7bh5 - Revision history

OCA at 12:28, 1 February 2024

2024-02-01T12:28:20Z

←Older revision		Revision as of 12:28, 1 February 2024
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	<StructureSection load='7bh5' size='340' side='right'caption='[[7bh5]], [[Resolution\|resolution]] 1.55Å' scene=''>		<StructureSection load='7bh5' size='340' side='right'caption='[[7bh5]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7bh5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_pneumoniae"_(schroeter_1886)_flugge_1886 "bacillus~~ pneumoniae~~" (schroeter 1886) flugge 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BH5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BH5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7bh5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Klebsiella_pneumoniae Klebsiella pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BH5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BH5 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=TVE:(2~{S},3~{R},4~{R})-3-[5-[(3-carboxyphenyl)carbamoyl]pyrrolidin-3-yl]sulfanyl-4-methyl-5-[(2~{S},3~{R})-3-oxidanyl-1-oxidanylidene-butan-2-yl]-3,4-dihydro-2~{H}-pyrrole-2-carboxylic+acid'>TVE</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]] 1.55Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">blaCTX-M-15 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=573 "Bacillus pneumoniae" (Schroeter 1886) Flugge 1886])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=TVE:(2~{S},3~{R},4~{R})-3-[5-[(3-carboxyphenyl)carbamoyl]pyrrolidin-3-yl]sulfanyl-4-methyl-5-[(2~{S},3~{R})-3-oxidanyl-1-oxidanylidene-butan-2-yl]-3,4-dihydro-2~{H}-pyrrole-2-carboxylic+acid'>TVE</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Beta-lactamase Beta-lactamase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.6 3.5.2.6] </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=7bh5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bh5 OCA], [https://pdbe.org/7bh5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bh5 RCSB], [https://www.ebi.ac.uk/pdbsum/7bh5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bh5 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=7bh5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bh5 OCA], [https://pdbe.org/7bh5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bh5 RCSB], [https://www.ebi.ac.uk/pdbsum/7bh5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bh5 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/G3G192_KLEPN G3G192_KLEPN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 7bh5" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7bh5" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Beta-lactamase 3D structures\|Beta-lactamase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Beta-lactamase~~]]	+	[[Category: Klebsiella pneumoniae]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Butryn, A]]	+	[[Category: Butryn A]]
-	[[Category: Hinchliffe, P]]	+	[[Category: Hinchliffe P]]
-	[[Category: Spencer, J]]	+	[[Category: Spencer J]]
-	[[Category: Tooke~~, C L]]~~	+	[[Category: Tooke CL]]
-	~~[[Category: Antibiotic]]~~	+
-	~~[[Category: Antimicrobial protein]]~~	+
-	~~[[Category: Ertapenem]]~~	+
-	~~[[Category: Serial crystallography]]~~	+
-	~~[[Category: Xfel~~]]	+

OCA at 10:31, 4 August 2021

2021-08-04T10:31:27Z

←Older revision		Revision as of 10:31, 4 August 2021
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	==XFEL structure of the ertapenem-derived CTX-M-15 acylenzyme after mixing for 2 sec using a piezoelectric injector (PolyPico)==		==XFEL structure of the ertapenem-derived CTX-M-15 acylenzyme after mixing for 2 sec using a piezoelectric injector (PolyPico)==
-	<StructureSection load='7bh5' size='340' side='right'caption='[[7bh5]]' scene=''>	+	<StructureSection load='7bh5' size='340' side='right'caption='[[7bh5]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BH5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BH5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7bh5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_pneumoniae"_(schroeter_1886)_flugge_1886 "bacillus pneumoniae" (schroeter 1886) flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BH5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BH5 FirstGlance]. <br>
-	</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=7bh5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bh5 OCA], [https://pdbe.org/7bh5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bh5 RCSB], [https://www.ebi.ac.uk/pdbsum/7bh5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bh5 ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=TVE:(2~{S},3~{R},4~{R})-3-[5-[(3-carboxyphenyl)carbamoyl]pyrrolidin-3-yl]sulfanyl-4-methyl-5-[(2~{S},3~{R})-3-oxidanyl-1-oxidanylidene-butan-2-yl]-3,4-dihydro-2~{H}-pyrrole-2-carboxylic+acid'>TVE</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">blaCTX-M-15 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=573 "Bacillus pneumoniae" (Schroeter 1886) Flugge 1886])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Beta-lactamase Beta-lactamase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.6 3.5.2.6] </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=7bh5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bh5 OCA], [https://pdbe.org/7bh5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bh5 RCSB], [https://www.ebi.ac.uk/pdbsum/7bh5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bh5 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Serial femtosecond crystallography has opened up many new opportunities in structural biology. In recent years, several approaches employing light-inducible systems have emerged to enable time-resolved experiments that reveal protein dynamics at high atomic and temporal resolutions. However, very few enzymes are light-dependent, whereas macromolecules requiring ligand diffusion into an active site are ubiquitous. In this work we present a drop-on-drop sample delivery system that enables the study of enzyme-catalyzed reactions in microcrystal slurries. The system delivers ligand solutions in bursts of multiple picoliter-sized drops on top of a larger crystal-containing drop inducing turbulent mixing and transports the mixture to the X-ray interaction region with temporal resolution. We demonstrate mixing using fluorescent dyes, numerical simulations and time-resolved serial femtosecond crystallography, which show rapid ligand diffusion through microdroplets. The drop-on-drop method has the potential to be widely applicable to serial crystallography studies, particularly of enzyme reactions with small molecule substrates.
		+
		+	An on-demand, drop-on-drop method for studying enzyme catalysis by serial crystallography.,Butryn A, Simon PS, Aller P, Hinchliffe P, Massad RN, Leen G, Tooke CL, Bogacz I, Kim IS, Bhowmick A, Brewster AS, Devenish NE, Brem J, Kamps JJAG, Lang PA, Rabe P, Axford D, Beale JH, Davy B, Ebrahim A, Orlans J, Storm SLS, Zhou T, Owada S, Tanaka R, Tono K, Evans G, Owen RL, Houle FA, Sauter NK, Schofield CJ, Spencer J, Yachandra VK, Yano J, Kern JF, Orville AM Nat Commun. 2021 Jul 22;12(1):4461. doi: 10.1038/s41467-021-24757-7. PMID:34294694<ref>PMID:34294694</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7bh5" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Beta-lactamase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Butryn A]]	+	[[Category: Butryn, A]]
-	[[Category: Hinchliffe P]]	+	[[Category: Hinchliffe, P]]
-	[[Category: Spencer J]]	+	[[Category: Spencer, J]]
-	[[Category: Tooke CL]]	+	[[Category: Tooke, C L]]
		+	[[Category: Antibiotic]]
		+	[[Category: Antimicrobial protein]]
		+	[[Category: Ertapenem]]
		+	[[Category: Serial crystallography]]
		+	[[Category: Xfel]]

OCA at 08:56, 21 July 2021

2021-07-21T08:56:33Z

←Older revision		Revision as of 08:56, 21 July 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7bh5 is ~~ON HOLD until Paper Publication~~	+	==XFEL structure of the ertapenem-derived CTX-M-15 acylenzyme after mixing for 2 sec using a piezoelectric injector (PolyPico)==
-		+	<StructureSection load='7bh5' size='340' side='right'caption='[[7bh5]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7BH5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7BH5 FirstGlance]. <br>
-	~~Description~~:	+	</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=7bh5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7bh5 OCA], [https://pdbe.org/7bh5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7bh5 RCSB], [https://www.ebi.ac.uk/pdbsum/7bh5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7bh5 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Butryn A]]
		+	[[Category: Hinchliffe P]]
		+	[[Category: Spencer J]]
		+	[[Category: Tooke CL]]

OCA: Protected "7bh5" [edit=sysop:move=sysop]

2021-01-20T06:39:39Z

Protected "7bh5" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:39, 20 January 2021

OCA: New page: '''Unreleased structure''' The entry 7bh5 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

2021-01-20T06:39:38Z

New page: '''Unreleased structure''' The entry 7bh5 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7bh5 is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]