DynDom - Protein Domain Motions

Toll-Like Receptor 3

(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	Toll-Like Receptor 3
Conformer 1 (PDB)	2a0z (A)
Conformer 2 (PDB)	1ziw (A)
Window Length	7
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	533	0.96	36 - 521 527 - 546 563 - 574 585 - 594 612 - 617 638 - 642
2	73	0.48	522 - 526 547 - 562 575 - 584 595 - 611 618 - 637 643 - 647

Sequence

`________________________________________________________________________________________________________________________` `2a0z(A) : TKCTVSHEVADCSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVK` `:` `1ziw(A) : **VSHEVADCSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVK` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2a0z(A) : QKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSN` `:` `1ziw(A) : QKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSN` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2a0z(A) : TTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLS` `:` `1ziw(A) : TTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQ------lPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLS` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2a0z(A) : LSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPL` `:` `1ziw(A) : LSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPL` `________________________________________________________________________________________________________________________` `_____________521__526____________541__________________562________573________584_______594______________611___617________` `2a0z(A) : RNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSV` `:` `1ziw(A) : RNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSV` `_____________521__526____________541__________________562________573________584_______594______________611___617________` `_________637___________________________________________________________` `2a0z(A) : EKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWINETHTNIPELSSHYLCNTPPHYHGFPVRLFDTSSC` `:` `1ziw(A) : EKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWINET******************************` `_________637___________________________________________________________`

Morph

This morph was created using the MorphIt_Pro protein morphing technique.
For more advanced options, right click on the model.

play backwards

pause

play forwards

Domain Pairs

Property	Value
Fixed Domain ( blue )	1
Moving Domain ( red )	2
Rotation Angle (deg)	2.1
Translation (A)	-0.3
Closure (%)	99.8
Bending Residues ( green )	521 - 522 526 - 527 541 - 547 562 - 563 573 - 575 584 - 585 594 - 595 611 - 612 617 - 618 637 - 643
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

Download and extract PyMOL PML script file

Download