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 (B)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	324	1.55	244 - 305 309 - 404 409 - 415 470 - 480 482 - 485 488 - 631
2	64	1.03	306 - 308 405 - 408 416 - 469 481 - 481 486 - 487

Sequence

`________________________________________________________________________________________________________________________` `6vu9(A) : NITLPDGSRREFENPVSVMEVAQSIGAGLAKATIAGAVDGVLVDASDVIDHDASLRIITAKDEEGVEIIRHSCAHLVGHAVKQLYPDVKMVIGPVIAEGFYYDIYSERPFTPDDMAAIEK` `:` `1evl(B) : **********************************************************************************************************************` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `6vu9(A) : RMGELIAQDYDVIKKMTPRAEVIEIFKARGEDYKLRLIEDMSEDIQAMGMYYHQEYVDMCRGPHVPNTRFLKAFKLTRISGAYWRGDAQNEQLQRIYGTAWADKKQLEAYIKRIEEAEMR` `:` `1evl(B) : *******************************************************************************************************************R` `________________________________________________________________________________________________________________________` `____________________________________________________________305_________________________________________________________` `6vu9(A) : DHRRIGKQQDLFHLQEEAPGLVFWHPKGWALWQVVEQYMRKVYRNSGYGEVRCPQILDVSLWKKSGHWDNYQDNMFFTESEKRTYAVKPMNCPGHIQVFNQGLHSYRDLPIRYGEFGSCH` `:` `1evl(B) : DHRKIGKQLDLYHMQEEAPGMVFWHNDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSYRDLPLRMAEFGSCH` `____________________________________________________________305_________________________________________________________` `_______________________________________404_408___414____________________________________________________469_____________` `6vu9(A) : RNEPSGALHGILRVRGFTQDDGHVFCTENQIESEVTAFHQQALAVYQHFGFDEIQIKIALRPESRLGDDATWDKAEGALRSALTACGVEWQELPGEGAFYGPKIEYHLKDAIGRTWQLGT` `:` `1evl(B) : RNEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDMYSTFGFEKIVVKLSTRPEKRIGSDEMWDRAEADLAVALEENNIPFEYQLGEGAFYGPKIEFTLYDCLDRAWQCGT` `_______________________________________404_408___414____________________________________________________469_____________` `485_____________________________________________________________________________________________________________________` `6vu9(A) : MQVDFMMPGRLGAEYVDENSQKKHPVMLHRAIVGSMERFLGILIEHHAGQFPAWLAPTQVVVANITDAQADYVSGVTKTLAEQGFRVSSDLRNEKIGYKIREHTLQRVPYLLVIGDREKE` `:` `1evl(B) : VQLDFSLPSRLSASYVGEDNERKVPVMIHRAILGSMERFIGILTEEFAGFFPTWLAPVQVVIMNITDSQSEYVNELTQKLSNAGIRVKADLRNEKIGFKIREHTLRRVPYMLVCGDKEVE` `485_____________________________________________________________________________________________________________________` `________________________________________` `6vu9(A) : NGAVAVRTRSGEDLGSMSLQAFIERLHAEGA*******` `:` `1evl(B) : 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)	13.6
Translation (A)	0.0
Closure (%)	88.1
Bending Residues ( green )	305 - 316 404 - 406 408 - 409 414 - 417 469 - 482 485 - 488
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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