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5z5r

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Revision as of 21:14, 28 October 2020

Nukacin ISK-1 in inactive state

Structural highlights

5z5r is a 1 chain structure with sequence from Staphylococcus warneri. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
NonStd Res:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[LANNA_STAWA] Lanthionine-containing peptide antibiotic (lantibiotic) active on Gram-positive bacteria, such as Lactobacillus sakei, Leuconostoc mesenteroides and Pediococcus pentosaceus. The bactericidal activity of lantibiotics is based on depolarization of energized bacterial cytoplasmic membranes, initiated by the formation of aqueous transmembrane pores.^[1] ^[2] [REFERENCE:4]

Publication Abstract from PubMed

The lantibiotic nukacin ISK-1 exerts antimicrobial activity through binding to lipid II. Here, we perform NMR analyses of the structure of nukacin ISK-1 and the interaction with lipid II. Unexpectedly, nukacin ISK-1 exists in two structural states in aqueous solution, with an interconversion rate on a time scale of seconds. The two structures differ in the relative orientations of the two lanthionine rings, ring A and ring C. Chemical shift perturbation induced by the titration of lipid II reveals that only one state was capable of binding to lipid II. On the molecular surface of the active state, a multiple hydrogen-bonding site formed by amino acid residues in the ring A region is adjacent to a hydrophobic surface formed by residues in the ring C region, and we propose that these sites interact with the pyrophosphate moiety and the isoprene chain of the lipid II molecule, respectively.

The lantibiotic nukacin ISK-1 exists in an equilibrium between active and inactive lipid-II binding states.,Fujinami D, -Mahin AA, Elsayed KM, Islam MR, Nagao JI, Roy U, Momin S, Zendo T, Kohda D, Sonomoto K Commun Biol. 2018 Sep 25;1:150. doi: 10.1038/s42003-018-0150-3. eCollection 2018. PMID:30272026^[3]

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

References

↑ Aso Y, Nagao J, Koga H, Okuda K, Kanemasa Y, Sashihara T, Nakayama J, Sonomoto K. Heterologous expression and functional analysis of the gene cluster for the biosynthesis of and immunity to the lantibiotic, nukacin ISK-1. J Biosci Bioeng. 2004;98(6):429-36. PMID:16233732 doi:http://dx.doi.org/S1389-1723(05)00308-7
↑ Asaduzzaman SM, Nagao J, Aso Y, Nakayama J, Sonomoto K. Lysine-oriented charges trigger the membrane binding and activity of nukacin ISK-1. Appl Environ Microbiol. 2006 Sep;72(9):6012-7. PMID:16957223 doi:http://dx.doi.org/72/9/6012
↑ Fujinami D, -Mahin AA, Elsayed KM, Islam MR, Nagao JI, Roy U, Momin S, Zendo T, Kohda D, Sonomoto K. The lantibiotic nukacin ISK-1 exists in an equilibrium between active and inactive lipid-II binding states. Commun Biol. 2018 Sep 25;1:150. doi: 10.1038/s42003-018-0150-3. eCollection 2018. PMID:30272026 doi:http://dx.doi.org/10.1038/s42003-018-0150-3

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/5z5r"

@@ Line 1: / Line 1: @@
 ==Nukacin ISK-1 in inactive state==
-<StructureSection load='5z5r' size='340' side='right' caption='[[5z5r]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
+<StructureSection load='5z5r' size='340' side='right'caption='[[5z5r]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5z5r]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_warneri Staphylococcus warneri]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z5R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Z5R FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5z5r]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_warneri Staphylococcus warneri]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z5R OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5Z5R FirstGlance]. <br>
 </td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DAL:D-ALANINE'>DAL</scene>, <scene name='pdbligand=DBB:D-ALPHA-AMINOBUTYRIC+ACID'>DBB</scene>, <scene name='pdbligand=DBU:(2Z)-2-AMINOBUT-2-ENOIC+ACID'>DBU</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=5z5r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z5r OCA], [http://pdbe.org/5z5r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5z5r RCSB], [http://www.ebi.ac.uk/pdbsum/5z5r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5z5r ProSAT]</span></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=5z5r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z5r OCA], [http://pdbe.org/5z5r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5z5r RCSB], [http://www.ebi.ac.uk/pdbsum/5z5r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5z5r ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 22: / Line 22: @@
 __TOC__
 </StructureSection>
+[[Category: Large Structures]]
 [[Category: Staphylococcus warneri]]
 [[Category: Fujinami, D]]

5z5r

From Proteopedia

Revision as of 21:14, 28 October 2020

Nukacin ISK-1 in inactive state

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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