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)	3nb0 (B)
Conformer 2 (PDB)	4kqm (C)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	335	0.34	197 - 201 208 - 209 218 - 218 224 - 226 246 - 252 273 - 501 505 - 513 519 - 524 526 - 598
2	299	0.54	4 - 196 202 - 207 210 - 217 219 - 223 227 - 245 253 - 272 502 - 504 514 - 518 525 - 525 599 - 637

Sequence

`________________________________________________________________________________________________________________________` `3nb0(B) : SRDLQNHLLFETATEVANRVGGIYSVLKSKAPITVAQYKDHYHLIGPLNKATYQNEVDILDWKKPEAFSDEMRPVQHALQTMESRGVHFVYGRWLIEGAPKVILFDLDSVRGYSNEWKGD` `:` `4kqm(C) : SRDLQNHLLFETATEVANRVGGIYSVLKSKAPITVAQYKDHYHLIGPLNKATYQNEVDILDWKKPEAFSDEMRPVQHALQTMESRGVHFVYGRWLIEGAPKVILFDLDSVRGYSNEWKGD` `________________________________________________________________________________________________________________________` `________________________________________________________________________196__201___207_______217________________________` `3nb0(B) : LWSLVGIPSPENDFETNDAILLGYTVAWFLGEVAHLDSQHAIVAHFHEWLAGVALPLCRKRRIDVVTIFTTHATLLGRYLCASGSFDFYNCLESVDVDHEAGRFGIYHRYCIERAAAHSA` `:` `4kqm(C) : LWSLVGIPSPENDFETNDAILLGYTVAWFLGEVAHLDSQHAIVAHFHQWLAGVALPLCRKRRIDVVTIFTTHATLLGRYLCASGSFDFYNCLESVDVDHEAGRFGIYHRYCIERAAAHSA` `________________________________________________________________________196__201___207_______217________________________` `_245____252_________________272_________________________________________________________________________________________` `3nb0(B) : DVFTTVSQITAFEAEHLLKRKPDGILPNGLNVIKFQAFHEFQNLHALKKEKINDFVRGHFHGCFDFDLDNTLYFFIAGRYEYKNKGADMFIEALARLNYRLKVSGSKKTVVAFIVMPAKN` `:` `4kqm(C) : DVFTTVSQITAFEAEHLLKRKPDGILPNGLNVIKFQAFHEFQNLHALKKEKINDFVRGHFHGCFDFDLDNTLYFFIAGRYEYKNKGADMFIEALARLNYRLKVSGSKKTVVAFIVMPAKN` `_245____252_________________272_________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `3nb0(B) : NSFTVEALKGQAEVRALENTVHEVTTSIGKRIFDHAIRYPHNGLTTELPTDLGELLKSSDKVMLKRRILALRRPEGQLPPIVTHNMVDDANDLILNKIRQVQLFNSPSDRVKMIFHPEFL` `:` `4kqm(C) : NSFTVEALKGQAEVRALENTVHEVTTSIGKRIFDHAIRYPHNGLTTELPTDLGELLKSSDKVMLKRRILALRRPEGQLPPIVTHNMVDDANDLILNKIRQVQLFNSPSDRVKMIFHPEFL` `________________________________________________________________________________________________________________________` `_________________501_____509______518___524_______________________________________________________________________598___` `3nb0(B) : NANNPILGLDYDEFVRGCHLGVFPSYYEPWGYTPAECTVMGVPSITTNVSGFGSYMEDLIETNQAKDYGIYIVDRRFKAPDESVEQLVDYMEEFVKKTRRQRINQRNATEALSDLLDWKR` `:` `4kqm(C) : NANNPILGLDYDEFVRGCHLGVFPSYYEPWGYTPAECTVMGVPSITTNVSGFGSYMEDLIETNQAKDYGIYIVDRRFKAPDESVEQLVDYMEEFVKKTRRQRINQRNRTERLSDLLDWKR` `_________________501_____509______518___524_______________________________________________________________________598___` `_____________________________________________` `3nb0(B) : MGLEYVKARQLALRRGYPDQFRELVGEELNDSNMDALAGGKKLKV` `:` `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)	4.5
Translation (A)	0.0
Closure (%)	99.2
Bending Residues ( green )	196 - 197 201 - 202 207 - 210 217 - 227 245 - 246 252 - 253 272 - 273 501 - 502 504 - 506 509 - 514 518 - 519 524 - 526 598 - 599
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Shear

PyMOL Script

Download and extract PyMOL PML script file

Download