|
|
| Line 3: |
Line 3: |
| | <StructureSection load='6n6k' size='340' side='right'caption='[[6n6k]], [[Resolution|resolution]] 1.42Å' scene=''> | | <StructureSection load='6n6k' size='340' side='right'caption='[[6n6k]], [[Resolution|resolution]] 1.42Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6n6k]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6N6K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6N6K FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6n6k]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6N6K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6N6K FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.418Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">REXO2, SFN, SMFN, CGI-114 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></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=6n6k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6n6k OCA], [http://pdbe.org/6n6k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6n6k RCSB], [http://www.ebi.ac.uk/pdbsum/6n6k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6n6k ProSAT]</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=6n6k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6n6k OCA], [https://pdbe.org/6n6k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6n6k RCSB], [https://www.ebi.ac.uk/pdbsum/6n6k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6n6k ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/ORN_HUMAN ORN_HUMAN]] 3'-to-5' exoribonuclease specific for small oligoribonucleotides. Active on small (primarily </=5 nucleotides in length) single-stranded RNA and DNA oligomers. May have a role in cellular nucleotide recycling.<ref>PMID:23741365</ref> | + | [https://www.uniprot.org/uniprot/ORN_HUMAN ORN_HUMAN] 3'-to-5' exoribonuclease specific for small oligoribonucleotides. Active on small (primarily </=5 nucleotides in length) single-stranded RNA and DNA oligomers. May have a role in cellular nucleotide recycling.<ref>PMID:23741365</ref> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
| Line 19: |
Line 19: |
| | </div> | | </div> |
| | <div class="pdbe-citations 6n6k" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 6n6k" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[Exonuclease 3D structures|Exonuclease 3D structures]] |
| | + | *[[Ribonuclease 3D structures|Ribonuclease 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Human]] | + | [[Category: Homo sapiens]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Lormand, J D]] | + | [[Category: Synthetic construct]] |
| - | [[Category: Sondermann, H]] | + | [[Category: Lormand JD]] |
| - | [[Category: 3'-5' exoribonuclease]] | + | [[Category: Sondermann H]] |
| - | [[Category: Rna binding protein]]
| + | |
| - | [[Category: Rna binding protein-rna complex]]
| + | |
| Structural highlights
Function
ORN_HUMAN 3'-to-5' exoribonuclease specific for small oligoribonucleotides. Active on small (primarily </=5 nucleotides in length) single-stranded RNA and DNA oligomers. May have a role in cellular nucleotide recycling.[1]
Publication Abstract from PubMed
Degradation of RNA polymers, an ubiquitous process in all cells, is catalyzed by specific subsets of endo- and exoribonucleases that together recycle RNA fragments into nucleotide monophosphate. In gamma-proteobacteria, 3-'5' exoribonucleases comprise up to eight distinct enzymes. Among them, Oligoribonuclease (Orn) is unique as its activity is required for clearing short RNA fragments, which is important for cellular fitness. However, the molecular basis of Orn's unique cellular function remained unclear. Here, we show that Orn exhibits exquisite substrate preference for diribonucleotides. Crystal structures of substrate-bound Orn reveal an active site optimized for diribonucleotides. While other cellular RNases process oligoribonucleotides down to diribonucleotide entities, Orn is the one and only diribonucleotidase that completes the terminal step of RNA degradation. Together, our studies indicate RNA degradation as a step-wise process with a dedicated enzyme for the clearance of a specific intermediate pool, diribonucleotides, that affects cellular physiology and viability.
A dedicated diribonucleotidase resolves a key bottleneck for the terminal step of RNA degradation.,Kim SK, Lormand JD, Weiss CA, Eger KA, Turdiev H, Turdiev A, Winkler WC, Sondermann H, Lee VT Elife. 2019 Jun 21;8. pii: 46313. doi: 10.7554/eLife.46313. PMID:31225796[2]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Bruni F, Gramegna P, Oliveira JM, Lightowlers RN, Chrzanowska-Lightowlers ZM. REXO2 is an oligoribonuclease active in human mitochondria. PLoS One. 2013 May 31;8(5):e64670. doi: 10.1371/journal.pone.0064670. Print 2013. PMID:23741365 doi:http://dx.doi.org/10.1371/journal.pone.0064670
- ↑ Kim SK, Lormand JD, Weiss CA, Eger KA, Turdiev H, Turdiev A, Winkler WC, Sondermann H, Lee VT. A dedicated diribonucleotidase resolves a key bottleneck for the terminal step of RNA degradation. Elife. 2019 Jun 21;8. pii: 46313. doi: 10.7554/eLife.46313. PMID:31225796 doi:http://dx.doi.org/10.7554/eLife.46313
|
