7npk - Revision history

OCA at 07:50, 1 May 2024

OCA — Wed, 01 May 2024 07:50:17 GMT

←Older revision		Revision as of 07:50, 1 May 2024
Line 3:		Line 3:
	<StructureSection load='7npk' size='340' side='right'caption='[[7npk]], [[Resolution\|resolution]] 1.83Å' scene=''>		<StructureSection load='7npk' size='340' side='right'caption='[[7npk]], [[Resolution\|resolution]] 1.83Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7npk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NPK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NPK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7npk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NPK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NPK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UL2:N-((1S,2R)-1-hydroxy-1-(o-tolyl)pentan-2-yl)-2-oxo-2,3-dihydrobenzo[d]oxazole-5-carboxamide'>UL2</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]] 1.83Å</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SERPINA1, AAT, PI, PRO0684, PRO2209 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UL2:N-((1S,2R)-1-hydroxy-1-(o-tolyl)pentan-2-yl)-2-oxo-2,3-dihydrobenzo[d]oxazole-5-carboxamide'>UL2</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=7npk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7npk OCA], [https://pdbe.org/7npk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7npk RCSB], [https://www.ebi.ac.uk/pdbsum/7npk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7npk 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=7npk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7npk OCA], [https://pdbe.org/7npk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7npk RCSB], [https://www.ebi.ac.uk/pdbsum/7npk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7npk ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[[https://www.uniprot.org/uniprot/A1AT_HUMAN A1AT_HUMAN]] Defects in SERPINA1 are the cause of alpha-1-antitrypsin deficiency (A1ATD) [MIM:[https://omim.org/entry/613490 613490]]. A disorder whose most common manifestation is emphysema, which becomes evident by the third to fourth decade. A less common manifestation of the deficiency is liver disease, which occurs in children and adults, and may result in cirrhosis and liver failure. Environmental factors, particularly cigarette smoking, greatly increase the risk of emphysema at an earlier age.<ref>PMID:1905728</ref> <ref>PMID:2390072</ref> <ref>PMID:2227940</ref>	+	[https://www.uniprot.org/uniprot/A1AT_HUMAN A1AT_HUMAN] Defects in SERPINA1 are the cause of alpha-1-antitrypsin deficiency (A1ATD) [MIM:[https://omim.org/entry/613490 613490]. A disorder whose most common manifestation is emphysema, which becomes evident by the third to fourth decade. A less common manifestation of the deficiency is liver disease, which occurs in children and adults, and may result in cirrhosis and liver failure. Environmental factors, particularly cigarette smoking, greatly increase the risk of emphysema at an earlier age.<ref>PMID:1905728</ref> <ref>PMID:2390072</ref> <ref>PMID:2227940</ref>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/A1AT_HUMAN A1AT_HUMAN]] Inhibitor of serine proteases. Its primary target is elastase, but it also has a moderate affinity for plasmin and thrombin. Irreversibly inhibits trypsin, chymotrypsin and plasminogen activator. The aberrant form inhibits insulin-induced NO synthesis in platelets, decreases coagulation time and has proteolytic activity against insulin and plasmin.[:]<ref>PMID:1906855</ref> <ref>PMID:1406456</ref> Short peptide from AAT: reversible chymotrypsin inhibitor. It also inhibits elastase, but not trypsin. Its major physiological function is the protection of the lower respiratory tract against proteolytic destruction by human leukocyte elastase (HLE).[:]<ref>PMID:1906855</ref> <ref>PMID:1406456</ref>	+	[https://www.uniprot.org/uniprot/A1AT_HUMAN A1AT_HUMAN] Inhibitor of serine proteases. Its primary target is elastase, but it also has a moderate affinity for plasmin and thrombin. Irreversibly inhibits trypsin, chymotrypsin and plasminogen activator. The aberrant form inhibits insulin-induced NO synthesis in platelets, decreases coagulation time and has proteolytic activity against insulin and plasmin.[:]<ref>PMID:1906855</ref> <ref>PMID:1406456</ref> Short peptide from AAT: reversible chymotrypsin inhibitor. It also inhibits elastase, but not trypsin. Its major physiological function is the protection of the lower respiratory tract against proteolytic destruction by human leukocyte elastase (HLE).[:]<ref>PMID:1906855</ref> <ref>PMID:1406456</ref>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	alpha1-antitrypsin deficiency is characterised by the misfolding and intracellular polymerisation of mutant alpha1-antitrypsin protein within the endoplasmic reticulum (ER) of hepatocytes. Small molecules that bind and stabilise Z alpha1-antitrypsin were identified via a DNA-encoded library screen. A subsequent structure based optimisation led to a series of highly potent, selective and cellular active alpha1-antitrypsin correctors.	+

