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)	1nyr (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	389	2.62	242 - 638
2	235	1.51	7 - 241

Sequence

`________________________________________________________________________________________________________________________` `1nyr(A) : INIQFPDGNKKAFDKGTTTEDIAQSISPGLRKKAVAGKFNGQLVDLTKPLETDGSIEIVTPGSEEALEVLRHSTAHLMAHAIKRLYGNVKFGVGPVIEGGFYYDFDIDQNISSDDFEQIE` `:` `6vu9(A) : NITLPDGSRREFENPVSVMEVAQSIGAGLAKATIAGAVDGVLVDASDVIDHDASLRIITAKDEEGVEIIRHSCAHLVGHAVKQLYPDVKMVIGPVIAEGFYYDIYSERPFTPDDMAAIE` `________________________________________________________________________________________________________________________` `______________________________________________________________________________________________________________________24` `1nyr(A) : KTMKQIVNENMKIERKVVSRDEAKELFS--NDEYKLELIDAIPED-ENVTLYSQGDFTDLCRGVHVPSTAKIKEFKLLSTAGAYWRGDSNNKMLQRIYGTAFFDKKELKAHLQMLEERKE` `:` `6vu9(A) : KRMGELIAQDYDVIKKMTPRAEVIEIFKARGEDYKLRLIEDMSEDIQAMGMYYHQEYVDMCRGPHVPNTRFLKAFKLTRISGAYWRGDAQNEQLQRIYGTAWADKKQLEAYIKRIEEAEM` `______________________________________________________________________________________________________________________24` `1_______________________________________________________________________________________________________________________` `1nyr(A) : RDHRKIGKELELFTNSQLVGAGLPLWLPNGATIRREIERYIVDKEVSMGYDHVYTPVLANVDLYKTSGHWDHYQEDMFPPMQLDETESMVLRPMNCPHHMMIYANKPHSYRELPIRIAEL` `:` `6vu9(A) : RDHRRIGKQQDLF-HLQEEAPGLVFWHPKGWALWQVVEQYMRKVYRNSGYGEVRCPQILDVSLWKKSGHWDNYQDNMF--FTESEKRTYAVKPMNCPGHIQVFNQGLHSYRDLPIRYGEF` `2_______________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1nyr(A) : GTMHRYEASGAVSGLQRVRGMTLNDSHIFVRPDQIKEEFKRVVNMIIDVYKDFGFEDYSFRLSYRDPEDKEKYFDDDDMWNKAENMLKEAADELGLSYEEAIGEAAFYGPKLDVQVKTAM` `:` `6vu9(A) : GSCHRNEPSGALHGILRVRGFTQDDGHVFCTENQIESEVTAFHQQALAVYQHFGFDEIQIKIALR-PESR---LGDDATWDKAEGALRSALTACGVEWQELPGEGAFYGPKIEYHLKDAI` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `1nyr(A) : GKEETLSTAQLDFLLPERFDLTYIGQDGEHHRPVVIHRGVVSTMERFVAFLTEETKGAFPTWLAPKQVQIIPVNVDLHYDYARQLQDELKSQGVRVSIDDRNEKMGYKIREAQMQKIPYQ` `:` `6vu9(A) : GRTWQLGTMQVDFMMPGRLGAEYVDENSQKKHPVMLHRAIVGSMERFLGILIEHHAGQFPAWLAPTQVVVANIT-DAQADYVSGVTKTLAEQGFRVSSDLRNEKIGYKIREHTLQRVPYL` `________________________________________________________________________________________________________________________` `_____________________________________________` `1nyr(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)	50.0
Translation (A)	0.4
Closure (%)	87.1
Bending Residues ( green )	241 - 242
Bending Region Analysis

Dynamic Contact Graph

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

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

Movement classification: Hinge

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