6mkj - Revision history

OCA at 14:43, 13 March 2024

OCA — Wed, 13 Mar 2024 14:43:49 GMT

←Older revision		Revision as of 14:43, 13 March 2024
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	<StructureSection load='6mkj' size='340' side='right'caption='[[6mkj]], [[Resolution\|resolution]] 2.86Å' scene=''>		<StructureSection load='6mkj' size='340' side='right'caption='[[6mkj]], [[Resolution\|resolution]] 2.86Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mkj]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_19434 Atcc 19434~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MKJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6MKJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mkj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterococcus_faecium Enterococcus faecium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MKJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MKJ FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~pbp5 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=1352 ATCC 19434])~~</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]] 2.864Å</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=6mkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mkj OCA], [~~http~~://pdbe.org/6mkj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6mkj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6mkj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6mkj 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=6mkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mkj OCA], [https://pdbe.org/6mkj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mkj RCSB], [https://www.ebi.ac.uk/pdbsum/6mkj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mkj ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/A0A075Q0W3_ENTFC A0A075Q0W3_ENTFC]
-	The final steps of cell-wall biosynthesis in bacteria are carried out by penicillin-binding proteins (PBPs), whose transpeptidase domains form the crosslinks in peptidoglycan chains that define the bacterial cell wall. These enzymes are the targets of beta-lactam antibiotics, as their inhibition reduces the structural integrity of the cell wall. Bacterial resistance to antibiotics is a rapidly growing concern; however, the structural underpinnings of PBP-derived antibiotic resistance are poorly understood. PBP4 and PBP5 are low-affinity, class B transpeptidases that confer antibiotic resistance to Enterococcus faecalis and Enterococcus faecium, respectively. Here, we report the crystal structures of PBP4 (1.8 A) and PBP5 (2.7 A) in their apo and acyl-enzyme complexes with the beta-lactams benzylpenicillin, imipenem and ceftaroline. We found that, although these three beta-lactams adopt geometries similar to those observed in other class B PBP structures, there are small, but significant differences that likely decrease antibiotic efficacy. Further, we also discovered that the N-terminal domain extensions in this class of PBPs undergo large rigid-body rotations without impacting the structure of the catalytic transpeptidase domain. Together, our findings are defining the subtle functional and structural differences in the enterococcus PBPs that allow them to support transpeptidase activity while also conferring bacterial resistance to antibiotics that function as substrate mimics.	+

-	The structures of penicillin binding protein 4 (PBP4) and PBP5 from Enterococci provide structural insights into beta-lactam resistance.,Moon TM, D'Andrea ED, Lee CW, Soares A, Jakoncic J, Desbonnet C, Solache MG, Rice LB, Page R, Peti W J Biol Chem. 2018 Oct 24. pii: RA118.006052. doi: 10.1074/jbc.RA118.006052. PMID:30355734<ref>PMID:30355734</ref>	+	==See Also==
-		+	*[[Penicillin-binding protein 3D structures\|Penicillin-binding protein 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class~~=~~"pdbe-citations 6mkj" style~~=~~"background-color:#fffaf0;"></div>~~	+
-	~~== References~~ ==	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 19434~~]]	+	[[Category: Enterococcus faecium]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Andrea~~, E D.D~~]]	+	[[Category: D'Andrea ED]]
-	[[Category: Jaconcic, J]]	+	[[Category: Jaconcic J]]
-	[[Category: Moon~~, T M~~]]	+	[[Category: Moon TM]]
-	[[Category: Page, R]]	+	[[Category: Page R]]
-	[[Category: Peti, W]]	+	[[Category: Peti W]]
-	[[Category: Soares, A]]	+	[[Category: Soares A]]
-	~~[[Category: Pbp]]~~	+
-	~~[[Category: Penicillin binding protein]]~~	+
-	~~[[Category: Peptide binding protein]]~~	+
-	~~[[Category: Protein binding]]~~	+
-	~~[[Category: Transpeptidase~~]]	+

