3i4h: Difference between revisions

From Proteopedia
Jump to navigation Jump to search
← Older edit
No edit summary
No edit summary
 
Line 3: Line 3:
<StructureSection load='3i4h' size='340' side='right'caption='[[3i4h]], [[Resolution|resolution]] 2.25&Aring;' scene=''>
<StructureSection load='3i4h' size='340' side='right'caption='[[3i4h]], [[Resolution|resolution]] 2.25&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3i4h]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_43587 Atcc 43587]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3I4H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3I4H FirstGlance]. <br>
<table><tr><td colspan='2'>[[3i4h]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3I4H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3I4H FirstGlance]. <br>
</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PF1131 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2261 ATCC 43587])</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]] 2.25&#8491;</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=3i4h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3i4h OCA], [https://pdbe.org/3i4h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3i4h RCSB], [https://www.ebi.ac.uk/pdbsum/3i4h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3i4h 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=3i4h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3i4h OCA], [https://pdbe.org/3i4h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3i4h RCSB], [https://www.ebi.ac.uk/pdbsum/3i4h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3i4h ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[https://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>
[https://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>  
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Line 19: Line 19:
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3i4h ConSurf].
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3i4h ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
An RNA-based gene silencing pathway that protects bacteria and archaea from viruses and other genome invaders is hypothesized to arise from guide RNAs encoded by CRISPR loci and proteins encoded by the cas genes. CRISPR loci contain multiple short invader-derived sequences separated by short repeats. The presence of virus-specific sequences within CRISPR loci of prokaryotic genomes confers resistance against corresponding viruses. The CRISPR loci are transcribed as long RNAs that must be processed to smaller guide RNAs. Here we identified Pyrococcus furiosus Cas6 as a novel endoribonuclease that cleaves CRISPR RNAs within the repeat sequences to release individual invader targeting RNAs. Cas6 interacts with a specific sequence motif in the 5' region of the CRISPR repeat element and cleaves at a defined site within the 3' region of the repeat. The 1.8 angstrom crystal structure of the enzyme reveals two ferredoxin-like folds that are also found in other RNA-binding proteins. The predicted active site of the enzyme is similar to that of tRNA splicing endonucleases, and concordantly, Cas6 activity is metal-independent. cas6 is one of the most widely distributed CRISPR-associated genes. Our findings indicate that Cas6 functions in the generation of CRISPR-derived guide RNAs in numerous bacteria and archaea.
Cas6 is an endoribonuclease that generates guide RNAs for invader defense in prokaryotes.,Carte J, Wang R, Li H, Terns RM, Terns MP Genes Dev. 2008 Dec 15;22(24):3489-96. PMID:19141480<ref>PMID:19141480</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3i4h" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
Line 37: Line 28:
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Atcc 43587]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Carte, J]]
[[Category: Pyrococcus furiosus]]
[[Category: Li, H]]
[[Category: Carte J]]
[[Category: Terns, M P]]
[[Category: Li H]]
[[Category: Terns, R M]]
[[Category: Terns MP]]
[[Category: Wang, R]]
[[Category: Terns RM]]
[[Category: Endoribonuclease]]
[[Category: Wang R]]
[[Category: Hydrolase]]

Latest revision as of 13:03, 21 February 2024

Crystal structure of Cas6 in Pyrococcus furiosusCrystal structure of Cas6 in Pyrococcus furiosus

Structural highlights

3i4h is a 1 chain structure with sequence from Pyrococcus furiosus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.25Å
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]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

References

  1. ↑ 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
  2. ↑ 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

3i4h, resolution 2.25Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA
Retrieved from "https://proteopedia.openfox.io/wiki/index.php?title=3i4h&oldid=4065489"