7v5h: Difference between revisions

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-'''Unreleased structure'''
-The entry 7v5h is ON HOLD
+==VcOrn native structure with N terminal tag==
+<StructureSection load='7v5h' size='340' side='right'caption='[[7v5h]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[7v5h]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae_O1_biovar_El_Tor_str._N16961 Vibrio cholerae O1 biovar El Tor str. N16961]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V5H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V5H FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.7&#8491;</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=7v5h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v5h OCA], [https://pdbe.org/7v5h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v5h RCSB], [https://www.ebi.ac.uk/pdbsum/7v5h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v5h ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/ORN_VIBCH ORN_VIBCH] 3'-to-5' exoribonuclease specific for small oligoribonucleotides.[HAMAP-Rule:MF_00045]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Oligoribonuclease (Orn), a member of the DEDDh superfamily, can hydrolyse 2-5 nt nanoRNAs to mononucleotides. It is involved in maintaining the intracellular levels of RNA, c-di-GMP signalling and transcription initiation in many bacterial species. Here, the crystal structure of Orn from Vibrio cholerae O1 El Tor (VcOrn) is reported at a resolution of 1.7 A. VcOrn, which consists of nine alpha-helices and six beta-strands, crystallizes with a single monomer in the asymmetric unit but forms a homodimer via crystallographic twofold symmetry. Electron density is observed in the active pocket that corresponds to an intersubunit N-terminal expression tag with sequence GPLGSHHH. The positively charged N-terminal tag binds in the negatively charged nucleotide-binding pocket with a buried surface area of approximately 500 A(2). The N-terminal tag interacts with VcOrn via pi-pi stacking with two conserved residues involved in nucleotide binding, as well as via salt bridges and hydrogen bonds. The structure reported here reveals that the active pocket can accommodate polypeptides in addition to nucleotides, thus providing an important starting point for investigation into substrate modification and inhibitor design targeting VcOrn.
-Authors: Zhang, J., Zhang, Q., Bartlam, M.
+Crystal structure of oligoribonuclease from Vibrio cholerae O1 El Tor with bound peptide.,Zhang J, Sun L, Zhang Q, Bartlam M Acta Crystallogr F Struct Biol Commun. 2021 Dec 1;77(Pt 12):437-443. doi:, 10.1107/S2053230X21011043. Epub 2021 Nov 11. PMID:34866598<ref>PMID:34866598</ref>
-Description: VcOrn native structure with N terminal tag
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Zhang, J]]
+<div class="pdbe-citations 7v5h" style="background-color:#fffaf0;"></div>
-[[Category: Bartlam, M]]
-[[Category: Zhang, Q]]
+==See Also==
+*[[Ribonuclease 3D structures|Ribonuclease 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Vibrio cholerae O1 biovar El Tor str. N16961]]
+[[Category: Bartlam M]]
+[[Category: Zhang J]]
+[[Category: Zhang Q]]