1vs3

From Proteopedia

(Difference between revisions)

Revision as of 09:44, 29 September 2021

Crystal Structure of the tRNA Pseudouridine Synthase TruA From Thermus thermophilus HB8

Structural highlights

1vs3 is a 2 chain structure with sequence from Thet8. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Gene:	truA (THET8)
Activity:	tRNA pseudouridine(38-40) synthase, with EC number 5.4.99.12
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT, TOPSAN

Function

[TRUA_THET8] Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs (By similarity).[HAMAP-Rule:MF_00171]

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

The pseudouridine synthase (Psi synthase) TruA catalyzes the conversion of uridine to pseudouridine at positions 38, 39 and/or 40 in the anticodon stem-loop (ASL) of tRNA. We have determined the crystal structure of TruA from Thermus thermophilus HB8 at 2.25 A resolution. TruA and the other (Psi synthases have a completely conserved active site aspartate, which suggests that the members of this enzyme family share a common catalytic mechanism. The T. thermophilus TruA structure reveals the remarkably flexible structural features in the tRNA-binding cleft, which may be responsible for the primary tRNA interaction. In addition, the charged residues occupying the intermediate positions in the cleft may lead the tRNA to the active site for catalysis. Based on the TruB-tRNA complex structure, the T. thermophilus TruA structure reveals that the tRNA probably makes the melting base pairs move into the cleft, and suggests that a conformational change of the substrate tRNA is necessary to facilitate access to the active site aspartate residue, deep within the cleft.

Crystal structure of tRNA pseudouridine synthase TruA from Thermus thermophilus HB8.,Dong X, Bessho Y, Shibata R, Nishimoto M, Shirouzu M, Kuramitsu S, Yokoyama S RNA Biol. 2006 Jul;3(3):115-22. Epub 2006 Jul 17. PMID:17114947^[1]

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

References

↑ Dong X, Bessho Y, Shibata R, Nishimoto M, Shirouzu M, Kuramitsu S, Yokoyama S. Crystal structure of tRNA pseudouridine synthase TruA from Thermus thermophilus HB8. RNA Biol. 2006 Jul;3(3):115-22. Epub 2006 Jul 17. PMID:17114947

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/1vs3"

@@ Line 3: / Line 3: @@
 <StructureSection load='1vs3' size='340' side='right'caption='[[1vs3]], [[Resolution|resolution]] 2.25&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1vs3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VS3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1VS3 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1vs3]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VS3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1VS3 FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">truA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr>
+</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">truA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/tRNA_pseudouridine(38-40)_synthase tRNA pseudouridine(38-40) synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.4.99.12 5.4.99.12] </span></td></tr>
+<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/tRNA_pseudouridine(38-40)_synthase tRNA pseudouridine(38-40) synthase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.4.99.12 5.4.99.12] </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=1vs3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vs3 OCA], [http://pdbe.org/1vs3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1vs3 RCSB], [http://www.ebi.ac.uk/pdbsum/1vs3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1vs3 ProSAT], [http://www.topsan.org/Proteins/RSGI/1vs3 TOPSAN]</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=1vs3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vs3 OCA], [https://pdbe.org/1vs3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1vs3 RCSB], [https://www.ebi.ac.uk/pdbsum/1vs3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1vs3 ProSAT], [https://www.topsan.org/Proteins/RSGI/1vs3 TOPSAN]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/TRUA_THET8 TRUA_THET8]] Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs (By similarity).[HAMAP-Rule:MF_00171]
+[[https://www.uniprot.org/uniprot/TRUA_THET8 TRUA_THET8]] Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs (By similarity).[HAMAP-Rule:MF_00171]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 32: / Line 32: @@
 ==See Also==
 *[[Guide-independent Pseudouridine synthase|Guide-independent Pseudouridine synthase]]
-*[[Pseudouridine synthase|Pseudouridine synthase]]
+*[[Pseudouridine synthase 3D structures|Pseudouridine synthase 3D structures]]
 == References ==
 <references/>

1vs3

From Proteopedia

Revision as of 09:44, 29 September 2021

Crystal Structure of the tRNA Pseudouridine Synthase TruA From Thermus thermophilus HB8

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

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