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| | <StructureSection load='3vcf' size='340' side='right'caption='[[3vcf]], [[Resolution|resolution]] 2.70Å' scene=''> | | <StructureSection load='3vcf' size='340' side='right'caption='[[3vcf]], [[Resolution|resolution]] 2.70Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3vcf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Ssv1 Ssv1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VCF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VCF FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3vcf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Sulfolobus_spindle-shaped_virus_1 Sulfolobus spindle-shaped virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VCF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VCF FirstGlance]. <br> |
| - | </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[4dks|4dks]]</div></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.7Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">d335 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=244589 SSV1])</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=3vcf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vcf OCA], [https://pdbe.org/3vcf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vcf RCSB], [https://www.ebi.ac.uk/pdbsum/3vcf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vcf ProSAT]</span></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=3vcf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vcf OCA], [https://pdbe.org/3vcf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vcf RCSB], [https://www.ebi.ac.uk/pdbsum/3vcf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vcf ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[https://www.uniprot.org/uniprot/INTG_SSV1 INTG_SSV1]] This protein may encode a site-specific integrase, which is necessary for integration of the phage by site-specific recombination into a tRNA gene of the host chromosome. Essential for virus infection.
| + | [https://www.uniprot.org/uniprot/VINT_SSV1 VINT_SSV1] This protein may encode a site-specific integrase, which is necessary for integration of the phage by site-specific recombination into a tRNA gene of the host chromosome. Essential for virus infection.<ref>PMID:10430570</ref> <ref>PMID:22683788</ref> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </div> | | </div> |
| | <div class="pdbe-citations 3vcf" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 3vcf" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[Retroviral integrase 3D structures|Retroviral integrase 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Ssv1]] | + | [[Category: Sulfolobus spindle-shaped virus 1]] |
| - | [[Category: Huang, L]] | + | [[Category: Huang L]] |
| - | [[Category: Liang, W]] | + | [[Category: Liang W]] |
| - | [[Category: Liu, Z J]] | + | [[Category: Liu Z-J]] |
| - | [[Category: Ouyang, S]] | + | [[Category: Ouyang S]] |
| - | [[Category: Catalyzes site-specific integration]]
| + | |
| - | [[Category: Recombination]]
| + | |
| Structural highlights
Function
VINT_SSV1 This protein may encode a site-specific integrase, which is necessary for integration of the phage by site-specific recombination into a tRNA gene of the host chromosome. Essential for virus infection.[1] [2]
Publication Abstract from PubMed
The spindle-shaped virus SSV1 of the hyperthermophilic archaeon Sulfolobus shibatae encodes an integrase (SSV1 Int). Here, the crystal structure of the C-terminal catalytic domain of SSV1 Int is reported. This is the first structural study of an archaeal tyrosine recombinase. Structural comparison shows that the C-terminal domain of SSV1 Int possesses a core fold similar to those of tyrosine recombinases of both bacterial and eukaryal origin, apart from the lack of a conserved helix corresponding to alphaI of Cre, indicating conservation of these enzymes among all three domains of life. Five of the six catalytic residues cluster around a basic cleft on the surface of the structure and the nucleophile Tyr314 is located on a flexible loop that stretches away from the central cleft, supporting the possibility that SSV1 Int cleaves the target DNA in a trans mode. Biochemical analysis suggests that the N-terminal domain is responsible for the dimerization of SSV1 Int. The C-terminal domain is capable of DNA cleavage and ligation, but at efficiencies significantly lower than those of the full-length protein. In addition, neither the N-terminal domain alone nor the C-terminal domain alone shows a strong sequence preference in DNA binding. Therefore, recognition of the core-type sequence and efficient catalysis by SSV1 Int presumably requires covalent linkage and interdomain communication between the two domains.
Structural and functional characterization of the C-terminal catalytic domain of SSV1 integrase.,Zhan Z, Ouyang S, Liang W, Zhang Z, Liu ZJ, Huang L Acta Crystallogr D Biol Crystallogr. 2012 Jun;68(Pt 6):659-70. doi:, 10.1107/S0907444912007202. Epub 2012 May 17. PMID:22683788[3]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Stedman KM, Schleper C, Rumpf E, Zillig W. Genetic requirements for the function of the archaeal virus SSV1 in Sulfolobus solfataricus: construction and testing of viral shuttle vectors. Genetics. 1999 Aug;152(4):1397-405. PMID:10430570
- ↑ Zhan Z, Ouyang S, Liang W, Zhang Z, Liu ZJ, Huang L. Structural and functional characterization of the C-terminal catalytic domain of SSV1 integrase. Acta Crystallogr D Biol Crystallogr. 2012 Jun;68(Pt 6):659-70. doi:, 10.1107/S0907444912007202. Epub 2012 May 17. PMID:22683788 doi:http://dx.doi.org/10.1107/S0907444912007202
- ↑ Zhan Z, Ouyang S, Liang W, Zhang Z, Liu ZJ, Huang L. Structural and functional characterization of the C-terminal catalytic domain of SSV1 integrase. Acta Crystallogr D Biol Crystallogr. 2012 Jun;68(Pt 6):659-70. doi:, 10.1107/S0907444912007202. Epub 2012 May 17. PMID:22683788 doi:http://dx.doi.org/10.1107/S0907444912007202
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