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2b4v

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Structural Basis for UTP Specificity of RNA Editing TUTases From Trypanosoma Brucei

Structural highlights

2b4v is a 1 chain structure with sequence from Trypanosoma brucei. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.8Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

TUT2_TRYBB Terminal uridylyltransferase which, as part of the mitochondrial RNA editing core complex (RECC), is involved in the post-transcriptional editing of mitochondrial RNA, a process involving the addition and deletion of uridine (U) nucleotides in the pre-mRNA (PubMed:12820966, PubMed:19465686, PubMed:20362585). Specifically, catalyzes the addition of one U to single-stranded RNA with a preference for a 3'-terminal A or G and adds the number of Us specified by a guide RNA (gRNA) to precleaved double-stranded RNA editing substrates (PubMed:12820966, PubMed:19465686, PubMed:20362585, PubMed:16281058). Essential for the survival of the bloodstream form (PubMed:16281058).^[1] ^[2] ^[3] ^[4]

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

Trypanosomatids are pathogenic protozoa that undergo a unique form of post-transcriptional RNA editing that inserts or deletes uridine nucleotides in many mitochondrial pre-mRNAs. Editing is catalyzed by a large multiprotein complex, the editosome. A key editosome enzyme, RNA editing terminal uridylyl transferase 2 (TUTase 2; RET2) catalyzes the uridylate addition reaction. Here, we report the 1.8 A crystal structure of the Trypanosoma brucei RET2 apoenzyme and its complexes with uridine nucleotides. This structure reveals that the specificity of the TUTase for UTP is determined by a crucial water molecule that is exquisitely positioned by the conserved carboxylates D421 and E424 to sense a hydrogen atom on the N3 position of the uridine base. The three-domain structure also unveils a unique domain arrangement not seen before in the nucleotidyltansferase superfamily, with a large domain insertion between the catalytic aspartates. This insertion is present in all trypanosomatid TUTases. We also show that TbRET2 is essential for survival of the bloodstream form of the parasite and therefore is a potential target for drug therapy.

Structural basis for UTP specificity of RNA editing TUTases from Trypanosoma brucei.,Deng J, Ernst NL, Turley S, Stuart KD, Hol WG EMBO J. 2005 Dec 7;24(23):4007-17. Epub 2005 Nov 10. PMID:16281058^[5]

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

References

↑ Ernst NL, Panicucci B, Igo RP Jr, Panigrahi AK, Salavati R, Stuart K. TbMP57 is a 3' terminal uridylyl transferase (TUTase) of the Trypanosoma brucei editosome. Mol Cell. 2003 Jun;11(6):1525-36. PMID:12820966 doi:10.1016/s1097-2765(03)00185-0
↑ Deng J, Ernst NL, Turley S, Stuart KD, Hol WG. Structural basis for UTP specificity of RNA editing TUTases from Trypanosoma brucei. EMBO J. 2005 Dec 7;24(23):4007-17. Epub 2005 Nov 10. PMID:16281058
↑ Aphasizheva I, Ringpis GE, Weng J, Gershon PD, Lathrop RH, Aphasizhev R. Novel TUTase associates with an editosome-like complex in mitochondria of Trypanosoma brucei. RNA. 2009 Jul;15(7):1322-37. PMID:19465686 doi:10.1261/rna.1538809
↑ Ringpis GE, Aphasizheva I, Wang X, Huang L, Lathrop RH, Hatfield GW, Aphasizhev R. Mechanism of U insertion RNA editing in trypanosome mitochondria: the bimodal TUTase activity of the core complex. J Mol Biol. 2010 Jun 25;399(5):680-95. PMID:20362585 doi:10.1016/j.jmb.2010.03.050
↑ Deng J, Ernst NL, Turley S, Stuart KD, Hol WG. Structural basis for UTP specificity of RNA editing TUTases from Trypanosoma brucei. EMBO J. 2005 Dec 7;24(23):4007-17. Epub 2005 Nov 10. PMID:16281058

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2b4v"

@@ Line 1: / Line 1: @@
 ==Structural Basis for UTP Specificity of RNA Editing TUTases From Trypanosoma Brucei==
-<StructureSection load='2b4v' size='340' side='right' caption='[[2b4v]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
+<StructureSection load='2b4v' size='340' side='right'caption='[[2b4v]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2b4v]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_(trypanozoon)_brucei Trypanosoma (trypanozoon) brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4V OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2B4V FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2b4v]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Trypanosoma_brucei Trypanosoma brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B4V FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</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]] 1.8&#8491;</td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Tbmp57 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5691 Trypanosoma (Trypanozoon) brucei])</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=2b4v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4v OCA], [https://pdbe.org/2b4v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b4v RCSB], [https://www.ebi.ac.uk/pdbsum/2b4v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b4v 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=2b4v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4v OCA], [http://pdbe.org/2b4v PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2b4v RCSB], [http://www.ebi.ac.uk/pdbsum/2b4v PDBsum]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/TUT2_TRYBB TUT2_TRYBB] Terminal uridylyltransferase which, as part of the mitochondrial RNA editing core complex (RECC), is involved in the post-transcriptional editing of mitochondrial RNA, a process involving the addition and deletion of uridine (U) nucleotides in the pre-mRNA (PubMed:12820966, PubMed:19465686, PubMed:20362585). Specifically, catalyzes the addition of one U to single-stranded RNA with a preference for a 3'-terminal A or G and adds the number of Us specified by a guide RNA (gRNA) to precleaved double-stranded RNA editing substrates (PubMed:12820966, PubMed:19465686, PubMed:20362585, PubMed:16281058). Essential for the survival of the bloodstream form (PubMed:16281058).<ref>PMID:12820966</ref> <ref>PMID:16281058</ref> <ref>PMID:19465686</ref> <ref>PMID:20362585</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b4/2b4v_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/b4/2b4v_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 31: / Line 33: @@
 __TOC__
 </StructureSection>
-[[Category: Deng, J]]
+[[Category: Large Structures]]
-[[Category: Ernst, N L]]
-[[Category: Hol, W G]]
-[[Category: Stuart, K D]]
-[[Category: Turley, S]]
-[[Category: Editosome]]
-[[Category: Rna editing]]
-[[Category: Tbmp57]]
-[[Category: Tbret2]]
-[[Category: Terminal uridylyl transferase]]
-[[Category: Transferase-rna binding protein complex]]
 [[Category: Trypanosoma brucei]]
+[[Category: Deng J]]
+[[Category: Ernst NL]]
+[[Category: Hol WG]]
+[[Category: Stuart KD]]
+[[Category: Turley S]]

2b4v

From Proteopedia

Current revision

Structural Basis for UTP Specificity of RNA Editing TUTases From Trypanosoma Brucei

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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