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4kb1

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Revision as of 19:59, 4 August 2016

Crystal structure of RNase T in complex with a bluge DNA (two nucleotide insertion CT )

Structural highlights

4kb1 is a 4 chain structure with sequence from Ecoli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Related:	3va3, 3va0, 3v9z, 3v9x, 3v9w, 3ngy, 4kaz, 4kb0
Gene:	b1652, JW1644, rnt (ECOLI)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[RNT_ECOLI] Responsible for the end-turnover of tRNA: specifically removes the terminal AMP residue from uncharged tRNA (tRNA-C-C-A). Also appears to be involved in tRNA biosynthesis, especially in strains lacking other exoribonucleases.[HAMAP-Rule:MF_00157]

Publication Abstract from PubMed

DNA repair mechanisms are essential for preservation of genome integrity. However, it is not clear how DNA are selected and processed at broken ends by exonucleases during repair pathways. Here we show that the DnaQ-like exonuclease RNase T is critical for Escherichia coli resistance to various DNA-damaging agents and UV radiation. RNase T specifically trims the 3' end of structured DNA, including bulge, bubble, and Y-structured DNA, and it can work with Endonuclease V to restore the deaminated base in an inosine-containing heteroduplex DNA. Crystal structure analyses further reveal how RNase T recognizes the bulge DNA by inserting a phenylalanine into the bulge, and as a result the 3' end of blunt-end bulge DNA can be digested by RNase T. In contrast, the homodimeric RNase T interacts with the Y-structured DNA by a different binding mode via a single protomer so that the 3' overhang of the Y-structured DNA can be trimmed closely to the duplex region. Our data suggest that RNase T likely processes bulge and bubble DNA in the Endonuclease V-dependent DNA repair, whereas it processes Y-structured DNA in UV-induced and various other DNA repair pathways. This study thus provides mechanistic insights for RNase T and thousands of DnaQ-like exonucleases in DNA 3'-end processing.

Structural insights into DNA repair by RNase T--an exonuclease processing 3' end of structured DNA in repair pathways.,Hsiao YY, Fang WH, Lee CC, Chen YP, Yuan HS PLoS Biol. 2014 Mar 4;12(3):e1001803. doi: 10.1371/journal.pbio.1001803., eCollection 2014 Mar. PMID:24594808^[1]

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

References

↑ Hsiao YY, Fang WH, Lee CC, Chen YP, Yuan HS. Structural insights into DNA repair by RNase T--an exonuclease processing 3' end of structured DNA in repair pathways. PLoS Biol. 2014 Mar 4;12(3):e1001803. doi: 10.1371/journal.pbio.1001803., eCollection 2014 Mar. PMID:24594808 doi:http://dx.doi.org/10.1371/journal.pbio.1001803

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4kb1"

@@ Line 1: / Line 1: @@
 ==Crystal structure of RNase T in complex with a bluge DNA (two nucleotide insertion CT )==
 <StructureSection load='4kb1' size='340' side='right' caption='[[4kb1]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
@@ Line 6: / Line 7: @@
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3va3|3va3]], [[3va0|3va0]], [[3v9z|3v9z]], [[3v9x|3v9x]], [[3v9w|3v9w]], [[3ngy|3ngy]], [[4kaz|4kaz]], [[4kb0|4kb0]]</td></tr>
 <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">b1652, JW1644, rnt ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=4kb1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kb1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kb1 RCSB], [http://www.ebi.ac.uk/pdbsum/4kb1 PDBsum]</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=4kb1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kb1 OCA], [http://pdbe.org/4kb1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kb1 RCSB], [http://www.ebi.ac.uk/pdbsum/4kb1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kb1 ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 18: / Line 19: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 4kb1" style="background-color:#fffaf0;"></div>
 ==See Also==
 *[[Ribonuclease|Ribonuclease]]
 *[[Temp|Temp]]
-*[[User:Jaime.Prilusky/Test/tree|User:Jaime.Prilusky/Test/tree]]
 == References ==
 <references/>

4kb1

From Proteopedia

Revision as of 19:59, 4 August 2016

Crystal structure of RNase T in complex with a bluge DNA (two nucleotide insertion CT )

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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