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

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	327	1.96	3 - 341
2	125	2.72	342 - 466

Sequence

`________________________________________________________________________________________________________________________` `1n78(A) : MVVTRIAPSPTGDPHVGTAYIALFNYAWARRNGGRFIVRIEDTDRARYVPGAEERILAALKWLGLSYDEGPDVGGPHGPYRQSERLPLYQKYAEELLKRGWAYRAFETPEELEQIRKE` `:` `9zpg(B) : TRPVRTRIAPSPTGFPHVGTAYIALFNLVFAKSMGGEFILRIEDTDQtKQ---SEQMILDALKWAGLSWAEGPDVGGPHAPYRQSERADIYKKYAEKLLDDGHAFRCFCTPEELDAMREA` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1n78(A) : K--GG----YDGRARNIPPEEAEERARRGEPHVIRLKVPRPGTTEVKDELRGVVVYDNQEIPDVVLLKSDGYPTYHLANVVDDHLMGVTDVIRAEEWLVSTPIHVLLYRAFGWEAPRFYH` `:` `9zpg(B) : QMAAGLPVKYDGRYANLSREESDALVAQGKPFVIRMRVPSSGVCTIKDMLRGEVVIPWEQVDMQVLLKTDGLPTYHLANVVDDHLMQITHVLRGEEWLPSAPKHQLLYEYFGWQMPELCH` `________________________________________________________________________________________________________________________` `_______________________________________________________________________________________________330______________________` `1n78(A) : MPLLRNPDKTKISKRKSHTSLDWYKAEGFLPEALRNYLCLMGFSMPDGREIFTLEEFIQAFTWERVSLGGPVFDLEKLRWMNGKYIREVLSLEEVAERVKPFLREAGLSWESE-AYLRRA` `:` `9zpg(B) : MPLLRNPDKSKLSKRKNPTSITYYRDAGILPEALMNYLGRMGYSLPNEQEKFTLDEMIQSFDIQRISLGGPVFDIEKLYWLNGEYLR-TLSVDDLKNKI--------LAWASDDTKLTAI` `_______________________________________________________________________________________________338______________________` `________________________________________________________________________________________________________________________` `1n78(A) : VELMRPRFDTLKEFPEKARYLFTEDYPVSEK--AQRKL--EEGLPLLKELYPRLRAQEEWTEAALEALLRGFAAEKGVKLGQVAQPLRAALTGSLETPGLFEILALLGKERALRRLERAL` `:` `9zpg(B) : ARAIQPRINLLSDAINWAGFYFQNLPAITAEDFAHKSLDNEQILEILYLATWQLENLPIWSEENIYQTLKGLAAHFDIKLKDFMQPFFVAIAGSTSSTPVMNSMYIIGADMTLARLRHAC` `________________________________________________________________________________________________________________________` `_________________________` `1n78(A) : A**********************` `:` `9zpg(B) : EILGGLGKKKLKKLEEKNKSLPNFL` `_________________________`

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)	178.6
Translation (A)	4.3
Closure (%)	95.5
Bending Residues ( green )	330 - 344
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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