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4dks

From Proteopedia

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[[Image:4dks.jpg|left|200px]]
 
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==A spindle-shaped virus protein (chymotrypsin treated)==
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The line below this paragraph, containing "STRUCTURE_4dks", creates the "Structure Box" on the page.
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<StructureSection load='4dks' size='340' side='right'caption='[[4dks]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[4dks]] is a 1 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=4DKS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4DKS FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</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=4dks FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4dks OCA], [https://pdbe.org/4dks PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4dks RCSB], [https://www.ebi.ac.uk/pdbsum/4dks PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4dks ProSAT]</span></td></tr>
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</table>
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{{STRUCTURE_4dks| PDB=4dks | SCENE= }}
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== Function ==
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[[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>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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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.
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===A spindle-shaped virus protein (chymotrypsin treated)===
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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<ref>PMID:22683788</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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==About this Structure==
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</div>
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[[4dks]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_virus_1 Sulfolobus virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DKS OCA].
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<div class="pdbe-citations 4dks" style="background-color:#fffaf0;"></div>
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[[Category: Sulfolobus virus 1]]
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== References ==
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[[Category: Huang, L.]]
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<references/>
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[[Category: Liang, W.]]
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__TOC__
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[[Category: Liu, Z J.]]
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</StructureSection>
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[[Category: Ouyang, S.]]
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[[Category: Large Structures]]
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[[Category: Catalytic domain]]
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[[Category: Sulfolobus spindle-shaped virus 1]]
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[[Category: Integrase]]
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[[Category: Huang L]]
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[[Category: Recombination]]
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[[Category: Liang W]]
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[[Category: Seven-helice]]
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[[Category: Liu Z-J]]
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[[Category: The c174 domain of ssv1 int]]
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[[Category: Ouyang S]]
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[[Category: Three-stranded antiparallel-sheets']]
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Current revision

A spindle-shaped virus protein (chymotrypsin treated)

PDB ID 4dks

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