3hjy

From Proteopedia

(Difference between revisions)

Current revision

Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA

Structural highlights

3hjy is a 5 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 3.65Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

TRUB_PYRFU Could be responsible for synthesis of pseudouridine from uracil-55 in the psi GC loop of transfer RNAs (By similarity).

Evolutionary Conservation

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

Publication Abstract from PubMed

Box H/ACA small nucleolar and Cajal body ribonucleoprotein particles comprise the most complex pseudouridine synthases and are essential for ribosome and spliceosome maturation. The multistep and multicomponent-mediated enzyme mechanism remains only partially understood. Here we report a crystal structure at 2.35 A of a substrate-bound functional archaeal enzyme containing three of the four proteins, Cbf5, Nop10 and L7Ae, and a box H/ACA RNA that reveals detailed information about the protein-only active site. The substrate RNA, containing 5-fluorouridine at the modification position, is fully docked and catalytically rearranged by the enzyme in a manner similar to that seen in two stand-alone pseudouridine synthases. Structural analysis provides a mechanism for plasticity in the diversity of guide RNA sequences used and identifies a substrate-anchoring loop of Cbf5 that also interacts with Gar1 in unliganded structures. Activity analyses of mutated proteins and RNAs support the structural findings and further suggest a role of the Cbf5 loop in regulation of enzyme activity.

Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA.,Liang B, Zhou J, Kahen E, Terns RM, Terns MP, Li H Nat Struct Mol Biol. 2009 Jul;16(7):740-6. Epub 2009 May 28. PMID:19478803^[1]

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

References

↑ Liang B, Zhou J, Kahen E, Terns RM, Terns MP, Li H. Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA. Nat Struct Mol Biol. 2009 Jul;16(7):740-6. Epub 2009 May 28. PMID:19478803 doi:10.1038/nsmb.1624

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3hjy"

@@ Line 3: / Line 3: @@
 <StructureSection load='3hjy' size='340' side='right'caption='[[3hjy]], [[Resolution|resolution]] 3.65&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3hjy]] is a 5 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=3HJY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3HJY FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3hjy]] is a 5 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=3HJY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HJY FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3hjw|3hjw]]</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]] 3.65&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PF1785 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2261 ATCC 43587]), PF1141 ([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'>[https://proteopedia.org/fgij/fg.htm?mol=3hjy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hjy OCA], [https://pdbe.org/3hjy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hjy RCSB], [https://www.ebi.ac.uk/pdbsum/3hjy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hjy ProSAT]</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=3hjy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hjy OCA], [http://pdbe.org/3hjy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3hjy RCSB], [http://www.ebi.ac.uk/pdbsum/3hjy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3hjy ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/TRUB_PYRFU TRUB_PYRFU]] Could be responsible for synthesis of pseudouridine from uracil-55 in the psi GC loop of transfer RNAs (By similarity). [[http://www.uniprot.org/uniprot/NOP10_PYRFU NOP10_PYRFU]] Involved in ribosome biogenesis; more specifically in 18S rRNA pseudouridylation and in cleavage of pre-rRNA (By similarity).
+[https://www.uniprot.org/uniprot/TRUB_PYRFU TRUB_PYRFU] Could be responsible for synthesis of pseudouridine from uracil-55 in the psi GC loop of transfer RNAs (By similarity).
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 15: / Line 14: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hj/3hjy_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 32: / Line 31: @@
 ==See Also==
 *[[Guide-independent Pseudouridine synthase|Guide-independent Pseudouridine synthase]]
-*[[Pseudouridine synthase|Pseudouridine synthase]]
+*[[Pseudouridine synthase 3D structures|Pseudouridine synthase 3D structures]]
-*[[RNA-guided pseudouridine synthase|RNA-guided pseudouridine synthase]]
+*[[Ribosome biogenesis protein 3D structures|Ribosome biogenesis protein 3D structures]]
-*[[Ribosome biogenesis protein|Ribosome biogenesis protein]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Atcc 43587]]
 [[Category: Large Structures]]
-[[Category: Kahen, E]]
+[[Category: Pyrococcus furiosus]]
-[[Category: Li, H]]
+[[Category: Kahen E]]
-[[Category: Liang, B]]
+[[Category: Li H]]
-[[Category: Terns, M P]]
+[[Category: Liang B]]
-[[Category: Terns, R M]]
+[[Category: Terns MP]]
-[[Category: Zhou, J]]
+[[Category: Terns RM]]
-[[Category: Box h/aca]]
+[[Category: Zhou J]]
-[[Category: Isomerase]]
-[[Category: Isomerase-rna complex]]
-[[Category: Post-transcriptional modification]]
-[[Category: Protein-rna complex]]
-[[Category: Pseudouridine synthase]]
-[[Category: Pseudouridylase]]
-[[Category: Pseudouridylation]]
-[[Category: Ribonucleoprotein]]
-[[Category: Ribonucleoprotein particle]]
-[[Category: Ribosome biogenesis]]
-[[Category: Rna editing]]
-[[Category: Rnp]]
-[[Category: Rrna processing]]
-[[Category: Trna processing]]

3hjy

From Proteopedia

Current revision

Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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