About: A mobile loop near the active site acts as a switch between the dual activities of a viral protease/deubiquitinase

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About: A mobile loop near the active site acts as a switch between the dual activities of a viral protease/deubiquitinase Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	A mobile loop near the active site acts as a switch between the dual activities of a viral protease/deubiquitinase
Creator	Jupin, Isabelle Ayach, Maya Bressanelli, Stéphane Fieulaine, Sonia Jomat, Lucile
Source	Medline; PMC
abstract	The positive-strand RNA virus Turnip yellow mosaic virus (TYMV) encodes an ovarian tumor (OTU)-like protease/deubiquitinase (PRO/DUB) protein domain involved both in proteolytic processing of the viral polyprotein through its PRO activity, and in removal of ubiquitin chains from ubiquitylated substrates through its DUB activity. Here, the crystal structures of TYMV PRO/DUB mutants and molecular dynamics simulations reveal that an idiosyncratic mobile loop participates in reversibly constricting its unusual catalytic site by adopting %22open%22, %22intermediate%22 or %22closed%22 conformations. The two cis-prolines of the loop form a rigid flap that in the most closed conformation zips up against the other side of the catalytic cleft. The intermediate and closed conformations also correlate with a reordering of the TYMV PRO/DUB catalytic dyad, that then assumes a classical, yet still unusually mobile, OTU DUB alignment. Further structure-based mutants designed to interfere with the loop's mobility were assessed for enzymatic activity in vitro and in vivo, and were shown to display reduced DUB activity while retaining PRO activity. This indicates that control of the switching between the dual PRO/DUB activities resides prominently within this loop next to the active site. Introduction of mutations into the viral genome revealed that the DUB activity contributes to the extent of viral RNA accumulation both in single cells and in whole plants. In addition, the conformation of the mobile flap was also found to influence symptoms severity in planta. Such mutants now provide powerful tools with which to study the specific roles of reversible ubiquitylation in viral infection.
has issue date	2017-11-08(xsd:dateTime)
bibo:doi	10.1371/journal.ppat.1006714
bibo:pmid	29117247
has license	cc-by
sha1sum (hex)	01a462bf8cf2cd973d1651b991d27c9556d2ae3c
schema:url	https://doi.org/10.1371/journal.ppat.1006714
resource representing a document's title	A mobile loop near the active site acts as a switch between the dual activities of a viral protease/deubiquitinase
has PubMed Central identifier	PMC5695851
has PubMed identifier	29117247
schema:publication	PLoS Pathog
resource representing a document's body	covid:01a462bf8cf2cd973d1651b991d27c9556d2ae3c#body_text
is schema:about of	named entity 'VIRAL' named entity 'catalytic' named entity 'conformations' named entity 'provide' named entity 'genome' named entity 'structure-based' named entity 'viral' named entity 'acts' named entity 'active site' named entity 'SWITCH' named entity 'CELLS' named entity 'TO DISPLAY' named entity 'PRO' named entity 'OTU' named entity 'THE DUB' named entity 'CLEFT' named entity 'POWERFUL' named entity 'NEXT TO' named entity 'STRUCTURE' named entity 'INVOLVED' named entity 'ADDITION' named entity 'PROMINENTLY' named entity 'CLASSICAL' named entity 'ACTS' named entity 'CLOSED' named entity 'SINGLE' named entity 'ROLES' named entity 'SPECIFIC' named entity '27S' named entity 'PROTEASE' named entity 'REVEALED' named entity 'POLYPROTEIN' named entity 'SYMPTOMS' named entity 'INTRODUCTION' named entity 'CHAINS' named entity 'ASSESSED' named entity 'VIRAL RNA' named entity 'FOUND' named entity 'MOBILE' named entity 'REVEAL' named entity 'ENZYMATIC ACTIVITY' named entity 'INTERFERE' named entity 'LOOP' named entity 'UBIQUITYLATION' named entity 'PLANTS' named entity 'SEVERITY' named entity 'VIRAL' named entity 'ACTIVE SITE' named entity 'MUTATIONS' named entity 'MOBILE' named entity 'LOOP' named entity 'REMOVAL' named entity 'INFLUENCE' named entity 'OVARIAN TUMOR' named entity 'DUB' named entity 'ACTIVITY' covid:arg/01a462bf8cf2cd973d1651b991d27c9556d2ae3c named entity 'TOOLS' named entity 'ACTIVITIES' named entity 'IN PLANTA' named entity 'LIKE' named entity 'BASED' named entity 'CONFORMATION' named entity 'NEAR' named entity 'PROTEASE' named entity 'DYAD' named entity 'STUDY' named entity 'CATALYTIC SITE' named entity 'FORM' named entity 'MOBILITY' named entity 'VIRAL INFECTION' named entity 'ADOPTING' named entity 'RIGID' named entity 'HERE' named entity 'CRYSTAL' named entity 'EXTENT OF' named entity 'ALIGNMENT'

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