DynDom - Protein Domain Motions

Glutamyl-Trna Synthetase

(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	Glutamyl-Trna Synthetase
Conformer 1 (PDB)	1g59 (C)
Conformer 2 (PDB)	1gln (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	261	1.08	3 - 12 16 - 18 20 - 157 160 - 160 165 - 165 168 - 203 212 - 252 267 - 269 276 - 281 283 - 292 296 - 296 298 - 305 315 - 317
2	203	1.11	13 - 15 19 - 19 158 - 159 161 - 164 166 - 167 204 - 211 253 - 266 270 - 275 282 - 282 293 - 295 297 - 297 306 - 314 318 - 466

Sequence

`__________12_15_18______________________________________________________________________________________________________` `1g59(C) : MVVTRIAPSPTGDPHVGTAYIALFNYAWARRNGGRFIVRIEDTDRARYVPGAEERILAALKWLGLSYDEGPDVAAPTGPYRQSERLPLYQKYAEELLKRGWAYRAFETPEELEQIRKEKG` `:` `1gln(A) : MVVTRIAPSPTGDPHVGTAYIALFNYAWARRNGGRFIVRIEDTDRARYVPGAEERILAALKWLGLSYDEGPDVAAPTGPYRQSERLPLYQKYAEELLKRGWAYRAFETPEELEQIRKEKG` `__________12_15_18______________________________________________________________________________________________________` `__________________________________157____164____________________________________203_____211_____________________________` `1g59(C) : GYDGRARNIPPEEAEERARRGEPHVIRLKVPRPGTTEVKDELRGVVVYDNQEIPDVVLLKSDGYPTYHLANVVDDHLMGVTDVIRAEEWLVSTPIHVLLYRAFGWEAPRFYHMPLLRNPD` `:` `1gln(A) : GYDGRARNIPPEEAEERARRGEPHVIRLKVPRPGTTEVKDELRGVVVYDNQEIPDVVLLKSDGYPTYHLANVVDDHLMGVTDVIRAEEWLVSTPIHVLLYRAFGWEAPRFYHMPLLRNPD` `__________________________________157____164____________________________________203_____211_____________________________` `_________252___________266_____274____281________292__________305______314______________________________________________` `1g59(C) : KTKISKRKSHTSLDWYKAEGFLPEALRNYLCLMGFSMPDGREIFTLEEFIQAFTWERVSLGGPVFDLEKLRWMNGKYIREVLSLEEVAERVKPFLREAGLSWESEAYLRRAVELMRPRFD` `:` `1gln(A) : KTKISKRKSHTSLDWYKAEGFLPEALRNYLCLMGFSMPDGREIFTLEEFIQAFTWERVSLGGPVFDLEKLRWMNGKYIREVLSLEEVAERVKPFLREAGLSWESEAYLRRAVELMRPRFD` `_________252___________266_____274____281________292__________305______314______________________________________________` `____________________________________________________________________________________________________________` `1g59(C) : TLKEFPEKARYLFTEDYPVSEKAQRKLEEGLPLLKELYPRLRAQEEWTEAALEALLRGFAAEKGVKLGQVAQPLRAALTGSLETPGLFEILALLGKERALRRLERALA` `:` `1gln(A) : TLKEFPEKARYLFTEDYPVSEKAQRKLEEGLPLLKELYPRLRAQEEWTEAALEALLRGFAAEKGVKLGQVAQPLRAALTGSLETPGLFEILALLGKERALRRLERALA` `____________________________________________________________________________________________________________`

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)	10.4
Translation (A)	-0.9
Closure (%)	13.8
Bending Residues ( green )	12 - 13 15 - 16 18 - 20 157 - 161 164 - 168 203 - 204 211 - 212 252 - 253 266 - 267 269 - 270 274 - 276 281 - 283 292 - 293 295 - 298 305 - 306 314 - 315 317 - 318
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

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