3pkm

From Proteopedia

(Difference between revisions)

Revision as of 13:40, 5 August 2016

Crystal structure of Cas6 with its substrate RNA

Structural highlights

3pkm is a 4 chain structure with sequence from Atcc 43587. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Gene:	PF1131 (ATCC 43587)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[CAS6_PYRFU] 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), also called psiRNA (prokaryotic silencing) in this organism. This protein processes pre-crRNA into individual crRNA units, with an 8-nt 5'-repeat DNA tag that may help other proteins recognize the crRNA. Further processing occurs at their 3' termini in this organism. Generates a 5'-hydroxy and 2',3'-cyclic phosphodiester.^[1] ^[2]

Publication Abstract from PubMed

The CRISPRs (Clustered Regularly Interspaced Short Palindromic Repeats) found in prokaryotic genomes confer small RNA-mediated protection against viruses and other invaders. CRISPR loci contain iterations of a short repeat sequence alternating with small segments of varying invader-derived sequences. Distinct families of CRISPR-associated Cas proteins function to cleave within the repeat sequence of CRISPR transcripts and produce the individual invader-targeting crRNAs. Here, we report the crystal structure of Pyrococcus furiosus Cas6 bound with a repeat RNA at 3.2 A resolution. In contrast to other Cas families of endonucleases, Cas6 clasps nucleotides 2-9 of the repeat RNA using its two ferredoxin-like domains, and the enzyme-anchored 5' end tethers the distal cleavage site of the RNA between nucleotides 22 and 23 to the predicted enzyme active site on the opposite side of the ferrodoxin-like domains. Our findings suggest a wrap-around mechanism for CRISPR RNA recognition and cleavage by Cas6 and related processing endonucleases.

Interaction of the Cas6 Riboendonuclease with CRISPR RNAs: Recognition and Cleavage.,Wang R, Preamplume G, Terns MP, Terns RM, Li H Structure. 2011 Feb 9;19(2):257-64. PMID:21300293^[3]

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

References

↑ Carte J, Wang R, Li H, Terns RM, Terns MP. Cas6 is an endoribonuclease that generates guide RNAs for invader defense in prokaryotes. Genes Dev. 2008 Dec 15;22(24):3489-96. PMID:19141480 doi:22/24/3489
↑ Carte J, Pfister NT, Compton MM, Terns RM, Terns MP. Binding and cleavage of CRISPR RNA by Cas6. RNA. 2010 Nov;16(11):2181-8. doi: 10.1261/rna.2230110. Epub 2010 Sep 30. PMID:20884784 doi:10.1261/rna.2230110
↑ Wang R, Preamplume G, Terns MP, Terns RM, Li H. Interaction of the Cas6 Riboendonuclease with CRISPR RNAs: Recognition and Cleavage. Structure. 2011 Feb 9;19(2):257-64. PMID:21300293 doi:10.1016/j.str.2010.11.014

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/3pkm"

@@ Line 1: / Line 1: @@
 ==Crystal structure of Cas6 with its substrate RNA==
 <StructureSection load='3pkm' size='340' side='right' caption='[[3pkm]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3pkm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PKM FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3pkm]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43587 Atcc 43587]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PKM FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PF1131 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2261 Pyrococcus furiosus])</td></tr>
+</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PF1131 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2261 ATCC 43587])</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=3pkm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pkm RCSB], [http://www.ebi.ac.uk/pdbsum/3pkm PDBsum]</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=3pkm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkm OCA], [http://pdbe.org/3pkm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pkm RCSB], [http://www.ebi.ac.uk/pdbsum/3pkm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkm ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/Q8U1S4_PYRFU Q8U1S4_PYRFU]] 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), also called psiRNA (prokaryotic silencing) in this organism. Processes pre-crRNA into individual crRNA units, with an 8-nt 5'-repeat DNA tag that may help other proteins recognize the crRNA. Further processing occurs at their 3' termini in this organism. Generates a 5' hydroxy and 2',3'-cyclic phosphodiester.<ref>PMID:20884784</ref> <ref>PMID:19141480</ref>
+[[http://www.uniprot.org/uniprot/CAS6_PYRFU CAS6_PYRFU]] 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), also called psiRNA (prokaryotic silencing) in this organism. This protein processes pre-crRNA into individual crRNA units, with an 8-nt 5'-repeat DNA tag that may help other proteins recognize the crRNA. Further processing occurs at their 3' termini in this organism. Generates a 5'-hydroxy and 2',3'-cyclic phosphodiester.<ref>PMID:19141480</ref> <ref>PMID:20884784</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 16: / Line 17: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 3pkm" style="background-color:#fffaf0;"></div>
 ==See Also==
@@ Line 23: / Line 25: @@
 __TOC__
 </StructureSection>
-[[Category: Pyrococcus furiosus]]
+[[Category: Atcc 43587]]
 [[Category: Li, H]]
 [[Category: Preamplume, G]]

3pkm

From Proteopedia

Revision as of 13:40, 5 August 2016

Crystal structure of Cas6 with its substrate RNA

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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