCASG--dFYNCLESVDVDHEAGRFGIYHRYCIERAAAHSA` `:` `4kqm(C) : LWSLVGIPSPENDFETNDAILLGYTVAWFLGEVAHLDSQHAIVAHFHQWLAGVALPLCRKRRIDVVTIFTTHATLLGRYLCASGSFDFYNCLESVDVDHEAGRFGIYHRYCIERAAAHSA` `________________________________________________________________________________________________________________________` `___________________________271__________________________________________________________________________________________` `3naz(B) : DVFTTVSQITAFEAEHLLKRKPDGILPNGLNVIKFQ-------lHALKKEKINDFVRGHFHGCFDFDLDNTLYFFIAGRYEYKNKGADMFIEALARLNYRLKVSGSKKTVVAFIVMPAKN` `:` `4kqm(C) : DVFTTVSQITAFEAEHLLKRKPDGILPNGLNVIKFQAFHEFQNLHALKKEKINDFVRGHFHGCFDFDLDNTLYFFIAGRYEYKNKGADMFIEALARLNYRLKVSGSKKTVVAFIVMPAKN` `___________________________271__________________________________________________________________________________________` `______370_________________________________________________________430___________________________________________________` `3naz(B) : NSFTVEALKGQAEVRALENTVHEVTTSIGKRIFDHAIRYP-------------eLLKSSDKVMLKRRILALRRPEGQLPPIVTHNMVDDANDLILNKIRQVQLFNSPSDRVKMIFHPEFL` `:` `4kqm(C) : NSFTVEALKGQAEVRALENTVHEVTTSIGKRIFDHAIRYPHNGLTTELPTDLGELLKSSDKVMLKRRILALRRPEGQLPPIVTHNMVDDANDLILNKIRQVQLFNSPSDRVKMIFHPEFL` `______370_________________________________________________________430___________________________________________________` `_____________________________________________________________________________________________________________593________` `3naz(B) : NANNPILGLDYDEFVRGCHLGVFPSYYEPWGYTPAECTVMGVPSITTNVSGFGSYMEDL-----aKDYGIYIVDRRFKAPDESVEQLVDYMEEFVKKTAAQAINQRNRTERLSDLLDWKR` `:` `4kqm(C) : NANNPILGLDYDEFVRGCHLGVFPSYYEPWGYTPAECTVMGVPSITTNVSGFGSYMEDLIETNQAKDYGIYIVDRRFKAPDESVEQLVDYMEEFVKKTRRQRINQRNRTERLSDLLDWKR` `_____________________________________________________________________________________________________________593________` `______________________________________` `3naz(B) : MGLEYVKARQLALRRGYPDQFRELVGEELNDSNMDALA` `:` `4kqm(C) : MGLEYVKARQLALRRGYPDQFRELVGEELNDSNMDALA` `______________________________________`

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)	17.6
Translation (A)	0.8
Closure (%)	99.5
Bending Residues ( green )	271 - 288 593 - 600
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	10.1
Translation (A)	0.1
Closure (%)	100.0
Bending Residues ( green )	370 - 371 430 - 431
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

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