OCA at 10:59, 18 December 2019

OCA — Wed, 18 Dec 2019 10:59:17 GMT

←Older revision		Revision as of 10:59, 18 December 2019
Line 1:		Line 1:

	==Crystal structure of penicillin binding protein 5 (PBP5) from Enterococcus faecium in the closed conformation==		==Crystal structure of penicillin binding protein 5 (PBP5) from Enterococcus faecium in the closed conformation==
-	<StructureSection load='6mkj' size='340' side='right' caption='[[6mkj]], [[Resolution\|resolution]] 2.86Å' scene=''>	+	<StructureSection load='6mkj' size='340' side='right'caption='[[6mkj]], [[Resolution\|resolution]] 2.86Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6mkj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_19434 Atcc 19434]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MKJ FirstGlance]. <br>		<table><tr><td colspan='2'>[[6mkj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_19434 Atcc 19434]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MKJ FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Atcc 19434]]		[[Category: Atcc 19434]]
		+	[[Category: Large Structures]]
	[[Category: Andrea, E D.D]]		[[Category: Andrea, E D.D]]
	[[Category: Jaconcic, J]]		[[Category: Jaconcic, J]]

OCA at 12:55, 7 November 2018

OCA — Wed, 07 Nov 2018 12:55:30 GMT

←Older revision		Revision as of 12:55, 7 November 2018
Line 3:		Line 3:
	<StructureSection load='6mkj' size='340' side='right' caption='[[6mkj]], [[Resolution\|resolution]] 2.86Å' scene=''>		<StructureSection load='6mkj' size='340' side='right' caption='[[6mkj]], [[Resolution\|resolution]] 2.86Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mkj]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MKJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mkj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_19434 Atcc 19434]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MKJ FirstGlance]. <br>
-	</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=6mkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mkj OCA], [http://pdbe.org/6mkj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mkj RCSB], [http://www.ebi.ac.uk/pdbsum/6mkj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mkj ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pbp5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1352 ATCC 19434])</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=6mkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mkj OCA], [http://pdbe.org/6mkj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mkj RCSB], [http://www.ebi.ac.uk/pdbsum/6mkj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mkj ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The final steps of cell-wall biosynthesis in bacteria are carried out by penicillin-binding proteins (PBPs), whose transpeptidase domains form the crosslinks in peptidoglycan chains that define the bacterial cell wall. These enzymes are the targets of beta-lactam antibiotics, as their inhibition reduces the structural integrity of the cell wall. Bacterial resistance to antibiotics is a rapidly growing concern; however, the structural underpinnings of PBP-derived antibiotic resistance are poorly understood. PBP4 and PBP5 are low-affinity, class B transpeptidases that confer antibiotic resistance to Enterococcus faecalis and Enterococcus faecium, respectively. Here, we report the crystal structures of PBP4 (1.8 A) and PBP5 (2.7 A) in their apo and acyl-enzyme complexes with the beta-lactams benzylpenicillin, imipenem and ceftaroline. We found that, although these three beta-lactams adopt geometries similar to those observed in other class B PBP structures, there are small, but significant differences that likely decrease antibiotic efficacy. Further, we also discovered that the N-terminal domain extensions in this class of PBPs undergo large rigid-body rotations without impacting the structure of the catalytic transpeptidase domain. Together, our findings are defining the subtle functional and structural differences in the enterococcus PBPs that allow them to support transpeptidase activity while also conferring bacterial resistance to antibiotics that function as substrate mimics.
		+
		+	The structures of penicillin binding protein 4 (PBP4) and PBP5 from Enterococci provide structural insights into beta-lactam resistance.,Moon TM, D'Andrea ED, Lee CW, Soares A, Jakoncic J, Desbonnet C, Solache MG, Rice LB, Page R, Peti W J Biol Chem. 2018 Oct 24. pii: RA118.006052. doi: 10.1074/jbc.RA118.006052. PMID:30355734<ref>PMID:30355734</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6mkj" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 19434]]
	[[Category: Andrea, E D.D]]		[[Category: Andrea, E D.D]]
	[[Category: Jaconcic, J]]		[[Category: Jaconcic, J]]

