DynDom - Protein Domain Motions

Lysyl-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	Lysyl-Trna Synthetase
Conformer 1 (PDB)	1e22 (A)
Conformer 2 (PDB)	1lyl (B)
Window Length	7
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	216	0.5	164 - 166 171 - 171 175 - 181 185 - 291 296 - 318 395 - 395 422 - 453 457 - 492 494 - 499
2	143	0.38	17 - 151 167 - 170 174 - 174 183 - 184 493 - 493
3	106	0.39	292 - 295 319 - 394 396 - 418 454 - 456

Sequence

`________________________________________________________________________________________________________________________` `1e22(A) : AIDFNDELRNRREKLAALRQQGVAFPNDFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRIMGKASFVTLQDVGGRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKT` `:` `1lyl(B) : ***FNDELRNRREKLAALRQQGVAFPNDFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRIMGKASFVTLQDVGGRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKT` `________________________________________________________________________________________________________________________` `__________________151__________170________181___________________________________________________________________________` `1e22(A) : QTGELSIHCTELRLLTKALRPLPd-QEVRYRQRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYLKRLVVGGFERVFE` `:` `1lyl(B) : QTGELSIHCTELRLLTKALRPLPDdQEVRYRQRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYLKRLVVGGFERVFE` `__________________151__________170________181___________________________________________________________________________` `________________________________291_295____________________318__________________________________________________________` `1e22(A) : INRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTESLFRTLAQEVLGTTKVTYGEHVFDFGKPFEKLTMREAIKKYRPETDMADLDNFDAAKALAESIGITVEKSWGLGRIVTEIFD` `:` `1lyl(B) : INRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTESLFRTLAQEVLGTTKVTYGEHVFDFGKPFEKLTMREAIKKYRPETDMADLDNFDAAKALAESIGITVEKSWGLGRIVTEIFD` `________________________________291_295____________________318__________________________________________________________` `_______________394_____________________418________________________________453____________________________________492____` `1e22(A) : EVAEAHLIQPTFITEYPAEVSPLARRNDVNPEITDRFEFFIGGREIGNGFSELNDAEDQAERFQEQVNAKAAGDDEAMFYDEDYVTALEYGLPPTAGLGIGIDRMIMLFTNSHTIRDVIL` `:` `1lyl(B) : EVAEAHLIQPTFITEYPAEVSPLARRNDVNPEITDRFEFFIGGREIGNGFSELNDAEDQAERFQEQVNAKAAGDDEAMFYDEDYVTALEYGLPPTAGLGIGIDRMIMLFTNSHTIRDVIL` `_______________394_____________________418________________________________453____________________________________492____` `______` `1e22(A) : FPAMRP` `:` `1lyl(B) : FPAMRP` `______`

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)	4.1
Translation (A)	-0.3
Closure (%)	96.9
Bending Residues ( green )	151 - 167 170 - 175 181 - 185 492 - 494
Bending Region Analysis

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( yellow )	3
Rotation Angle (deg)	3.5
Translation (A)	0.0
Closure (%)	94.7
Bending Residues ( green )	291 - 292 295 - 296 318 - 319 394 - 396 418 - 422 453 - 454 456 - 457
Bending Region Analysis

Dynamic Contact Graph

The dynamic contact graph is still being generated. Progress: Initialising

PyMOL Script

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