DynDom - Protein Domain Motions

Threonyl-Trna Synthetase 1

(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	Threonyl-Trna Synthetase 1
Conformer 1 (PDB)	1nyq (A)
Conformer 2 (PDB)	6vu9 (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	388	2.53	243 - 638
2	236	1.63	7 - 242

Sequence

`________________________________________________________________________________________________________________________` `1nyq(A) : INIQFPDGNKKAFDKGTTTEDIAQSISPGLRKKAVAGKFNGQLVDLTKPLETDGSIEIVTPGSEEALEVLRHSTAHLMAHAIKRLYGNVKFGVGPVIEGGFYYDFDIDQNISSDDFEQIE` `:` `6vu9(A) : NITLPDGSRREFENPVSVMEVAQSIGAGLAKATIAGAVDGVLVDASDVIDHDASLRIITAKDEEGVEIIRHSCAHLVGHAVKQLYPDVKMVIGPVIAEGFYYDIYSERPFTPDDMAAIE` `________________________________________________________________________________________________________________________` `_______________________________________________________________________________________________________________________2` `1nyq(A) : KTMKQIVNENMKIERKVVSRDEAKELFS--NDEYKLELIDAIPED-ENVTLYSQGDFTDLCRGVHVPSTAKIKEFKLLSTAGAYWRGDSNNKMLQRIYGTAFFDKKELKAHLQMLEERKE` `:` `6vu9(A) : KRMGELIAQDYDVIKKMTPRAEVIEIFKARGEDYKLRLIEDMSEDIQAMGMYYHQEYVDMCRGPHVPNTRFLKAFKLTRISGAYWRGDAQNEQLQRIYGTAWADKKQLEAYIKRIEEAEM` `_______________________________________________________________________________________________________________________2` `42______________________________________________________________________________________________________________________` `1nyq(A) : RDHRKIGKELELFTNSQLVGAGLPLWLPNGATIRREIERYIVDKEVSMGYDHVYTPVLANVDLYKTSGHWDHYQEDMFPPMQLDETESMVLRPMNCPHHMMIYANKPHSYRELPIRIAEL` `:` `6vu9(A) : RDHRRIGKQQDLF-HLQEEAPGLVFWHPKGWALWQVVEQYMRKVYRNSGYGEVRCPQILDVSLWKKSGHWDNYQDNMF--FTESEKRTYAVKPMNCPGHIQVFNQGLHSYRDLPIRYGEF` `43______________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1nyq(A) : GTMHRYEASGAVSGLQRVRGMTLNDSHIFVRPDQIKEEFKRVVNMIIDVYKDFGFEDYSFRLSYRDPEDKEKYFDDDDMWNKAENMLKEAADELGLSYEEAIGEAAFYGPKLDVQVKTAM` `:` `6vu9(A) : GSCHRNEPSGALHGILRVRGFTQDDGHVFCTENQIESEVTAFHQQALAVYQHFGFDEIQIKIALR-PESR---LGDDATWDKAEGALRSALTACGVEWQELPGEGAFYGPKIEYHLKDAI` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1nyq(A) : GKEETLSTAQLDFLLPERFDLTYIGQDGEHHRPVVIHRGVVSTMERFVAFLTEETKGAFPTWLAPKQVQIIPVNVDLHYDYARQLQDELKSQGVRVSIDDRNEKMGYKIREAQMQKIPYQ` `:` `6vu9(A) : GRTWQLGTMQVDFMMPGRLGAEYVDENSQKKHPVMLHRAIVGSMERFLGILIEHHAGQFPAWLAPTQVVVANIT-DAQADYVSGVTKTLAEQGFRVSSDLRNEKIGYKIREHTLQRVPYL` `________________________________________________________________________________________________________________________` `_____________________________________________` `1nyq(A) : IVVGDKEVENNQVNVRQYGSQDQETVEKDEFIWNLVDEIRLKKHR` `:` `6vu9(A) : LVIGDREKENGAVAVRTRSGEDLGSMSLQAFIERLHAEGA****` `_____________________________________________`

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)	49.1
Translation (A)	-0.2
Closure (%)	86.7
Bending Residues ( green )	242 - 243
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification:

No Contacts

PyMOL Script

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