OCA at 07:01, 31 October 2018

OCA — Wed, 31 Oct 2018 07:01:13 GMT

←Older revision		Revision as of 07:01, 31 October 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 6mkj is ON HOLD until Paper Publication~~	+	==Crystal structure of penicillin binding protein 5 (PBP5) from Enterococcus faecium in the closed conformation==
-		+	<StructureSection load='6mkj' size='340' side='right' caption='[[6mkj]], [[Resolution\|resolution]] 2.86Å' scene=''>
-	~~Authors: Moon, T.M., Soares, A., D'Andrea, E.D., Jaconcic, J., Peti, W., Page, R.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6mkj]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MKJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MKJ FirstGlance]. <br>
-	~~Description:~~ Crystal structure of penicillin binding protein 5 (PBP5) from Enterococcus faecium in the closed conformation	+	</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=6mkj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mkj OCA], [http://pdbe.org/6mkj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mkj RCSB], [http://www.ebi.ac.uk/pdbsum/6mkj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mkj ProSAT]</span></td></tr>
-	[[~~Category: Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: D'~~Andrea~~, E.D]]	+	__TOC__
-	[[Category: ~~Peti~~, W]]	+	</StructureSection>
		+	[[Category: Andrea, E D.D]]
	[[Category: Jaconcic, J]]		[[Category: Jaconcic, J]]
		+	[[Category: Moon, T M]]
	[[Category: Page, R]]		[[Category: Page, R]]
-	[[Category: ~~Moon~~, ~~T.M~~]]	+	[[Category: Peti, W]]
	[[Category: Soares, A]]		[[Category: Soares, A]]
		+	[[Category: Pbp]]
		+	[[Category: Penicillin binding protein]]
		+	[[Category: Peptide binding protein]]
		+	[[Category: Protein binding]]
		+	[[Category: Transpeptidase]]

OCA at 06:31, 17 October 2018

OCA — Wed, 17 Oct 2018 06:31:32 GMT

←Older revision		Revision as of 06:31, 17 October 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6mkj is ON HOLD	+	The entry 6mkj is ON HOLD until Paper Publication

	Authors: Moon, T.M., Soares, A., D'Andrea, E.D., Jaconcic, J., Peti, W., Page, R.		Authors: Moon, T.M., Soares, A., D'Andrea, E.D., Jaconcic, J., Peti, W., Page, R.

OCA: Protected "6mkj" [edit=sysop:move=sysop]

OCA — Wed, 03 Oct 2018 06:29:05 GMT

Protected "6mkj" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:29, 3 October 2018

OCA: New page: '''Unreleased structure''' The entry 6mkj is ON HOLD Authors: Moon, T.M., Soares, A., D'Andrea, E.D., Jaconcic, J., Peti, W., Page, R. Description: Crystal structure of penicillin bind...

OCA — Wed, 03 Oct 2018 06:29:04 GMT

New page: '''Unreleased structure''' The entry 6mkj is ON HOLD Authors: Moon, T.M., Soares, A., D'Andrea, E.D., Jaconcic, J., Peti, W., Page, R. Description: Crystal structure of penicillin bind...

New page

'''Unreleased structure'''

The entry 6mkj is ON HOLD

Authors: Moon, T.M., Soares, A., D'Andrea, E.D., Jaconcic, J., Peti, W., Page, R.

Description: Crystal structure of penicillin binding protein 5 (PBP5) from Enterococcus faecium in the closed conformation
[[Category: Unreleased Structures]]
[[Category: D'Andrea, E.D]]
[[Category: Peti, W]]
[[Category: Jaconcic, J]]
[[Category: Page, R]]
[[Category: Moon, T.M]]
[[Category: Soares, A]]