2q6d: Difference between revisions
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==Crystal structure of infectious bronchitis virus (IBV) main protease== | ==Crystal structure of infectious bronchitis virus (IBV) main protease== | ||
<StructureSection load='2q6d' size='340' side='right' caption='[[2q6d]], [[Resolution|resolution]] 2.35Å' scene=''> | <StructureSection load='2q6d' size='340' side='right'caption='[[2q6d]], [[Resolution|resolution]] 2.35Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[2q6d]] is a 3 chain structure with sequence from [ | <table><tr><td colspan='2'>[[2q6d]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Infectious_bronchitis_virus Infectious bronchitis virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Q6D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Q6D FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.35Å</td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2q6d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2q6d OCA], [https://pdbe.org/2q6d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2q6d RCSB], [https://www.ebi.ac.uk/pdbsum/2q6d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2q6d ProSAT]</span></td></tr> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | |||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/R1AB_IBVM R1AB_IBVM] The replicase polyprotein of coronaviruses is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products. The papain-like proteinase (PL-PRO) is responsible for the cleavages located at the N-terminus of replicase polyprotein. Activity of PL-PRO is dependent on zinc (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).[PROSITE-ProRule:PRU00772] The peptide p16 might be involved in the EGF signaling pathway. The helicase which contains a zinc finger structure displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity. Its ATPase activity is strongly stimulated by poly(U), poly(dT), poly(C), poly(dA), but not by poly(G) (By similarity). The exoribonuclease acts on both ssRNA and dsRNA in a 3' to 5' direction. Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter. Nsp9 is a ssRNA-binding protein. NendoU is a Mn(2+)-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond. | |||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
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==See Also== | ==See Also== | ||
*[[Virus protease|Virus protease]] | *[[Virus protease 3D structures|Virus protease 3D structures]] | ||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Infectious bronchitis virus]] | ||
[[Category: | [[Category: Large Structures]] | ||
[[Category: | [[Category: Bartlam M]] | ||
[[Category: | [[Category: Rao ZH]] | ||
[[Category: Xue | [[Category: Xue F]] | ||
[[Category: | [[Category: Xue XY]] | ||
[[Category: | [[Category: Yang HT]] | ||