DynDom - Protein Domain Motions

Hcv Ns3 Protease/helicase

(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	Hcv Ns3 Protease/helicase
Conformer 1 (PDB)	3o8b (A)
Conformer 2 (PDB)	3o8r (A)
Window Length	5
Minimum ratio	1.0
Minimum domain size	20

Domains

Domain	Size	Backbone RMSD (A)	Residues
1	510	0.69	-13 - 330 392 - 395 431 - 447 481 - 627
2	129	1.21	331 - 391 396 - 430 448 - 480

Sequence

`________________________________________________________________________________________________________________________` `3o8b(A) : GSVVIVGRIILSGSGSITAYSQQTRGLLGCIITSLTGRDKNQVEGEVQVVSTATQSFLATCVNGVCWTVYHGAGSKTLAGPKGPITQMYTNVDQDLVGWQAPPGARSLTPCTCGSSDLYL` `:` `3o8r(A) : GSVVIVGRIILSGSGSITAYSQQTRGLLGCIITSLTGRDKNQVEGEVQVVSTATQSFLATCVNGVCWTVYHGAGSKTLAGPKGPITQMYTNVDQDLVGWQAPPGARSLTPCTCGSSDLYL` `________________________________________________________________________________________________________________________` `________________________________________________________________________________________________________________________` `3o8b(A) : VTRHADVIPVRRRGDSRGSLLSPRPVSYLKGSSGGPLLCPSGHAVGIFRAAVCTRGVAKAVDFVPVESMETTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAYAAQGYKVL` `:` `3o8r(A) : VTRHADVIPVRRRGDSRGSLLSPRPVSYLKGSSGGPLLCPSGHAVGIFRAAVCTRGVAKAVDFVPVESMETTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAYAAQGYKVL` `________________________________________________________________________________________________________________________` `_____________________________________________________________________________________________________330________________` `3o8b(A) : VLNPSVAATLGFGAYMSKAHGIDPNIRTGVRTITTGAPVTYSTYGKFLADGGCSGGAYDIIICDECHSTDSTTILGIGTVLDQAETAGARLVVLATATPPGSVTVPHPNIEEVALSNTGE` `:` `3o8r(A) : VLNPSVAATLGFGAYMSKAHGIDPNIRTGVRTITTGAPVTYSTYGKFLADGGCSGGAYDIIICDECHSTDSTTILGIGTVLDQAETAGARLVVLATATPPGSVTVPHPNIEEVALSNTGE` `_____________________________________________________________________________________________________330________________` `__________________________________________391_395________________________________430______________447___________________` `3o8b(A) : IPFYGKAIPIEAIRGGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSVIPTIGDVVVVATDALMTGYTGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRTG` `:` `3o8r(A) : IPFYGKAIPIEAIRGGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSVIPTIGDVVVVATDALMTGYTGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRTG` `__________________________________________391_395________________________________430______________447___________________` `___________480__________________________________________________________________________________________________________` `3o8b(A) : RGRRGIYRFVTPGERPSGMFDSSVLCECYDAGCAWYELTPAETSVRLRAYLNTPGLPVCQDHLEFWESVFTGLTHIDAHFLSQTKQAGDNFPYLVAYQATVCARAQAPPPSWDQMWKCLI` `:` `3o8r(A) : RGRRGIYRFVTPGERPSGMFDSSVLCECYDAGCAWYELTPAETSVRLRAYLNTPGLPVCQDHLEFWESVFTGLTHIDAHFLSQTKQAGDNFPYLVAYQATVCARAQAPPPSWDQMWKCLI` `___________480__________________________________________________________________________________________________________` `_____________________________________________` `3o8b(A) : RLKPTLHGPTPLLYRLGAVQNEVTLTHPITKYIMACMSADLEVVT` `:` `3o8r(A) : RLKPTLHGPTPLLYRLGAVQNEVTLTHPITKYIMACMSADLEVVT` `_____________________________________________`

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)	7.2
Translation (A)	0.1
Closure (%)	86.4
Bending Residues ( green )	330 - 331 391 - 392 395 - 396 430 - 431 447 - 448 480 - 481
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Mixed

PyMOL Script

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