5wfe

From Proteopedia

(Difference between revisions)

Revision as of 09:33, 18 July 2018

Cas1-Cas2-IHF-DNA holo-complex

Structural highlights

5wfe is a 12 chain structure with sequence from Eco45 and Ecoli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Gene:	ygbT, cas1, b2755, JW2725 (ECOLI), ygbF, cas2, b2754, JW5438 (ECOLI), ihfA, himA, ECS88_1763 (ECO45), ihfB, himD, ECS88_0940 (ECO45)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[IHFA_ECO45] This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control. [CAS2_ECOLI] CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Functions as a ssRNA-specific endoribonuclease (By similarity).^[1] [IHFB_ECO45] This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control. [CAS1_ECOLI] CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Cas1 is thought to be involved in CRISPR adaptation, the first stage of CRISPR immunity. Might be involved in the addition/removal of CRISPR spacers. Endonucleolytically cleaves linear ssRNA, ssDNA and short (34 base) dsDNA as well as branched DNA substrates such as Holliday junctions, replication forks and 5'-flap DNA substrates. Genetic interactions suggest Cas1 interacts with components of the RecBC and RuvB DNA repair systems.^[2]

Publication Abstract from PubMed

CRISPR-Cas systems depend on the Cas1-Cas2 integrase to capture and integrate short foreign DNA fragments into the CRISPR locus, enabling adaptation to new viruses. We present crystal structures of Cas1-Cas2 bound to both donor and target DNA in intermediate and product integration complexes, as well as a cryo-electron microscopy structure of the full CRISPR locus integration complex including the accessory protein Integration Host Factor (IHF). The structures show unexpectedly that indirect sequence recognition dictates integration site selection by favoring deformation of the repeat and the flanking sequences. IHF binding bends the DNA sharply, bringing an upstream recognition motif into contact with Cas1 to increase both the specificity and efficiency of integration. These results explain how the Cas1-Cas2 CRISPR integrase recognizes a sequence-dependent DNA structure to ensure site-selective CRISPR array expansion during the initial step of bacterial adaptive immunity.

Structures of the CRISPR genome integration complex.,Wright AV, Liu JJ, Knott GJ, Doxzen KW, Nogales E, Doudna JA Science. 2017 Jul 20. pii: eaao0679. doi: 10.1126/science.aao0679. PMID:28729350^[3]

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

References

↑ Perez-Rodriguez R, Haitjema C, Huang Q, Nam KH, Bernardis S, Ke A, DeLisa MP. Envelope stress is a trigger of CRISPR RNA-mediated DNA silencing in Escherichia coli. Mol Microbiol. 2011 Feb;79(3):584-99. doi: 10.1111/j.1365-2958.2010.07482.x. Epub, 2010 Dec 13. PMID:21255106 doi:10.1111/j.1365-2958.2010.07482.x
↑ Perez-Rodriguez R, Haitjema C, Huang Q, Nam KH, Bernardis S, Ke A, DeLisa MP. Envelope stress is a trigger of CRISPR RNA-mediated DNA silencing in Escherichia coli. Mol Microbiol. 2011 Feb;79(3):584-99. doi: 10.1111/j.1365-2958.2010.07482.x. Epub, 2010 Dec 13. PMID:21255106 doi:10.1111/j.1365-2958.2010.07482.x
↑ Wright AV, Liu JJ, Knott GJ, Doxzen KW, Nogales E, Doudna JA. Structures of the CRISPR genome integration complex. Science. 2017 Jul 20. pii: eaao0679. doi: 10.1126/science.aao0679. PMID:28729350 doi:http://dx.doi.org/10.1126/science.aao0679

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/5wfe"

@@ Line 3: / Line 3: @@
 <StructureSection load='5wfe' size='340' side='right' caption='[[5wfe]], [[Resolution|resolution]] 3.64&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5wfe]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WFE FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5wfe]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco45 Eco45] and [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WFE FirstGlance]. <br>
-</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=5wfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wfe OCA], [http://pdbe.org/5wfe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wfe RCSB], [http://www.ebi.ac.uk/pdbsum/5wfe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wfe ProSAT]</span></td></tr>
+</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ygbT, cas1, b2755, JW2725 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI]), ygbF, cas2, b2754, JW5438 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI]), ihfA, himA, ECS88_1763 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=585035 ECO45]), ihfB, himD, ECS88_0940 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=585035 ECO45])</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=5wfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wfe OCA], [http://pdbe.org/5wfe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wfe RCSB], [http://www.ebi.ac.uk/pdbsum/5wfe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wfe ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 17: / Line 18: @@
 </div>
 <div class="pdbe-citations 5wfe" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Endonuclease|Endonuclease]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
+[[Category: Eco45]]
+[[Category: Ecoli]]
 [[Category: Doudna, J A]]
 [[Category: Liu, J J]]

5wfe

From Proteopedia

Revision as of 09:33, 18 July 2018

Cas1-Cas2-IHF-DNA holo-complex

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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