6uxg

From Proteopedia

(Difference between revisions)

Current revision

Structure of V. metoecus NucC, trimer form

Structural highlights

6uxg is a 3 chain structure with sequence from Vibrio metoecus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.15Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

NUCC_VIBMT 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 spacers, sequences complementary to antecedent mobile elements, and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA).^[1] A cyclic nucleotide-activated dsDNase. In the presence of 3',3',3'-cyclic AMP-AMP-AMP (cAAA), and to a much lesser extent 3',3',3'-cyclic AMP-AMP-GMP (cAAG) and cyclic-di-AMP (c-di-AMP), endonucleolytically degrades dsDNA. The nuclease digests dsDNA to about 50 bp lengths. Not stimulated by cGAMP or linear di-AMP (PubMed:31932164). DNA has been modeled to contact a pair of juxtaposed active sites (one from each layer of the hexamer), accounting for cleavage on both strands (By similarity).[UniProtKB:D7Y2H5]^[2]

Publication Abstract from PubMed

Bacteria possess an array of defenses against foreign invaders, including a broadly distributed bacteriophage defense system termed CBASS (cyclic oligonucleotide-based anti-phage signaling system). In CBASS systems, a cGAS/DncV-like nucleotidyltransferase synthesizes cyclic di- or tri-nucleotide second messengers in response to infection, and these molecules activate diverse effectors to mediate bacteriophage immunity via abortive infection. Here, we show that the CBASS effector NucC is related to restriction enzymes but uniquely assembles into a homotrimer. Binding of NucC trimers to a cyclic tri-adenylate second messenger promotes assembly of a NucC homohexamer competent for non-specific double-strand DNA cleavage. In infected cells, NucC activation leads to complete destruction of the bacterial chromosome, causing cell death prior to completion of phage replication. In addition to CBASS systems, we identify NucC homologs in over 30 type III CRISPR/Cas systems, where they likely function as accessory nucleases activated by cyclic oligoadenylate second messengers synthesized by these systems' effector complexes.

Structure and Mechanism of a Cyclic Trinucleotide-Activated Bacterial Endonuclease Mediating Bacteriophage Immunity.,Lau RK, Ye Q, Birkholz EA, Berg KR, Patel L, Mathews IT, Watrous JD, Ego K, Whiteley AT, Lowey B, Mekalanos JJ, Kranzusch PJ, Jain M, Pogliano J, Corbett KD Mol Cell. 2020 Jan 6. pii: S1097-2765(19)30923-2. doi:, 10.1016/j.molcel.2019.12.010. PMID:31932164^[3]

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

References

↑ Lau RK, Ye Q, Birkholz EA, Berg KR, Patel L, Mathews IT, Watrous JD, Ego K, Whiteley AT, Lowey B, Mekalanos JJ, Kranzusch PJ, Jain M, Pogliano J, Corbett KD. Structure and Mechanism of a Cyclic Trinucleotide-Activated Bacterial Endonuclease Mediating Bacteriophage Immunity. Mol Cell. 2020 Jan 6. pii: S1097-2765(19)30923-2. doi:, 10.1016/j.molcel.2019.12.010. PMID:31932164 doi:http://dx.doi.org/10.1016/j.molcel.2019.12.010
↑ Lau RK, Ye Q, Birkholz EA, Berg KR, Patel L, Mathews IT, Watrous JD, Ego K, Whiteley AT, Lowey B, Mekalanos JJ, Kranzusch PJ, Jain M, Pogliano J, Corbett KD. Structure and Mechanism of a Cyclic Trinucleotide-Activated Bacterial Endonuclease Mediating Bacteriophage Immunity. Mol Cell. 2020 Jan 6. pii: S1097-2765(19)30923-2. doi:, 10.1016/j.molcel.2019.12.010. PMID:31932164 doi:http://dx.doi.org/10.1016/j.molcel.2019.12.010
↑ Lau RK, Ye Q, Birkholz EA, Berg KR, Patel L, Mathews IT, Watrous JD, Ego K, Whiteley AT, Lowey B, Mekalanos JJ, Kranzusch PJ, Jain M, Pogliano J, Corbett KD. Structure and Mechanism of a Cyclic Trinucleotide-Activated Bacterial Endonuclease Mediating Bacteriophage Immunity. Mol Cell. 2020 Jan 6. pii: S1097-2765(19)30923-2. doi:, 10.1016/j.molcel.2019.12.010. PMID:31932164 doi:http://dx.doi.org/10.1016/j.molcel.2019.12.010

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6uxg"

Categories: Large Structures | Vibrio metoecus | Corbett KD | Ye Q

@@ Line 3: / Line 3: @@
 <StructureSection load='6uxg' size='340' side='right'caption='[[6uxg]], [[Resolution|resolution]] 2.15&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6uxg]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Cip_110643 Cip 110643]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UXG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UXG FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6uxg]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_metoecus Vibrio metoecus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UXG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UXG FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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]] 2.15&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[6p7o|6p7o]], [[6p7p|6p7p]], [[6p7q|6p7q]], [[6q1h|6q1h]], [[6uxf|6uxf]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=6uxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6uxg OCA], [http://pdbe.org/6uxg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6uxg RCSB], [http://www.ebi.ac.uk/pdbsum/6uxg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6uxg 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=6uxg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6uxg OCA], [https://pdbe.org/6uxg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6uxg RCSB], [https://www.ebi.ac.uk/pdbsum/6uxg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6uxg ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/NUCC_VIBMT NUCC_VIBMT] 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 spacers, sequences complementary to antecedent mobile elements, and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA).<ref>PMID:31932164</ref>   A cyclic nucleotide-activated dsDNase. In the presence of 3',3',3'-cyclic AMP-AMP-AMP (cAAA), and to a much lesser extent 3',3',3'-cyclic AMP-AMP-GMP (cAAG) and cyclic-di-AMP (c-di-AMP), endonucleolytically degrades dsDNA. The nuclease digests dsDNA to about 50 bp lengths. Not stimulated by cGAMP or linear di-AMP (PubMed:31932164). DNA has been modeled to contact a pair of juxtaposed active sites (one from each layer of the hexamer), accounting for cleavage on both strands (By similarity).[UniProtKB:D7Y2H5]<ref>PMID:31932164</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Cip 110643]]
 [[Category: Large Structures]]
-[[Category: Corbett, K D]]
+[[Category: Vibrio metoecus]]
-[[Category: Ye, Q]]
+[[Category: Corbett KD]]
-[[Category: Dna binding protein]]
+[[Category: Ye Q]]
-[[Category: Nuclease]]

6uxg

From Proteopedia

Current revision

Structure of V. metoecus NucC, trimer form

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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