4hly

From Proteopedia

(Difference between revisions)

Revision as of 08:26, 3 November 2022

The complex crystal structure of the DNA binding domain of vIRF-1 from the oncogenic KSHV with DNA

Structural highlights

4hly is a 4 chain structure with sequence from Human gammaherpesvirus 8 and Synthetic construct. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

VIRF1_HHV8P Plays a role in the inhibition of host innate response by repressing the expression of interferon-inducible genes and blocking host IRF1- and IRF3-mediated transcription. Blocks the interaction between host IRF3 and CREBBP. Regulates the host cellular metabolism by increasing glucose uptake, ATP production and lactate secretion through down-regulation of heterogeneous nuclear ribonuclear protein Q1/SYNCRIP. Mechanistically, induces ubiquitination and degradation of SYNCRIP through the ubiquitin-proteasome pathway by recruiting KLHL3/CUL3 ubiquitin ligase complex (PubMed:35538151). Disrupts host TP53 signaling pathway during viral infection by interacting with host USP7 and thereby decreasing the availability of USP7 for deubiquitinating and stabilizing TP53 (PubMed:26786098).^[1] ^[2] ^[3] ^[4] ^[5]

Publication Abstract from PubMed

Kaposi's sarcoma-associated herpesvirus encodes four viral homologues to cellular interferon regulatory factors (IRFs), where the most studied is vIRF-1. Even though vIRF-1 shows sequence homology to the N-terminal DNA-binding domain (DBD) of human IRFs, a specific role for this domain in vIRF-1's function has remained uncertain. To provide insights into the function of the vIRF-1 DBD, we have determined the crystal structure of it in complex with DNA and in its apo-form. Using a thermal stability shift assay (TSSA), we show that the vIRF-1 DBD binds DNA, whereas full-length vIRF-1 does not, suggesting a cis-acting regulatory mechanism in similarity to human IRFs. The complex structure of vIRF-1 DBD reveals interactions with the DNA backbone and the positioning of two arginines for specific recognition in the major grove. A superimposition with human IRF-3 reveals a similar positioning of the two specificity-determining arginines, and additional TSSAs indicate binding of vIRF-1 to an IRF-3 operator consensus sequence. The results from this study, therefore, provide support that vIRF-1 has evolved to bind DNA and plays a role in DNA binding in the context of transcriptional regulation and might act on some of the many operator sequences controlled by human IRF-3.

The crystal structure of the DNA-binding domain of vIRF-1 from the oncogenic KSHV reveals a conserved fold for DNA binding and reinforces its role as a transcription factor.,Hew K, Dahlroth SL, Venkatachalam R, Nasertorabi F, Lim BT, Cornvik T, Nordlund P Nucleic Acids Res. 2013 Feb 21. PMID:23435230^[6]

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

References

↑ Lin R, Genin P, Mamane Y, Sgarbanti M, Battistini A, Harrington WJ Jr, Barber GN, Hiscott J. HHV-8 encoded vIRF-1 represses the interferon antiviral response by blocking IRF-3 recruitment of the CBP/p300 coactivators. Oncogene. 2001 Feb 15;20(7):800-11. doi: 10.1038/sj.onc.1204163. PMID:11314014 doi:http://dx.doi.org/10.1038/sj.onc.1204163
↑ Chavoshi S, Egorova O, Lacdao IK, Farhadi S, Sheng Y, Saridakis V. Identification of Kaposi Sarcoma Herpesvirus (KSHV) vIRF1 Protein as a Novel Interaction Partner of Human Deubiquitinase USP7. J Biol Chem. 2016 Mar 18;291(12):6281-91. doi: 10.1074/jbc.M115.710632. Epub 2016, Jan 19. PMID:26786098 doi:http://dx.doi.org/10.1074/jbc.M115.710632
↑ Qi X, Yan Q, Shang Y, Zhao R, Ding X, Gao SJ, Li W, Lu C. A viral interferon regulatory factor degrades RNA-binding protein hnRNP Q1 to enhance aerobic glycolysis via recruiting E3 ubiquitin ligase KLHL3 and decaying GDPD1 mRNA. Cell Death Differ. 2022 Nov;29(11):2233-2246. doi: 10.1038/s41418-022-01011-1., Epub 2022 May 10. PMID:35538151 doi:http://dx.doi.org/10.1038/s41418-022-01011-1
↑ Gao SJ, Boshoff C, Jayachandra S, Weiss RA, Chang Y, Moore PS. KSHV ORF K9 (vIRF) is an oncogene which inhibits the interferon signaling pathway. Oncogene. 1997 Oct 16;15(16):1979-85. doi: 10.1038/sj.onc.1201571. PMID:9365244 doi:http://dx.doi.org/10.1038/sj.onc.1201571
↑ Zimring JC, Goodbourn S, Offermann MK. Human herpesvirus 8 encodes an interferon regulatory factor (IRF) homolog that represses IRF-1-mediated transcription. J Virol. 1998 Jan;72(1):701-7. doi: 10.1128/JVI.72.1.701-707.1998. PMID:9420276 doi:http://dx.doi.org/10.1128/JVI.72.1.701-707.1998
↑ Hew K, Dahlroth SL, Venkatachalam R, Nasertorabi F, Lim BT, Cornvik T, Nordlund P. The crystal structure of the DNA-binding domain of vIRF-1 from the oncogenic KSHV reveals a conserved fold for DNA binding and reinforces its role as a transcription factor. Nucleic Acids Res. 2013 Feb 21. PMID:23435230 doi:http://dx.doi.org/10.1093/nar/gkt082

