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)	1n78 (B)
Conformer 2 (PDB)	9z2y (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	305	3.27	3 - 350
2	116	3.23	351 - 466

Sequence

`________________________________________________________________________________________________________________________` `1n78(B) : MVVTRIAPSPTGDPHVGTAYIALFNYAWARRNGGRFIVRIEDTDRARYVPGAEERILAALKWLGLSYDEGPDVGGPHGPYRQSERLPLYQKYAEELLKRGWAYRAFETPEELEQIRKE` `:` `9z2y(A) : WENVRVRVAPSPTGDPHVGTAYMALFNEIFAKRFKGKMILRIEDTDRTRSRQDYEENIFSALRWCGIQWDEGPDVGGPYGPYRQSERTKIYQGYVETLLKTDCAYKCF------------` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1n78(B) :` `KGGYDGRARNIPPEEAEERARRGEPHVIRLKVPRPGTTEVKDELRGVVVYDNQEIPDVVLLKSDGYPTYHLANVVDDHLMGVTDVIRAEEWLVSTPIHVLLYRAFGWEAPRFYHMPLLRN` `:` `9z2y(A) :` `------------------------pYTIRLKVPLSGECVFEDYSKGRVVFPWADVDDQVLVKSDGFPTYHFANVIDDHLMGITHVLRGEEWLSSTPKHLLLYEAFGWEPPVFLHMPLLLN` `________________________________________________________________________________________________________________________` `___________________________________________________________________________________________332__________________________` `1n78(B) : PDKTKISKRKSHTSLDWYKAEGFLPEALRNYLCLMGFSMPDGREIFTLEEFIQAFTWERVSLGGPVFDLEKLRWMNGKYIREVLSLEEVAERVKPFLREAGLSWESEAYLRRAVELMRPR` `:` `9z2y(A) : PDGTKLSKRKNPTSIFYYRDSGYVKEAFVNFLTLMGYSMEGDEEVYSLERIIETFNPRRIGKSGAVFDIQKLDWMNKHYLNHEGSPECLLKELQGWLL-------NDEFFLKILPLCQSR` `___________________________________________________________________________________________342__________________________` `________________________________________________________________________________________________________________________` `1n78(B) : FDTLKEFPEKARYLFTE--DYPVSEKAQRKL--EEGLPLLKELYPRLRAQEEWTEAALEALLRGFAAEKGVKLGQVAQPL-RAALTGSLETPGLFEILALLGKERALRRLERALA*` `:` `9z2y(A) : ITTLAEFINLTSFFFSGLLEYRVEELLPQALSPEKAAILLYSYVKYLEKTDQWTKETCYLGSKWLAQAFNVHHKKAIIPLLYVAITGKKQGLPLFDSIEILGKPRARARLVYAEKLLGGV` `________________________________________________________________________________________________________________________` `________________________` `1n78(B) : **********************` `:` `9z2y(A) : PKKLAATVDKFMQREDFEEATFDL` `________________________`

Morph

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Status: Initialising

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Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	179.8
Translation (A)	-1.6
Closure (%)	89.8
Bending Residues ( green )	332 - 351
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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