6ues: Difference between revisions

Line 1:

~~'''Unreleased structure'''~~

~~The entry~~ 6ues is ~~ON HOLD until Paper~~ Publication

==Apo SAM-IV Riboswitch==

== Structural highlights ==

<table><tr><td colspan='2'>[[6ues]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UES OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UES 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=6ues FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ues OCA], [http://pdbe.org/6ues PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ues RCSB], [http://www.ebi.ac.uk/pdbsum/6ues PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ues ProSAT]</span></td></tr>

</table>

== Publication Abstract from PubMed ==

Specimens below 50 kDa have generally been considered too small to be analyzed by single-particle cryo-electron microscopy (cryo-EM). The high flexibility of pure RNAs makes it difficult to obtain high-resolution structures by cryo-EM. In bacteria, riboswitches regulate sulfur metabolism through binding to the S-adenosylmethionine (SAM) ligand and offer compelling targets for new antibiotics. SAM-I, SAM-I/IV, and SAM-IV are the three most commonly found SAM riboswitches, but the structure of SAM-IV is still unknown. Here, we report the structures of apo and SAM-bound SAM-IV riboswitches (119-nt, ~40 kDa) to 3.7 A and 4.1 A resolution, respectively, using cryo-EM. The structures illustrate homologies in the ligand-binding core but distinct peripheral tertiary contacts in SAM-IV compared to SAM-I and SAM-I/IV. Our results demonstrate the feasibility of resolving small RNAs with enough detail to enable detection of their ligand-binding pockets and suggest that cryo-EM could play a role in structure-assisted drug design for RNA.

~~Authors:~~ Zhang, K., Li, S., Kappel, K., Pintilie, G., Su, Z., Mou~~, T.~~, Schmid~~, M.~~, Das, R., Chiu, W.

Cryo-EM structure of a 40 kDa SAM-IV riboswitch RNA at 3.7 A resolution.,Zhang K, Li S, Kappel K, Pintilie G, Su Z, Mou TC, Schmid MF, Das R, Chiu W Nat Commun. 2019 Dec 3;10(1):5511. doi: 10.1038/s41467-019-13494-7. PMID:31796736<ref>PMID:31796736</ref>

~~Description~~: ~~Apo SAM-IV Riboswitch~~

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

[[Category: ~~Unreleased~~ Structures]]

</div>

== References ==

__TOC__

</StructureSection>

[[Category: Large Structures]]

[[Category: Chiu, W]]

[[Category: Das, R]]

[[Category: Kappel, K]]

[[Category: Li, S]]

[[Category: Mou, T]]

[[Category: Pintilie, G]]

[[Category: Schmid, M]]

[[Category: Su, Z]]

~~[[Category: Kappel, K]]~~

[[Category: Zhang, K]]

[[Category: ~~Schmid, M~~]]

[[Category: Cryo-em]]

[[Category: ~~Das, R~~]]

[[Category: Rna]]

[[Category: ~~Chiu, W~~]]

[[Category: Sam-iv riboswitch]]

[[Category: ~~Mou, T]]~~

[[Category: Small rna]]

~~[[Category: Pintilie, G~~]]

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 6ues is ON HOLD  until Paper Publication
+==Apo SAM-IV Riboswitch==
+<StructureSection load='6ues' size='340' side='right'caption='[[6ues]], [[Resolution|resolution]] 3.70&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[6ues]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UES OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6UES 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=6ues FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ues OCA], [http://pdbe.org/6ues PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ues RCSB], [http://www.ebi.ac.uk/pdbsum/6ues PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ues ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Specimens below 50 kDa have generally been considered too small to be analyzed by single-particle cryo-electron microscopy (cryo-EM). The high flexibility of pure RNAs makes it difficult to obtain high-resolution structures by cryo-EM. In bacteria, riboswitches regulate sulfur metabolism through binding to the S-adenosylmethionine (SAM) ligand and offer compelling targets for new antibiotics. SAM-I, SAM-I/IV, and SAM-IV are the three most commonly found SAM riboswitches, but the structure of SAM-IV is still unknown. Here, we report the structures of apo and SAM-bound SAM-IV riboswitches (119-nt, ~40 kDa) to 3.7 A and 4.1 A resolution, respectively, using cryo-EM. The structures illustrate homologies in the ligand-binding core but distinct peripheral tertiary contacts in SAM-IV compared to SAM-I and SAM-I/IV. Our results demonstrate the feasibility of resolving small RNAs with enough detail to enable detection of their ligand-binding pockets and suggest that cryo-EM could play a role in structure-assisted drug design for RNA.
-Authors: Zhang, K., Li, S., Kappel, K., Pintilie, G., Su, Z., Mou, T., Schmid, M., Das, R., Chiu, W.
+Cryo-EM structure of a 40 kDa SAM-IV riboswitch RNA at 3.7 A resolution.,Zhang K, Li S, Kappel K, Pintilie G, Su Z, Mou TC, Schmid MF, Das R, Chiu W Nat Commun. 2019 Dec 3;10(1):5511. doi: 10.1038/s41467-019-13494-7. PMID:31796736<ref>PMID:31796736</ref>
-Description: Apo SAM-IV Riboswitch
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
+<div class="pdbe-citations 6ues" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Chiu, W]]
+[[Category: Das, R]]
+[[Category: Kappel, K]]
 [[Category: Li, S]]
+[[Category: Mou, T]]
+[[Category: Pintilie, G]]
+[[Category: Schmid, M]]
 [[Category: Su, Z]]
-[[Category: Kappel, K]]
 [[Category: Zhang, K]]
-[[Category: Schmid, M]]
+[[Category: Cryo-em]]
-[[Category: Das, R]]
+[[Category: Rna]]
-[[Category: Chiu, W]]
+[[Category: Sam-iv riboswitch]]
-[[Category: Mou, T]]
+[[Category: Small rna]]
-[[Category: Pintilie, G]]