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| | ==Scabin toxin from Streptomyces Scabies in complex with inhibitor PJ34== | | ==Scabin toxin from Streptomyces Scabies in complex with inhibitor PJ34== |
| - | <StructureSection load='5ewk' size='340' side='right' caption='[[5ewk]], [[Resolution|resolution]] 1.60Å' scene=''> | + | <StructureSection load='5ewk' size='340' side='right'caption='[[5ewk]], [[Resolution|resolution]] 1.60Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5ewk]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EWK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EWK FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5ewk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_scabiei_87.22 Streptomyces scabiei 87.22]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EWK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5EWK FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=P34:N~2~,N~2~-DIMETHYL-N~1~-(6-OXO-5,6-DIHYDROPHENANTHRIDIN-2-YL)GLYCINAMIDE'>P34</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]] 1.6Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5ewy|5ewy]]</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=P34:N~2~,N~2~-DIMETHYL-N~1~-(6-OXO-5,6-DIHYDROPHENANTHRIDIN-2-YL)GLYCINAMIDE'>P34</scene></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NAD(+)--protein-arginine_ADP-ribosyltransferase NAD(+)--protein-arginine ADP-ribosyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.4.2.31 2.4.2.31] </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=5ewk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ewk OCA], [https://pdbe.org/5ewk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ewk RCSB], [https://www.ebi.ac.uk/pdbsum/5ewk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ewk 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=5ewk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ewk OCA], [http://pdbe.org/5ewk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ewk RCSB], [http://www.ebi.ac.uk/pdbsum/5ewk PDBsum]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/C9Z6T8_STRSW C9Z6T8_STRSW] |
| | <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: Lyons, B]] | + | [[Category: Large Structures]] |
| - | [[Category: Merrill, A R]] | + | [[Category: Streptomyces scabiei 87 22]] |
| - | [[Category: Ravulapalli, R]] | + | [[Category: Lyons B]] |
| - | [[Category: Inhibitor]] | + | [[Category: Merrill AR]] |
| - | [[Category: Transferase]] | + | [[Category: Ravulapalli R]] |
| - | [[Category: Transferase-transferase inhibitor complex]]
| + | |
| Structural highlights
Function
C9Z6T8_STRSW
Publication Abstract from PubMed
A bioinformatics strategy was used to identify Scabin, a novel DNA-targeting enzyme from the plant pathogen 87.22 strain of Streptomyces scabies. Scabin shares nearly 40% sequence identity with the Pierisin family of mono-ADP-ribosyltransferase toxins. Scabin was purified to homogeneity as a 22-kDa single-domain enzyme and was shown to possess high NAD+-glycohydrolase (KM(NAD) = 68 +/- 3 microM; kcat = 94 +/- 2 min-1) activity with an R-S-Q-X-E motif; it was also shown to target deoxyguanosine and showed sigmoidal enzyme kinetics (K0.5(deoxyguanosine) = 302 +/- 12 microM; kcat = 14 min-1). Mass spectrometry analysis revealed that Scabin labels the exocyclic amino group on guanine bases in either single-stranded or double-stranded DNA. Several small molecule inhibitors were identified and the most potent compounds were found to inhibit the enzyme activity with Ki values ranging from 3 to 24 microM. PJ34, a well-known inhibitor of poly-ADP-ribosyltransferases, was shown to be the most potent inhibitor of Scabin. Scabin was crystallized and it represents the first structure of a DNA-targeting mono-ADP-ribosyltransferase enzyme; the structures of the apo form (1.45A) and with two inhibitors (P6-E, 1.4A; PJ34, 1.6A) were solved. These structures are also the first high-resolution models of the Pierisin subgroup of the mono-ADP-ribosyltransferase toxin family. A model of Scabin with its DNA substrate is also proposed.
Scabin, a novel DNA-acting ADP-ribosyltransferase from Streptomyces scabies.,Lyons B, Ravulapalli R, Lanoue J, Lugo MR, Dutta D, Carlin S, Merrill AR J Biol Chem. 2016 Mar 21. pii: jbc.M115.707653. PMID:27002155[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Lyons B, Ravulapalli R, Lanoue J, Lugo MR, Dutta D, Carlin S, Merrill AR. Scabin, a novel DNA-acting ADP-ribosyltransferase from Streptomyces scabies. J Biol Chem. 2016 Mar 21. pii: jbc.M115.707653. PMID:27002155 doi:http://dx.doi.org/10.1074/jbc.M115.707653
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