DynDom - Protein Domain Motions

Preprotein Translocase Seca Subunit

(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	Preprotein Translocase Seca Subunit
Conformer 1 (PDB)	2fsh (A)
Conformer 2 (PDB)	2fsf (B)
Window Length	7
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	621	0.82	16 - 212 220 - 373 379 - 641 658 - 774 802 - 812 818 - 829
2	60	1.58	213 - 219 374 - 378 642 - 657 775 - 801 813 - 817

Sequence

`________________________________________________________________________________________________________________________` `2fsh(A) : RNDRTLRRMRKVVNIINAMEPEMEKLSDEELKGKTAEFRARLEKGEVLENLIPEAFAVVREASKRVFGMRHFDVQLLGGMVLNERCIAEMRTGEGKTLTATLPAYLNALTGKGVHVVTV` `:` `2fsf(B) : SRNDRTLRRMRKVVNIINAMEPEMEKLSDEELKGKTAEFRARLEKGEVLENLIPEAFAVVREASKRVFGMRHFDVQLLGGMVLNERCIAEMRTGEGKTLTATLPAYLNALTGKGVHVVTV` `________________________________________________________________________________________________________________________` `______________________________________________________________________________212____219________________________________` `2fsh(A) : NDYLAQRDAENNRPLFEFLGLTVGINLPGMPAPAKREAYAADITYGTNNEYGFDYLRDNMAFSPEERVQRKLHYALVDEVDSILIDEARTPLIISGPAEDS-------------------` `:` `2fsf(B) : NDYLAQRDAENNRPLFEFLGLTVGINLPGMPAPAKREAYAADITYGTNNEYGFDYLRDNMAFSPEERVQRKLHYALVDEVDSILIDEARTPLIISGPAEDSvLIEELLVKEGIMDEGESL` `______________________________________________________________________________212____219________________________________` `_____________________373__378___________________________________________________________________________________________` `2fsh(A) :` `----------------qNENQTLASITFQNYFRLYEKLAGMTGTADTEAFEFSSIYKLDTVVVPTNRPMIRKDLPDLVYMTEAEKIQAIIEDIKERTAKGQPVLVGTISIEKSELVSNEL` `:` `2fsf(B) :` `YSPANIMLMHHVTAAiQNENQTLASITFQNYFRLYEKLAGMTGTADTEAFEFSSIYKLDTVVVPTNRPMIRKDLPDLVYMTEAEKIQAIIEDIKERTAKGQPVLVGTISIEKSELVSNEL` `_____________________373__378___________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `2fsh(A) : TKAGIKHNVLNAKFHANEAAIVAQAGYPAAVTIATNMAGRGTDIVLGGSWQAEVAALENPTAEQIEKIKADWQVRHDAVLEAGGLHIIGTERHESRRIDNQLRGRSGRQGDAGSSRFYLS` `:` `2fsf(B) : TKAGIKHNVLNAKFHANEAAIVAQAGYPAAVTIATNMAGRGTDIVLGGSWQAEVAALENPTAEQIEKIKADWQVRHDAVLEAGGLHIIGTERHESRRIDNQLRGRSGRQGDAGSSRFYLS` `________________________________________________________________________________________________________________________` `_________________________________________________641_____________657____________________________________________________` `2fsh(A) : MEDALMRIFASDRVSGMMRKLGMKPGEAIEHPWVTKAIANAQRKVESRNFDIRKQLLEYDDVANDQRRAIYSQRNELLDVSDVSETINSIREDVFKATIDAYIPPQSLEEMWDIPGLQER` `:` `2fsf(B) : MEDALMRIFASDRVSGMMRKLGMKPGEAIEHPWVTKAIANAQRKVESRNFDIRKQLLEYDDVANDQRRAIYSQRNELLDVSDVSETINSIREDVFKATIDAYIPPQSLEEMWDIPGLQER` `_________________________________________________641_____________657____________________________________________________` `______________________________________________________________774________________________801_____________817____________` `2fsh(A) : LKNDFDLDLPIAEWLDKEPELHEETLRERILAQSIEVYQRKEEVVGAEMMRHFEKGVMLQTLDSLWKEHLAAMDYLRQGIHLRGYAQKDPKQEYKRESFSMFAAMLESLKYEVISTLSKV` `:` `2fsf(B) : LKNDFDLDLPIAEWLDKEPELHEETLRERILAQSIEVYQRKEEVVGAEMMRHFEKGVMLQTLDSLWKEHLAAMDYLRQGIHLRGYAQKDPKQEYKRESFSMFAAMLESLKYEVISTLSKV` `______________________________________________________________774________________________801_____________817____________` `_______` `2fsh(A) : QVRMPEE` `:` `2fsf(B) : QVR***` `_______`

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)	11.2
Translation (A)	0.0
Closure (%)	46.5
Bending Residues ( green )	212 - 213 219 - 220 373 - 374 378 - 379 641 - 642 657 - 658 774 - 775 801 - 813 817 - 818
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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