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5jrl

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Crystal Structure of the Sphingopyxin I Lasso Peptide Isopeptidase SpI-IsoP (Native)

Structural highlights

5jrl is a 4 chain structure with sequence from Sphingopyxis alaskensis RB2256. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 3.2Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q1GQ33_SPHAL

Publication Abstract from PubMed

Lasso peptides are natural products that assume a unique lariat knot topology. Lasso peptide isopeptidases (IsoPs) eliminate this topology through isopeptide bond cleavage. To probe how these enzymes distinguish between substrates and hydrolyze only isopeptide bonds, we examined the structure and mechanism of a previously uncharacterized IsoP from the proteobacterium Sphingopyxis alaskensis RB2256 (SpI-IsoP). We demonstrate that SpI-IsoP efficiently and specifically linearizes the lasso peptide sphingopyxin I (SpI) and variants thereof. We also present crystal structures of SpI and SpI-IsoP, revealing a threaded topology for the former and a prolyl oligopeptidase (POP)-like fold for the latter. Subsequent structure-guided mutational analysis allowed us to propose roles for active-site residues. Our study sheds light on lasso peptide catabolism and expands the engineering potential of these fascinating molecules.

Structure and Mechanism of the Sphingopyxin I Lasso Peptide Isopeptidase.,Fage CD, Hegemann JD, Nebel AJ, Steinbach RM, Zhu S, Linne U, Harms K, Bange G, Marahiel MA Angew Chem Int Ed Engl. 2016 Oct 4;55(41):12717-21. doi: 10.1002/anie.201605232. , Epub 2016 Sep 9. PMID:27611791^[1]

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

References

↑ Fage CD, Hegemann JD, Nebel AJ, Steinbach RM, Zhu S, Linne U, Harms K, Bange G, Marahiel MA. Structure and Mechanism of the Sphingopyxin I Lasso Peptide Isopeptidase. Angew Chem Int Ed Engl. 2016 Oct 4;55(41):12717-21. doi: 10.1002/anie.201605232. , Epub 2016 Sep 9. PMID:27611791 doi:http://dx.doi.org/10.1002/anie.201605232

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5jrl"

@@ Line 3: / Line 3: @@
 <StructureSection load='5jrl' size='340' side='right'caption='[[5jrl]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5jrl]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JRL OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5JRL FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5jrl]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Sphingopyxis_alaskensis_RB2256 Sphingopyxis alaskensis RB2256]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JRL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JRL FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5jrk|5jrk]], [[5jqf|5jqf]]</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]] 3.2&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5jrl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jrl OCA], [http://pdbe.org/5jrl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jrl RCSB], [http://www.ebi.ac.uk/pdbsum/5jrl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jrl 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=5jrl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jrl OCA], [https://pdbe.org/5jrl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jrl RCSB], [https://www.ebi.ac.uk/pdbsum/5jrl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jrl ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q1GQ33_SPHAL Q1GQ33_SPHAL]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 23: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Bange, G]]
+[[Category: Sphingopyxis alaskensis RB2256]]
-[[Category: Fage, C D]]
+[[Category: Bange G]]
-[[Category: Hegemann, J D]]
+[[Category: Fage CD]]
-[[Category: Marahiel, M A]]
+[[Category: Hegemann JD]]
-[[Category: Alpha/beta-hydrolase]]
+[[Category: Marahiel MA]]
-[[Category: Beta-propeller]]
-[[Category: Catalytic triad]]
-[[Category: Hydrolase]]
-[[Category: Lasso peptide isopeptidase]]
-[[Category: Oxyanion hole]]
-[[Category: Serine protease]]

5jrl

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Current revision

Crystal Structure of the Sphingopyxin I Lasso Peptide Isopeptidase SpI-IsoP (Native)

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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