3str - Revision history

OCA at 09:56, 1 March 2024

2024-03-01T09:56:54Z

← Older revision		Revision as of 09:56, 1 March 2024
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	<StructureSection load='3str' size='340' side='right'caption='[[3str]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='3str' size='340' side='right'caption='[[3str]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3str]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus~~ pneumoniae~~" (klein 1884) weichselbaum 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3STR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3STR FirstGlance]. <br>		<table><tr><td colspan='2'>[[3str]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3STR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3STR FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3LI:(4R)-3-(4-[4-(2-CHLOROPHENYL)PIPERAZIN-1-YL]-6-{[2-METHYL-6-(METHYLCARBAMOYL)PHENYL]AMINO}-1,3,5-TRIAZIN-2-YL)-N-[2-(HYDROXYAMINO)-2-OXOETHYL]-1,3-THIAZOLIDINE-4-CARBOXAMIDE'>3LI</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <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]] 1.75Å</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">defB, def3 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1313 "Diplococcus pneumoniae" (Klein 1884) Weichselbaum 1886])</td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3LI:(4R)-3-(4-[4-(2-CHLOROPHENYL)PIPERAZIN-1-YL]-6-{[2-METHYL-6-(METHYLCARBAMOYL)PHENYL]AMINO}-1,3,5-TRIAZIN-2-YL)-N-[2-(HYDROXYAMINO)-2-OXOETHYL]-1,3-THIAZOLIDINE-4-CARBOXAMIDE'>3LI</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peptide_deformylase Peptide deformylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.88 3.5.1.88] </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=3str FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3str OCA], [https://pdbe.org/3str PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3str RCSB], [https://www.ebi.ac.uk/pdbsum/3str PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3str 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=3str FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3str OCA], [https://pdbe.org/3str PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3str RCSB], [https://www.ebi.ac.uk/pdbsum/3str PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3str ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/Q939R9_STREE Q939R9_STREE]] Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions (By similarity).[HAMAP-Rule:MF_00163]		[https://www.uniprot.org/uniprot/Q939R9_STREE Q939R9_STREE] Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions (By similarity).[HAMAP-Rule:MF_00163]
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	The continual bacterial adaptation to antibiotics creates an ongoing medical need for the development of novel therapeutics. Polypeptide deformylase (PDF) is a highly conserved bacterial enzyme, which is essential for viability. It has previously been shown that PDF inhibitors represent a promising new area for the development of antimicrobial agents, and that many of the best PDF inhibitors demonstrate slow, time dependent binding. In order to gain a better understanding of the mechanistic origin of this time dependent inhibition, we examined in detail the kinetics of PDF catalysis and inhibition by several different PDF inhibitors. Varying pH and solvent isotope led to clear changes in time dependent inhibition parameters, as did inclusion of NaCl, which binds to the active site metal of PDF. Quantitative analysis of these results demonstrated that the observed time dependence arises from slow binding of the inhibitors to the active site metal. However, we also found several metal binding inhibitors that displayed rapid, non-time dependent onset of inhibition. By a combination of structural and chemical modification studies, we show that metal binding is only slow when the rest of the inhibitor makes optimal hydrogen bonds within the subsites of PDF. Both of these interactions between the inhibitor and enzyme were found to be necessary to observe time dependent inhibition, as elimination of either leads to its loss.

	Understanding the Origins of Time Dependent Inhibition by Polypeptide Deformylase Inhibitors.,Totoritis R, Duraiswami C, Taylor AN, Kerrigan JJ, Campobasso N, Ward P, King BW, Murray-Thompson MF, Jones AD, Van Aller G, Aubart KM, Zalacain M, Thrall SH, Meek TD, Schwartz B Biochemistry. 2011 Jun 28. PMID:21711014<ref>PMID:21711014</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 3str" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Peptide deformylase~~]]		[[Category: Streptococcus pneumoniae]]
	[[Category: Campobasso, N]]		[[Category: Campobasso N]]
	[[Category: Ward, P]]		[[Category: Ward P]]
	~~[[Category: Alpha-beta fold]]~~
	~~[[Category: Hydrolase activity]]~~
	~~[[Category: Hydrolase-hydrolase inhibitor complex]]~~
	~~[[Category: Metal ion binding]]~~
	~~[[Category: Peptide deformylase activity~~]]

