5h04: Difference between revisions
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<StructureSection load='5h04' size='340' side='right'caption='[[5h04]], [[Resolution|resolution]] 1.82Å' scene=''> | <StructureSection load='5h04' size='340' side='right'caption='[[5h04]], [[Resolution|resolution]] 1.82Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[5h04]] is a 1 chain structure with sequence from [ | <table><tr><td colspan='2'>[[5h04]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H04 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5H04 FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.825Å</td></tr> | ||
<tr id=' | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene></td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5h04 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h04 OCA], [https://pdbe.org/5h04 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5h04 RCSB], [https://www.ebi.ac.uk/pdbsum/5h04 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5h04 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/X5I2D7_CLOPF X5I2D7_CLOPF] | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Clostridium perfringens]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Iida | [[Category: Iida T]] | ||
[[Category: Kawahara | [[Category: Kawahara K]] | ||
[[Category: Kodama | [[Category: Kodama T]] | ||
[[Category: Kumeda | [[Category: Kumeda Y]] | ||
[[Category: Matsuda | [[Category: Matsuda S]] | ||
[[Category: Munetomo | [[Category: Munetomo R]] | ||
[[Category: Nakamura | [[Category: Nakamura S]] | ||
[[Category: Ohkubo | [[Category: Ohkubo T]] | ||
[[Category: Oki | [[Category: Oki H]] | ||
[[Category: Yonogi | [[Category: Yonogi S]] | ||
[[Category: Yoshida | [[Category: Yoshida T]] | ||
Latest revision as of 14:47, 2 August 2023
Crystal structure of an ADP-ribosylating toxin BECa of a novel binary enterotoxin of C. perfringens with NADHCrystal structure of an ADP-ribosylating toxin BECa of a novel binary enterotoxin of C. perfringens with NADH
Structural highlights
FunctionPublication Abstract from PubMedBinary enterotoxin of Clostridium perfringens (BEC), consisting of the components BECa and BECb, was recently identified as a novel enterotoxin produced by C. perfringens that causes acute gastroenteritis in humans. Although the detailed mechanism of cell intoxication by BEC remains to be defined, BECa shows both NAD+-glycohydrolase and actin ADP-ribosyltransferase activities in the presence of NAD+. In this study, we determined the first crystal structure of BECa in its apo-state and in complex with NADH. The structure of BECa shows striking resemblance with other binary actin ADP-ribosylating toxins (ADPRTs), especially in terms of its overall protein fold and mechanisms of substrate recognition. We present a detailed picture of interactions between BECa and NADH, including bound water molecules located near the C1'-N glycosidic bond of NADH and the catalytically important ADP-ribosylating turn-turn (ARTT) loop. We observed that the conformational rearrangement of the ARTT loop, possibly triggered by a conformational change involving a conserved tyrosine residue coupled with substrate binding, plays a crucial role in catalysis by properly positioning a catalytic glutamate residue in the E-X-E motif of the ARTT loop in contact with the nucleophile. Our results for BECa provide insight into the common catalytic mechanism of the family of binary actin ADPRTs. Crystal structure of the ADP-ribosylating component of BEC, the binary enterotoxin of Clostridium perfringens.,Kawahara K, Yonogi S, Munetomo R, Oki H, Yoshida T, Kumeda Y, Matsuda S, Kodama T, Ohkubo T, Iida T, Nakamura S Biochem Biophys Res Commun. 2016 Nov 11;480(2):261-267. doi:, 10.1016/j.bbrc.2016.10.042. Epub 2016 Oct 15. PMID:27751850[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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