-	~~The development of highly potent and selective small molecule correctors of Z alpha1~~-antitrypsin ~~misfolding.,Liddle J, Pearce AC, Arico~~-Muendel C, Belyanskaya S, Brewster A, Brown M, Chung CW, Denis A, Dodic N, Dossang A, Eddershaw P, Klimaszewska D, Haq I, Holmes DS, Jagger A, Jakhria T, Jigorel E, Lind K, Messer J, Neu M, Olszewski A, Ronzoni R, Rowedder J, Rudiger M, Skinner S, Smith KJ, Trottet L, Uings I, Zhu Z, Irving JA, Lomas DA Bioorg Med Chem Lett. 2021 Mar 19;41:127973. doi: 10.1016/j.bmcl.2021.127973. PMID:33753261<ref>PMID:33753261</ref>	+	==See Also==
-		+	*[[Alpha-1-antitrypsin 3D structures\|Alpha-1-antitrypsin 3D structures]]
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe~~-~~citations 7npk" style="background-color:#fffaf0;"></div>~~	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chung, C]]	+	[[Category: Chung C]]
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Inhibitor]]~~	+
-	~~[[Category: Serprin]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 07:04, 14 April 2021

OCA — Wed, 14 Apr 2021 07:04:56 GMT

←Older revision		Revision as of 07:04, 14 April 2021
Line 1:		Line 1:

	==ALPHA-1 ANTITRYPSIN C232S COMPLEXED WITH CMPD3==		==ALPHA-1 ANTITRYPSIN C232S COMPLEXED WITH CMPD3==
-	<StructureSection load='7npk' size='340' side='right'caption='[[7npk]]' scene=''>	+	<StructureSection load='7npk' size='340' side='right'caption='[[7npk]], [[Resolution\|resolution]] 1.83Å' 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=7NPK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NPK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7npk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NPK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NPK 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=7npk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7npk OCA], [https://pdbe.org/7npk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7npk RCSB], [https://www.ebi.ac.uk/pdbsum/7npk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7npk 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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=UL2:N-((1S,2R)-1-hydroxy-1-(o-tolyl)pentan-2-yl)-2-oxo-2,3-dihydrobenzo[d]oxazole-5-carboxamide'>UL2</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SERPINA1, AAT, PI, PRO0684, PRO2209 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=7npk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7npk OCA], [https://pdbe.org/7npk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7npk RCSB], [https://www.ebi.ac.uk/pdbsum/7npk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7npk ProSAT]</span></td></tr>
	</table>		</table>
		+	== Disease ==
		+	[[https://www.uniprot.org/uniprot/A1AT_HUMAN A1AT_HUMAN]] Defects in SERPINA1 are the cause of alpha-1-antitrypsin deficiency (A1ATD) [MIM:[https://omim.org/entry/613490 613490]]. A disorder whose most common manifestation is emphysema, which becomes evident by the third to fourth decade. A less common manifestation of the deficiency is liver disease, which occurs in children and adults, and may result in cirrhosis and liver failure. Environmental factors, particularly cigarette smoking, greatly increase the risk of emphysema at an earlier age.<ref>PMID:1905728</ref> <ref>PMID:2390072</ref> <ref>PMID:2227940</ref>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/A1AT_HUMAN A1AT_HUMAN]] Inhibitor of serine proteases. Its primary target is elastase, but it also has a moderate affinity for plasmin and thrombin. Irreversibly inhibits trypsin, chymotrypsin and plasminogen activator. The aberrant form inhibits insulin-induced NO synthesis in platelets, decreases coagulation time and has proteolytic activity against insulin and plasmin.[:]<ref>PMID:1906855</ref> <ref>PMID:1406456</ref> Short peptide from AAT: reversible chymotrypsin inhibitor. It also inhibits elastase, but not trypsin. Its major physiological function is the protection of the lower respiratory tract against proteolytic destruction by human leukocyte elastase (HLE).[:]<ref>PMID:1906855</ref> <ref>PMID:1406456</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	alpha1-antitrypsin deficiency is characterised by the misfolding and intracellular polymerisation of mutant alpha1-antitrypsin protein within the endoplasmic reticulum (ER) of hepatocytes. Small molecules that bind and stabilise Z alpha1-antitrypsin were identified via a DNA-encoded library screen. A subsequent structure based optimisation led to a series of highly potent, selective and cellular active alpha1-antitrypsin correctors.
		+
		+	The development of highly potent and selective small molecule correctors of Z alpha1-antitrypsin misfolding.,Liddle J, Pearce AC, Arico-Muendel C, Belyanskaya S, Brewster A, Brown M, Chung CW, Denis A, Dodic N, Dossang A, Eddershaw P, Klimaszewska D, Haq I, Holmes DS, Jagger A, Jakhria T, Jigorel E, Lind K, Messer J, Neu M, Olszewski A, Ronzoni R, Rowedder J, Rudiger M, Skinner S, Smith KJ, Trottet L, Uings I, Zhu Z, Irving JA, Lomas DA Bioorg Med Chem Lett. 2021 Mar 19;41:127973. doi: 10.1016/j.bmcl.2021.127973. PMID:33753261<ref>PMID:33753261</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7npk" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Chung C]]	+	[[Category: Chung, C]]
		+	[[Category: Complex]]
		+	[[Category: Inhibitor]]
		+	[[Category: Serprin]]
		+	[[Category: Unknown function]]

OCA at 06:55, 7 April 2021

OCA — Wed, 07 Apr 2021 06:55:31 GMT

←Older revision		Revision as of 06:55, 7 April 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 7npk is ON HOLD until Paper Publication~~	+	==ALPHA-1 ANTITRYPSIN C232S COMPLEXED WITH CMPD3==
-		+	<StructureSection load='7npk' size='340' side='right'caption='[[7npk]]' scene=''>
-	~~Authors: Chung, C.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NPK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NPK FirstGlance]. <br>
-	~~Description:~~ ALPHA-1 ANTITRYPSIN C232S COMPLEXED WITH CMPD3	+	</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=7npk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7npk OCA], [https://pdbe.org/7npk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7npk RCSB], [https://www.ebi.ac.uk/pdbsum/7npk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7npk ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Chung, C]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Chung C]]

OCA at 09:29, 31 March 2021

OCA — Wed, 31 Mar 2021 09:29:27 GMT

←Older revision		Revision as of 09:29, 31 March 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7npk is ON HOLD	+	The entry 7npk is ON HOLD until Paper Publication

	Authors: Chung, C.		Authors: Chung, C.

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

OCA — Wed, 10 Mar 2021 15:01:39 GMT

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

←Older revision

Revision as of 15:01, 10 March 2021

OCA: New page: '''Unreleased structure''' The entry 7npk is ON HOLD Authors: Chung, C. Description: ALPHA-1 ANTITRYPSIN C232S COMPLEXED WITH CMPD3 Category: Unreleased Structures [[Category: Chun...

OCA — Wed, 10 Mar 2021 15:01:37 GMT

New page: '''Unreleased structure''' The entry 7npk is ON HOLD Authors: Chung, C. Description: ALPHA-1 ANTITRYPSIN C232S COMPLEXED WITH CMPD3 Category: Unreleased Structures [[Category: Chun...

New page

'''Unreleased structure'''

The entry 7npk is ON HOLD

Authors: Chung, C.

Description: ALPHA-1 ANTITRYPSIN C232S COMPLEXED WITH CMPD3
[[Category: Unreleased Structures]]
[[Category: Chung, C]]