OCA at 08:10, 29 June 2022

2022-06-29T08:10:13Z

← Older revision		Revision as of 08:10, 29 June 2022
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	==Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid==		==Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid==
	<StructureSection load='3str' size='340' side='right' caption='[[3str]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='3str' size='340' side='right'caption='[[3str]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3str]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3STR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3STR FirstGlance]. <br>		<table><tr><td colspan='2'>[[3str]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3STR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3STR FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3LI:(4R)-3-(4-[4-(2-CHLOROPHENYL)PIPERAZIN-1-YL]-6-{[2-METHYL-6-(METHYLCARBAMOYL)PHENYL]AMINO}-1,3,5-TRIAZIN-2-YL)-N-[2-(HYDROXYAMINO)-2-OXOETHYL]-1,3-THIAZOLIDINE-4-CARBOXAMIDE'>3LI</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <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=3LI:(4R)-3-(4-[4-(2-CHLOROPHENYL)PIPERAZIN-1-YL]-6-{[2-METHYL-6-(METHYLCARBAMOYL)PHENYL]AMINO}-1,3,5-TRIAZIN-2-YL)-N-[2-(HYDROXYAMINO)-2-OXOETHYL]-1,3-THIAZOLIDINE-4-CARBOXAMIDE'>3LI</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">defB, def3 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1313 "Diplococcus pneumoniae" (Klein 1884) Weichselbaum 1886])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">defB, def3 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1313 "Diplococcus pneumoniae" (Klein 1884) Weichselbaum 1886])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Peptide_deformylase Peptide deformylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.88 3.5.1.88] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peptide_deformylase Peptide deformylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.88 3.5.1.88] </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=3str FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3str OCA], [~~http~~://pdbe.org/3str PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3str RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3str PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3str 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=3str FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3str OCA], [https://pdbe.org/3str PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3str RCSB], [https://www.ebi.ac.uk/pdbsum/3str PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3str ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/Q939R9_STREE Q939R9_STREE]] Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions (By similarity).[HAMAP-Rule:MF_00163]		[[https://www.uniprot.org/uniprot/Q939R9_STREE Q939R9_STREE]] Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions (By similarity).[HAMAP-Rule:MF_00163]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Peptide deformylase]]		[[Category: Peptide deformylase]]
	[[Category: Campobasso, N]]		[[Category: Campobasso, N]]

OCA at 12:47, 5 August 2016

2016-08-05T12:47:11Z

← Older revision		Revision as of 12:47, 5 August 2016
Line 1:		Line 1:

	==Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid==		==Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid==
	<StructureSection load='3str' size='340' side='right' caption='[[3str]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='3str' size='340' side='right' caption='[[3str]], [[Resolution\|resolution]] 1.75Å' scene=''>
Line 6:		Line 7:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">defB, def3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1313 "Diplococcus pneumoniae" (Klein 1884) Weichselbaum 1886])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">defB, def3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1313 "Diplococcus pneumoniae" (Klein 1884) Weichselbaum 1886])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptide_deformylase Peptide deformylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.88 3.5.1.88] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptide_deformylase Peptide deformylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.88 3.5.1.88] </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=3str FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3str OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3str RCSB], [http://www.ebi.ac.uk/pdbsum/3str 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=3str FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3str OCA], [http://pdbe.org/3str PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3str RCSB], [http://www.ebi.ac.uk/pdbsum/3str PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3str 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 3str" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:57, 25 December 2014

2014-12-25T18:57:37Z

← Older revision		Revision as of 18:57, 25 December 2014
Line 1:		Line 1:
	~~{{STRUCTURE_3str\| PDB=3str \| SCENE= }}~~		==Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid==
	===Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid===		<StructureSection load='3str' size='340' side='right' caption='[[3str]], [[Resolution\|resolution]] 1.75Å' scene=''>
	{~~{ABSTRACT_PUBMED_21711014}~~}		== Structural highlights ==
			<table><tr><td colspan='2'>[[3str]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3STR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3STR FirstGlance]. <br>
	==Function==		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3LI:(4R)-3-(4-[4-(2-CHLOROPHENYL)PIPERAZIN-1-YL]-6-{[2-METHYL-6-(METHYLCARBAMOYL)PHENYL]AMINO}-1,3,5-TRIAZIN-2-YL)-N-[2-(HYDROXYAMINO)-2-OXOETHYL]-1,3-THIAZOLIDINE-4-CARBOXAMIDE'>3LI</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">defB, def3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1313 "Diplococcus pneumoniae" (Klein 1884) Weichselbaum 1886])</td></tr>
			<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptide_deformylase Peptide deformylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.88 3.5.1.88] </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=3str FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3str OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3str RCSB], [http://www.ebi.ac.uk/pdbsum/3str PDBsum]</span></td></tr>
			</table>
			== Function ==
	[[http://www.uniprot.org/uniprot/Q939R9_STREE Q939R9_STREE]] Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions (By similarity).[HAMAP-Rule:MF_00163]		[[http://www.uniprot.org/uniprot/Q939R9_STREE Q939R9_STREE]] Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions (By similarity).[HAMAP-Rule:MF_00163]
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The continual bacterial adaptation to antibiotics creates an ongoing medical need for the development of novel therapeutics. Polypeptide deformylase (PDF) is a highly conserved bacterial enzyme, which is essential for viability. It has previously been shown that PDF inhibitors represent a promising new area for the development of antimicrobial agents, and that many of the best PDF inhibitors demonstrate slow, time dependent binding. In order to gain a better understanding of the mechanistic origin of this time dependent inhibition, we examined in detail the kinetics of PDF catalysis and inhibition by several different PDF inhibitors. Varying pH and solvent isotope led to clear changes in time dependent inhibition parameters, as did inclusion of NaCl, which binds to the active site metal of PDF. Quantitative analysis of these results demonstrated that the observed time dependence arises from slow binding of the inhibitors to the active site metal. However, we also found several metal binding inhibitors that displayed rapid, non-time dependent onset of inhibition. By a combination of structural and chemical modification studies, we show that metal binding is only slow when the rest of the inhibitor makes optimal hydrogen bonds within the subsites of PDF. Both of these interactions between the inhibitor and enzyme were found to be necessary to observe time dependent inhibition, as elimination of either leads to its loss.

