This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

3ewr

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 22:03, 2 December 2018

complex of substrate ADP-ribose with HCoV-229E Nsp3 ADRP domain

Structural highlights

3ewr is a 1 chain structure with sequence from Cvh22. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Related:	3ewo, 3ewp, 3ewq
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[R1A_CVH22] The papain-like proteinase 1 (PLP1) and papain-like proteinase 2 (PLP2) are responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PLP2 possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. PLP2 also antagonizes innate immune induction of type I interferon by blocking the nuclear translocation of host IRF-3 (By similarity). The main proteinase 3CL-PRO is responsible for the majority of cleavages as it cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-|-[SGACN]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK. Also contains an ADP-ribose-1-phosphate (ADRP)-binding function (By similarity). Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter (By similarity). Nsp9 is a ssRNA-binding protein (By similarity).

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

The coronaviruses are a large family of plus-strand RNA viruses that cause a wide variety of diseases both in humans and in other organisms. The coronaviruses are composed of three main lineages and have a complex organization of nonstructural proteins (nsp's). In the coronavirus, nsp3 resides a domain with the macroH2A-like fold and ADP-ribose-1"-monophosphatase (ADRP) activity, which is proposed to play a regulatory role in the replication process. However, the significance of this domain for the coronaviruses is still poorly understood due to the lack of structural information from different lineages. We have determined the crystal structures of two viral ADRP domains, from the group I human coronavirus 229E and the group III avian infectious bronchitis virus, as well as their respective complexes with ADP-ribose. The structures were individually solved to elucidate the structural similarities and differences of the ADRP domains among various coronavirus species. The active-site residues responsible for mediating ADRP activity were found to be highly conserved in terms of both sequence alignment and structural superposition, whereas the substrate binding pocket exhibited variations in structure but not in sequence. Together with data from a previous analysis of the ADRP domain from the group II severe acute respiratory syndrome coronavirus and from other related functional studies of ADRP domains, a systematic structural analysis of the coronavirus ADRP domains was realized for the first time to provide a structural basis for the function of this domain in the coronavirus replication process.

Crystal structures of two coronavirus ADP-ribose-1-monophosphatases and their complexes with ADP-Ribose: a systematic structural analysis of the viral ADRP domain.,Xu Y, Cong L, Chen C, Wei L, Zhao Q, Xu X, Ma Y, Bartlam M, Rao Z J Virol. 2009 Jan;83(2):1083-92. Epub 2008 Nov 5. PMID:18987156^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Xu Y, Cong L, Chen C, Wei L, Zhao Q, Xu X, Ma Y, Bartlam M, Rao Z. Crystal structures of two coronavirus ADP-ribose-1-monophosphatases and their complexes with ADP-Ribose: a systematic structural analysis of the viral ADRP domain. J Virol. 2009 Jan;83(2):1083-92. Epub 2008 Nov 5. PMID:18987156 doi:http://dx.doi.org/JVI.01862-08

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3ewr"

@@ Line 1: / Line 1: @@
 ==complex of substrate ADP-ribose with HCoV-229E Nsp3 ADRP domain==
 <StructureSection load='3ewr' size='340' side='right' caption='[[3ewr]], [[Resolution|resolution]] 2.01&Aring;' scene=''>
@@ Line 5: / Line 6: @@
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3ewo|3ewo]], [[3ewp|3ewp]], [[3ewq|3ewq]]</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ewr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ewr OCA], [http://pdbe.org/3ewr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ewr RCSB], [http://www.ebi.ac.uk/pdbsum/3ewr PDBsum]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ewr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ewr OCA], [http://pdbe.org/3ewr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ewr RCSB], [http://www.ebi.ac.uk/pdbsum/3ewr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ewr ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 13: / Line 14: @@
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ew/3ewr_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ew/3ewr_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 42: / Line 43: @@
 [[Category: Xu, Y]]
 [[Category: Zhao, Q]]
+[[Category: Cytoplasm]]
 [[Category: Globular like]]
 [[Category: Hydrolase]]
@@ Line 47: / Line 49: @@
 [[Category: Metal-binding]]
 [[Category: Protease]]
+[[Category: Ribosomal frameshifting]]
 [[Category: Rna-binding]]
 [[Category: Thiol protease]]
 [[Category: Transmembrane]]
+[[Category: Zinc]]
 [[Category: Zinc-finger]]

3ewr

From Proteopedia

Revision as of 22:03, 2 December 2018

complex of substrate ADP-ribose with HCoV-229E Nsp3 ADRP domain

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox