4e81 - Revision history

OCA at 11:02, 1 March 2024

2024-03-01T11:02:28Z

← Older revision		Revision as of 11:02, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4e81]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Apis_mellifera Apis mellifera] and [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E81 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E81 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4e81]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Apis_mellifera Apis mellifera] and [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E81 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E81 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.9Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=4e81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e81 OCA], [https://pdbe.org/4e81 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e81 RCSB], [https://www.ebi.ac.uk/pdbsum/4e81 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e81 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=4e81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e81 OCA], [https://pdbe.org/4e81 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e81 RCSB], [https://www.ebi.ac.uk/pdbsum/4e81 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e81 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/DNAK_ECOLI DNAK_ECOLI]] Plays an essential role in the initiation of phage lambda DNA replication, where it acts in an ATP-dependent fashion with the DnaJ protein to release lambda O and P proteins from the preprimosomal complex. DnaK is also involved in chromosomal DNA replication, possibly through an analogous interaction with the DnaA protein. Also participates actively in the response to hyperosmotic shock.[HAMAP-Rule:MF_00332]		[https://www.uniprot.org/uniprot/DNAK_ECOLI DNAK_ECOLI] Plays an essential role in the initiation of phage lambda DNA replication, where it acts in an ATP-dependent fashion with the DnaJ protein to release lambda O and P proteins from the preprimosomal complex. DnaK is also involved in chromosomal DNA replication, possibly through an analogous interaction with the DnaA protein. Also participates actively in the response to hyperosmotic shock.[HAMAP-Rule:MF_00332]
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	The emergence of multiple-drug-resistant (MDR) bacterial pathogens in hospitals (nosocomial infections) presents a global threat of growing importance, especially for Gram-negative bacteria with extended spectrum beta-lactamase (ESBL) or the novel New Delhi metallo-beta-lactamase 1 (NDM-1) resistance. Starting from the antibacterial peptide apidaecin 1b, we have optimized the sequence to treat systemic infections with the most threatening human pathogens, such as Escherichia coli, Klebsiella pneumoniae, Pseudomonas aeruginosa, and Acinetobacter baumannii. The lead compound Api88 enters bacteria without lytic effects at the membrane and inhibits chaperone DnaK at the substrate binding domain with a K(D) of 5 mumol/L. The Api88-DnaK crystal structure revealed that Api88 binds with a seven residue long sequence (PVYIPRP), in two different modes. Mice did not show any sign of toxicity when Api88 was injected four times intraperitoneally at a dose of 40 mg/kg body weight (BW) within 24 h, whereas three injections of 1.25 mg/kg BW and 5 mg/kg BW were sufficient to rescue all animals in lethal sepsis models using pathogenic E. coli strains ATCC 25922 and Neumann, respectively. Radioactive labeling showed that Api88 enters all organs investigated including the brain and is cleared through both the liver and kidneys at similar rates. In conclusion, Api88 is a novel, highly promising, 18-residue peptide lead compound with favorable in vitro and in vivo properties including a promising safety margin.

	Api88 Is a Novel Antibacterial Designer Peptide To Treat Systemic Infections with Multidrug-Resistant Gram-Negative Pathogens.,Czihal P, Knappe D, Fritsche S, Zahn M, Berthold N, Piantavigna S, Muller U, Van Dorpe S, Herth N, Binas A, Kohler G, De Spiegeleer B, Martin LL, Nolte O, Strater N, Alber G, Hoffmann R ACS Chem Biol. 2012 May 17. PMID:22594381<ref>PMID:22594381</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 4e81" style="background-color:#fffaf0;"></div>~~

	==See Also==		==See Also==
	*[[Heat Shock Protein structures\|Heat Shock Protein structures]]		*[[Heat Shock Protein structures\|Heat Shock Protein structures]]
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:56, 28 September 2022

2022-09-28T06:56:20Z

← Older revision		Revision as of 06:56, 28 September 2022
Line 1:		Line 1:

	==Crystal structure of the substrate binding domain of E.coli DnaK in complex with a short apidaecin peptide==		==Crystal structure of the substrate binding domain of E.coli DnaK in complex with a short apidaecin peptide==
	<StructureSection load='4e81' size='340' side='right' caption='[[4e81]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4e81' size='340' side='right'caption='[[4e81]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4e81]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E81 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4E81 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4e81]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Apis_mellifera Apis mellifera] and [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E81 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E81 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>~~</td></tr>~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dkx\|1dkx]], [[1dky\|1dky]], [[1dkz\|1dkz]], [[3dpo\|3dpo]], [[3dpp\|3dpp]], [[3dpq\|3dpq]], [[3qnj\|3qnj]]</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=4e81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e81 OCA], [https://pdbe.org/4e81 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e81 RCSB], [https://www.ebi.ac.uk/pdbsum/4e81 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e81 ProSAT]</span></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0014, dnaK, groP, grpF, JW0013, seg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=4e81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e81 OCA], [~~http~~://pdbe.org/4e81 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4e81 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4e81 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4e81 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/DNAK_ECOLI DNAK_ECOLI]] Plays an essential role in the initiation of phage lambda DNA replication, where it acts in an ATP-dependent fashion with the DnaJ protein to release lambda O and P proteins from the preprimosomal complex. DnaK is also involved in chromosomal DNA replication, possibly through an analogous interaction with the DnaA protein. Also participates actively in the response to hyperosmotic shock.[HAMAP-Rule:MF_00332]		[[https://www.uniprot.org/uniprot/DNAK_ECOLI DNAK_ECOLI]] Plays an essential role in the initiation of phage lambda DNA replication, where it acts in an ATP-dependent fashion with the DnaJ protein to release lambda O and P proteins from the preprimosomal complex. DnaK is also involved in chromosomal DNA replication, possibly through an analogous interaction with the DnaA protein. Also participates actively in the response to hyperosmotic shock.[HAMAP-Rule:MF_00332]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4e81" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4e81" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Heat Shock Protein structures\|Heat Shock Protein structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Ecoli~~]]		[[Category: Apis mellifera]]
	[[Category: ~~Straeter, N~~]]		[[Category: Escherichia coli K-12]]
	[[Category: ~~Zahn, M~~]]		[[Category: Large Structures]]
	[[Category: ~~Chaperone~~]]		[[Category: Straeter N]]
			[[Category: Zahn M]]

OCA at 08:00, 15 November 2017

2017-11-15T08:00:28Z

← Older revision		Revision as of 08:00, 15 November 2017
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 4e81" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4e81" style="background-color:#fffaf0;"></div>

	~~==See Also==~~
	*[[Heat Shock Proteins\|Heat Shock Proteins]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 20:46, 4 August 2016

2016-08-04T20:46:53Z

← Older revision		Revision as of 20:46, 4 August 2016
Line 1:		Line 1:

	==Crystal structure of the substrate binding domain of E.coli DnaK in complex with a short apidaecin peptide==		==Crystal structure of the substrate binding domain of E.coli DnaK in complex with a short apidaecin peptide==
	<StructureSection load='4e81' size='340' side='right' caption='[[4e81]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4e81' size='340' side='right' caption='[[4e81]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4e81]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli Escherichia coli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E81 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E81 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4e81]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E81 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E81 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dkx\|1dkx]], [[1dky\|1dky]], [[1dkz\|1dkz]], [[3dpo\|3dpo]], [[3dpp\|3dpp]], [[3dpq\|3dpq]], [[3qnj\|3qnj]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dkx\|1dkx]], [[1dky\|1dky]], [[1dkz\|1dkz]], [[3dpo\|3dpo]], [[3dpp\|3dpp]], [[3dpq\|3dpq]], [[3qnj\|3qnj]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0014, dnaK, groP, grpF, JW0013, seg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~562 Escherichia coli~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0014, dnaK, groP, grpF, JW0013, seg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=4e81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e81 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4e81 RCSB], [http://www.ebi.ac.uk/pdbsum/4e81 PDBsum]</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=4e81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e81 OCA], [http://pdbe.org/4e81 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4e81 RCSB], [http://www.ebi.ac.uk/pdbsum/4e81 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4e81 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
			<div class="pdbe-citations 4e81" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Heat Shock Proteins\|Heat Shock Proteins]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Escherichia coli~~]]		[[Category: Ecoli]]
	[[Category: Straeter, N]]		[[Category: Straeter, N]]
	[[Category: Zahn, M]]		[[Category: Zahn, M]]
	[[Category: Chaperone]]		[[Category: Chaperone]]

OCA at 13:01, 25 December 2014

2014-12-25T13:01:57Z

← Older revision		Revision as of 13:01, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4e81]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E81 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E81 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4e81]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E81 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E81 FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dkx\|1dkx]], [[1dky\|1dky]], [[1dkz\|1dkz]], [[3dpo\|3dpo]], [[3dpp\|3dpp]], [[3dpq\|3dpq]], [[3qnj\|3qnj]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dkx\|1dkx]], [[1dky\|1dky]], [[1dkz\|1dkz]], [[3dpo\|3dpo]], [[3dpp\|3dpp]], [[3dpq\|3dpq]], [[3qnj\|3qnj]]</td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0014, dnaK, groP, grpF, JW0013, seg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0014, dnaK, groP, grpF, JW0013, seg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>
	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4e81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e81 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4e81 RCSB], [http://www.ebi.ac.uk/pdbsum/4e81 PDBsum]</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=4e81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e81 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4e81 RCSB], [http://www.ebi.ac.uk/pdbsum/4e81 PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/DNAK_ECOLI DNAK_ECOLI]] Plays an essential role in the initiation of phage lambda DNA replication, where it acts in an ATP-dependent fashion with the DnaJ protein to release lambda O and P proteins from the preprimosomal complex. DnaK is also involved in chromosomal DNA replication, possibly through an analogous interaction with the DnaA protein. Also participates actively in the response to hyperosmotic shock.[HAMAP-Rule:MF_00332]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Straeter, N.]]		[[Category: Straeter, N]]
	[[Category: Zahn, M.]]		[[Category: Zahn, M]]
	[[Category: Chaperone]]		[[Category: Chaperone]]

OCA at 08:14, 5 June 2014

2014-06-05T08:14:38Z

← Older revision		Revision as of 08:14, 5 June 2014
Line 1:		Line 1:
	[[~~Image~~:~~4e81~~.~~png~~\|~~left~~\|~~200px~~]]		==Crystal structure of the substrate binding domain of E.coli DnaK in complex with a short apidaecin peptide==
			<StructureSection load='4e81' size='340' side='right' caption='[[4e81]], [[Resolution\|resolution]] 1.90Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[4e81]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E81 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E81 FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1dkx\|1dkx]], [[1dky\|1dky]], [[1dkz\|1dkz]], [[3dpo\|3dpo]], [[3dpp\|3dpp]], [[3dpq\|3dpq]], [[3qnj\|3qnj]]</td></tr>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">b0014, dnaK, groP, grpF, JW0013, seg ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>
			<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4e81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e81 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4e81 RCSB], [http://www.ebi.ac.uk/pdbsum/4e81 PDBsum]</span></td></tr>
			<table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The emergence of multiple-drug-resistant (MDR) bacterial pathogens in hospitals (nosocomial infections) presents a global threat of growing importance, especially for Gram-negative bacteria with extended spectrum beta-lactamase (ESBL) or the novel New Delhi metallo-beta-lactamase 1 (NDM-1) resistance. Starting from the antibacterial peptide apidaecin 1b, we have optimized the sequence to treat systemic infections with the most threatening human pathogens, such as Escherichia coli, Klebsiella pneumoniae, Pseudomonas aeruginosa, and Acinetobacter baumannii. The lead compound Api88 enters bacteria without lytic effects at the membrane and inhibits chaperone DnaK at the substrate binding domain with a K(D) of 5 mumol/L. The Api88-DnaK crystal structure revealed that Api88 binds with a seven residue long sequence (PVYIPRP), in two different modes. Mice did not show any sign of toxicity when Api88 was injected four times intraperitoneally at a dose of 40 mg/kg body weight (BW) within 24 h, whereas three injections of 1.25 mg/kg BW and 5 mg/kg BW were sufficient to rescue all animals in lethal sepsis models using pathogenic E. coli strains ATCC 25922 and Neumann, respectively. Radioactive labeling showed that Api88 enters all organs investigated including the brain and is cleared through both the liver and kidneys at similar rates. In conclusion, Api88 is a novel, highly promising, 18-residue peptide lead compound with favorable in vitro and in vivo properties including a promising safety margin.

	~~{{STRUCTURE_4e81\| PDB=4e81 \| SCENE= }}~~		Api88 Is a Novel Antibacterial Designer Peptide To Treat Systemic Infections with Multidrug-Resistant Gram-Negative Pathogens.,Czihal P, Knappe D, Fritsche S, Zahn M, Berthold N, Piantavigna S, Muller U, Van Dorpe S, Herth N, Binas A, Kohler G, De Spiegeleer B, Martin LL, Nolte O, Strater N, Alber G, Hoffmann R ACS Chem Biol. 2012 May 17. PMID:22594381<ref>PMID:22594381</ref>

	~~===Crystal structure~~ of the ~~substrate binding domain~~ of E.~~coli DnaK in complex with a short apidaecin peptide===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_22594381}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[4e81]] is a 4 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E81 OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:022594381<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Straeter, N.]]		[[Category: Straeter, N.]]
	[[Category: Zahn, M.]]		[[Category: Zahn, M.]]
	[[Category: Chaperone]]		[[Category: Chaperone]]

OCA at 05:06, 1 August 2012

2012-08-01T05:06:06Z

← Older revision		Revision as of 05:06, 1 August 2012
Line 1:		Line 1:
	[[Image:4e81.~~jpg~~\|left\|200px]]		[[Image:4e81.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_4e81", creates the "Structure Box" on the page.~~
	~~You may change the PDB parameter (which sets the PDB file loaded into the applet)~~
	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~
	~~or leave the SCENE parameter empty for the default display.~~
	~~-->~~
	{{STRUCTURE_4e81\| PDB=4e81 \| SCENE= }}		{{STRUCTURE_4e81\| PDB=4e81 \| SCENE= }}

	===Crystal structure of the substrate binding domain of E.coli DnaK in complex with a short apidaecin peptide===		===Crystal structure of the substrate binding domain of E.coli DnaK in complex with a short apidaecin peptide===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_22594381}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 22594381 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_22594381}}		{{ABSTRACT_PUBMED_22594381}}

OCA at 05:55, 30 May 2012

2012-05-30T05:55:07Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+[[Image:4e81.jpg|left|200px]]
-The entry 4e81 is ON HOLD  until Paper Publication
+<!--
-Authors: Zahn, M., Straeter, N.
+===Crystal structure of the substrate binding domain of E.coli DnaK in complex with a short apidaecin peptide===
-Description: Crystal structure of the substrate binding domain of E.coli DnaK in complex with a short apidaecin peptide

OCA at 08:46, 16 May 2012

2012-05-16T08:46:35Z

← Older revision		Revision as of 08:46, 16 May 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4e81 is ON HOLD		The entry 4e81 is ON HOLD until Paper Publication

	Authors: Zahn, M., Straeter, N.		Authors: Zahn, M., Straeter, N.

	Description: Crystal structure of the substrate binding domain of E.coli DnaK in complex with a short apidaecin peptide		Description: Crystal structure of the substrate binding domain of E.coli DnaK in complex with a short apidaecin peptide

OCA: Protected "4e81" [edit=sysop:move=sysop]

2012-03-28T07:23:58Z

Protected "4e81" [edit=sysop:move=sysop]

← Older revision	Revision as of 07:23, 28 March 2012
(No difference)