	~~==About this Structure==~~		Understanding the Origins of Time Dependent Inhibition by Polypeptide Deformylase Inhibitors.,Totoritis R, Duraiswami C, Taylor AN, Kerrigan JJ, Campobasso N, Ward P, King BW, Murray-Thompson MF, Jones AD, Van Aller G, Aubart KM, Zalacain M, Thrall SH, Meek TD, Schwartz B Biochemistry. 2011 Jun 28. PMID:21711014<ref>PMID:21711014</ref>
	~~[[3str]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3STR OCA].~~

	==~~Reference~~==		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	~~<ref group="xtra">PMID:021711014</ref>~~<references ~~group="xtra"~~/><~~references~~/>		</div>
			== References ==
			<references/>
			__TOC__
			</StructureSection>
	[[Category: Peptide deformylase]]		[[Category: Peptide deformylase]]
	[[Category: Campobasso, N.]]		[[Category: Campobasso, N]]
	[[Category: Ward, P.]]		[[Category: Ward, P]]
	[[Category: Alpha-beta fold]]		[[Category: Alpha-beta fold]]
	[[Category: Hydrolase activity]]		[[Category: Hydrolase activity]]

OCA at 08:16, 16 April 2014

2014-04-16T08:16:47Z

← Older revision		Revision as of 08:16, 16 April 2014
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	~~[[Image:3str.png\|left\|200px]]~~

	~~<!--~~
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	~~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.~~
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	{{STRUCTURE_3str\| PDB=3str \| SCENE= }}		{{STRUCTURE_3str\| PDB=3str \| SCENE= }}

	===Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid===		===Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid===
			{{ABSTRACT_PUBMED_21711014}}

			==Function==
	~~<!--~~		[[http://www.uniprot.org/uniprot/Q939R9_STREE Q939R9_STREE]] Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions (By similarity).[HAMAP-Rule:MF_00163]
	~~The line below this paragraph, {{ABSTRACT_PUBMED_21711014}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at~~ http://www.~~pubmed~~.~~gov), where 21711014~~ is the ~~PubMed ID number~~.
	-->
	~~{{ABSTRACT_PUBMED_21711014}}~~

	==About this Structure==		==About this Structure==
	[[3str]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Streptococcus_pneumoniae Streptococcus~~ pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3STR OCA].		[[3str]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3STR OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:021711014</ref><references group="xtra"/>		<ref group="xtra">PMID:021711014</ref><references group="xtra"/><references/>
	[[Category: Peptide deformylase]]		[[Category: Peptide deformylase]]
	~~[[Category: Streptococcus pneumoniae]]~~
	[[Category: Campobasso, N.]]		[[Category: Campobasso, N.]]
	[[Category: Ward, P.]]		[[Category: Ward, P.]]

OCA at 06:42, 17 August 2011

2011-08-17T06:42:49Z

← Older revision		Revision as of 06:42, 17 August 2011
Line 1:		Line 1:
	[[Image:3str.~~jpg~~\|left\|200px]]		[[Image:3str.png\|left\|200px]]

	<!--		<!--

OCA at 06:05, 27 July 2011

2011-07-27T06:05:49Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+[[Image:3str.jpg|left|200px]]
-The entry 3str is ON HOLD
+<!--
-Authors: Campobasso, N., Ward, P.
+===Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid===
-Description: Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid

OCA: Protected "3str" [edit=sysop:move=sysop]

2011-07-20T06:16:14Z

Protected "3str" [edit=sysop:move=sysop]

← Older revision	Revision as of 06:16, 20 July 2011
(No difference)

OCA: New page: '''Unreleased structure''' The entry 3str is ON HOLD Authors: Campobasso, N., Ward, P. Description: Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid

2011-07-20T06:16:13Z

New page: '''Unreleased structure''' The entry 3str is ON HOLD Authors: Campobasso, N., Ward, P. Description: Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid

New page

'''Unreleased structure'''

The entry 3str is ON HOLD

Authors: Campobasso, N., Ward, P.

Description: Strep Peptide Deformylase with a time dependent thiazolidine hydroxamic acid