DynDom - Protein Domain Motions

Threonyl-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	Threonyl-Trna Synthetase
Conformer 1 (PDB)	6vu9 (A)
Conformer 2 (PDB)	1evl (A)
Window Length	7
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	323	1.66	245 - 404 407 - 410 469 - 479 483 - 630
2	63	0.82	405 - 406 411 - 468 480 - 482

Sequence

`________________________________________________________________________________________________________________________` `6vu9(A) : NITLPDGSRREFENPVSVMEVAQSIGAGLAKATIAGAVDGVLVDASDVIDHDASLRIITAKDEEGVEIIRHSCAHLVGHAVKQLYPDVKMVIGPVIAEGFYYDIYSERPFTPDDMAAIEK` `:` `1evl(A) : **********************************************************************************************************************` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6vu9(A) : RMGELIAQDYDVIKKMTPRAEVIEIFKARGEDYKLRLIEDMSEDIQAMGMYYHQEYVDMCRGPHVPNTRFLKAFKLTRISGAYWRGDAQNEQLQRIYGTAWADKKQLEAYIKRIEEAEMR` `:` `1evl(A) : *******************************************************************************************************************R` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6vu9(A) : DHRRIGKQQDLFHLQEEAPGLVFWHPKGWALWQVVEQYMRKVYRNSGYGEVRCPQILDVSLWKKSGHWDNYQDNMFFTESEKRTYAVKPMNCPGHIQVFNQGLHSYRDLPIRYGEFGSCH` `:` `1evl(A) : DHRKIGKQLDLYHMQEEAPGMVFWHNDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSYRDLPLRMAEFGSCH` `________________________________________________________________________________________________________________________` `_______________________________________404___410_______________________________________________________468______________` `6vu9(A) : RNEPSGALHGILRVRGFTQDDGHVFCTENQIESEVTAFHQQALAVYQHFGFDEIQIKIALRPESRLGDDATWDKAEGALRSALTACGVEWQELPGEGAFYGPKIEYHLKDAIGRTWQLGT` `:` `1evl(A) : RNEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDMYSTFGFEKIVVKLSTRPEKRIGSDEMWDRAEADLAVALEENNIPFEYQLGEGAFYGPKIEFTLYDCLDRAWQCGT` `_______________________________________404___410_______________________________________________________468______________` `________________________________________________________________________________________________________________________` `6vu9(A) : MQVDFMMPGRLGAEYVDENSQKKHPVMLHRAIVGSMERFLGILIEHHAGQFPAWLAPTQVVVANITDAQADYVSGVTKTLAEQGFRVSSDLRNEKIGYKIREHTLQRVPYLLVIGDREKE` `:` `1evl(A) : VQLDFSLPSRLSASYVGEDNERKVPVMIHRAILGSMERFIGILTEEFAGFFPTWLAPVQVVIMNITDSQSEYVNELTQKLSNAGIRVKADLRNEKIGFKIREHTLRRVPYMLVCGDKEVE` `________________________________________________________________________________________________________________________` `________________________________________` `6vu9(A) : NGAVAVRTRSGEDLGSMSLQAFIERLHAEGA*******` `:` `1evl(A) : SGKVAVRTRRGKDLGSMDVNEVIEKLQQEIRSRSLKQLEE` `________________________________________`

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)	11.9
Translation (A)	-0.5
Closure (%)	95.0
Bending Residues ( green )	404 - 407 410 - 411 468 - 483
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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