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4hly"

Categories: Human gammaherpesvirus 8 | Large Structures | Synthetic construct | Hew K | Venkatachalam R

@@ Line 1: / Line 1: @@
 ==The complex crystal structure of the DNA binding domain of vIRF-1 from the oncogenic KSHV with DNA==
-<StructureSection load='4hly' size='340' side='right' caption='[[4hly]], [[Resolution|resolution]] 1.48&Aring;' scene=''>
+<StructureSection load='4hly' size='340' side='right'caption='[[4hly]], [[Resolution|resolution]] 1.48&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4hly]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Hhv-8 Hhv-8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HLY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HLY FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4hly]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_gammaherpesvirus_8 Human gammaherpesvirus 8] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HLY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HLY FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ORF K9, vIRF, vIRF-1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=37296 HHV-8])</td></tr>
+</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=4hly FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hly OCA], [https://pdbe.org/4hly PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hly RCSB], [https://www.ebi.ac.uk/pdbsum/4hly PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hly ProSAT]</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=4hly FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hly OCA], [http://pdbe.org/4hly PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4hly RCSB], [http://www.ebi.ac.uk/pdbsum/4hly PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4hly ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/VIRF1_HHV8P VIRF1_HHV8P] Plays a role in the inhibition of host innate response by repressing the expression of interferon-inducible genes and blocking host IRF1- and IRF3-mediated transcription. Blocks the interaction between host IRF3 and CREBBP. Regulates the host cellular metabolism by increasing glucose uptake, ATP production and lactate secretion through down-regulation of heterogeneous nuclear ribonuclear protein Q1/SYNCRIP. Mechanistically, induces ubiquitination and degradation of SYNCRIP through the ubiquitin-proteasome pathway by recruiting KLHL3/CUL3 ubiquitin ligase complex (PubMed:35538151). Disrupts host TP53 signaling pathway during viral infection by interacting with host USP7 and thereby decreasing the availability of USP7 for deubiquitinating and stabilizing TP53 (PubMed:26786098).<ref>PMID:11314014</ref> <ref>PMID:26786098</ref> <ref>PMID:35538151</ref> <ref>PMID:9365244</ref> <ref>PMID:9420276</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 16: / Line 17: @@
 </div>
 <div class="pdbe-citations 4hly" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Interferon regulatory factor|Interferon regulatory factor]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Hhv-8]]
+[[Category: Human gammaherpesvirus 8]]
-[[Category: Hew, K]]
+[[Category: Large Structures]]
-[[Category: Venkatachalam, R]]
+[[Category: Synthetic construct]]
-[[Category: Dna binding protein-dna complex]]
+[[Category: Hew K]]
-[[Category: Helix-turn-helix]]
+[[Category: Venkatachalam R]]

4hly

From Proteopedia

Revision as of 08:26, 3 November 2022

The complex crystal structure of the DNA binding domain of vIRF-1 from the oncogenic KSHV with DNA

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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