3nh1

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of RNase T in complex with a preferred ssDNA (TAGG) with two Mg in the active site

Structural highlights

3nh1 is a 8 chain structure with sequence from Escherichia coli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.107Å
Ligands:
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

RNA maturation relies on various exonucleases to remove nucleotides successively from the 5' or 3' end of nucleic acids. However, little is known regarding the molecular basis for substrate and cleavage preference of exonucleases. Our biochemical and structural analyses on RNase T-DNA complexes show that the RNase T dimer has an ideal architecture for binding a duplex with a short 3' overhang to produce a digestion product of a duplex with a 2-nucleotide (nt) or 1-nt 3' overhang, depending on the composition of the last base pair in the duplex. A 'C-filter' in RNase T screens out the nucleic acids with 3'-terminal cytosines for hydrolysis by inducing a disruptive conformational change at the active site. Our results reveal the general principles and the working mechanism for the final trimming step made by RNase T in the maturation of stable RNA and pave the way for the understanding of other DEDD family exonucleases.

Structural basis for RNA trimming by RNase T in stable RNA 3'-end maturation.,Hsiao YY, Yang CC, Lin CL, Lin JL, Duh Y, Yuan HS Nat Chem Biol. 2011 Feb 13. PMID:21317904^[1]

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

References

↑ Hsiao YY, Yang CC, Lin CL, Lin JL, Duh Y, Yuan HS. Structural basis for RNA trimming by RNase T in stable RNA 3'-end maturation. Nat Chem Biol. 2011 Feb 13. PMID:21317904 doi:10.1038/nchembio.524

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/3nh1"

Categories: Escherichia coli | Large Structures | Hsiao Y-Y | Yuan HS

@@ Line 1: / Line 1: @@
 ==Crystal structure of RNase T in complex with a preferred ssDNA (TAGG) with two Mg in the active site==
-<StructureSection load='3nh1' size='340' side='right' caption='[[3nh1]], [[Resolution|resolution]] 2.11&Aring;' scene=''>
+<StructureSection load='3nh1' size='340' side='right'caption='[[3nh1]], [[Resolution|resolution]] 2.11&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3nh1]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NH1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3NH1 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3nh1]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NH1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NH1 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.107&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3ngy|3ngy]], [[3ngz|3ngz]], [[3nh0|3nh0]], [[3nh2|3nh2]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">rnt ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=3nh1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nh1 OCA], [https://pdbe.org/3nh1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3nh1 RCSB], [https://www.ebi.ac.uk/pdbsum/3nh1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3nh1 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=3nh1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nh1 OCA], [http://pdbe.org/3nh1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3nh1 RCSB], [http://www.ebi.ac.uk/pdbsum/3nh1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3nh1 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/RNT_ECOLI 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]
+[https://www.uniprot.org/uniprot/RNT_ECOLI 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]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 22: / Line 21: @@
 ==See Also==
-*[[Ribonuclease|Ribonuclease]]
+*[[Ribonuclease 3D structures|Ribonuclease 3D structures]]
-*[[Temp|Temp]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Bacillus coli migula 1895]]
+[[Category: Escherichia coli]]
-[[Category: Hsiao, Y Y]]
+[[Category: Large Structures]]
-[[Category: Yuan, H S]]
+[[Category: Hsiao Y-Y]]
-[[Category: Exo-nuclease]]
+[[Category: Yuan HS]]
-[[Category: Exoribonuclease]]
-[[Category: Hydrolase-dna complex]]
-[[Category: Protein-dna complex]]
-[[Category: Protein-dna interaction]]
-[[Category: Rna maturation]]
-[[Category: Rna processing]]

3nh1

From Proteopedia

Current revision

Crystal structure of RNase T in complex with a preferred ssDNA (TAGG) with two Mg in the active site

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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