4qkx - Revision history

OCA at 11:33, 15 February 2023

OCA — Wed, 15 Feb 2023 11:33:59 GMT

←Older revision		Revision as of 11:33, 15 February 2023
Line 3:		Line 3:
	<StructureSection load='4qkx' size='340' side='right'caption='[[4qkx]], [[Resolution\|resolution]] 3.30Å' scene=''>		<StructureSection load='4qkx' size='340' side='right'caption='[[4qkx]], [[Resolution\|resolution]] 3.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4qkx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4QKX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4QKX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4qkx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4], [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Lama_glama Lama glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4QKX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4QKX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=35V:4-[(1R)-1-HYDROXY-2-({2-[3-METHOXY-4-(2-SULFANYLETHOXY)PHENYL]ETHYL}AMINO)ETHYL]BENZENE-1,2-DIOL'>35V</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=35V:4-[(1R)-1-HYDROXY-2-({2-[3-METHOXY-4-(2-SULFANYLETHOXY)PHENYL]ETHYL}AMINO)ETHYL]BENZENE-1,2-DIOL'>35V</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=4qkx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4qkx OCA], [https://pdbe.org/4qkx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4qkx RCSB], [https://www.ebi.ac.uk/pdbsum/4qkx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4qkx ProSAT]</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=4qkx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4qkx OCA], [~~http~~://pdbe.org/4qkx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4qkx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4qkx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4qkx ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/ADRB2_HUMAN ADRB2_HUMAN] Beta-adrenergic receptors mediate the catecholamine-induced activation of adenylate cyclase through the action of G proteins. The beta-2-adrenergic receptor binds epinephrine with an approximately 30-fold greater affinity than it does norepinephrine.[https://www.uniprot.org/uniprot/ENLYS_BPT4 ENLYS_BPT4] Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.<ref>PMID:22389108</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Escherichia virus T4]]
		+	[[Category: Homo sapiens]]
		+	[[Category: Lama glama]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Lysozyme]]~~	+	[[Category: Gmeiner P]]
-	[[Category: Gmeiner, P]]	+	[[Category: Hiller C]]
-	[[Category: Hiller, C]]	+	[[Category: Huebner H]]
-	[[Category: Huebner, H]]	+	[[Category: Kobilka BK]]
-	[[Category: Kobilka~~, B K~~]]	+	[[Category: Kruse AC]]
-	[[Category: Kruse~~, A C~~]]	+	[[Category: Manglik A]]
-	[[Category: Manglik, A]]	+	[[Category: Weichert D]]
-	[[Category: Weichert, D]]	+	[[Category: Zhang C]]
-	[[Category: Zhang, C]]	+
-	~~[[Category: 7-transmembrane helice]]~~	+
-	~~[[Category: G protein]]~~	+
-	~~[[Category: Membrane]]~~	+
-	~~[[Category: Membrane protein-immune system complex]]~~	+
-	~~[[Category: Signal transduction~~]]	+

OCA at 18:14, 14 August 2019

OCA — Wed, 14 Aug 2019 18:14:09 GMT

←Older revision		Revision as of 18:14, 14 August 2019
Line 1:		Line 1:

	==Structure of beta2 adrenoceptor bound to a covalent agonist and an engineered nanobody==		==Structure of beta2 adrenoceptor bound to a covalent agonist and an engineered nanobody==
-	<StructureSection load='4qkx' size='340' side='right' caption='[[4qkx]], [[Resolution\|resolution]] 3.30Å' scene=''>	+	<StructureSection load='4qkx' size='340' side='right'caption='[[4qkx]], [[Resolution\|resolution]] 3.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4qkx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4QKX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4QKX FirstGlance]. <br>		<table><tr><td colspan='2'>[[4qkx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4QKX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4QKX FirstGlance]. <br>
Line 17:		Line 17:
	</div>		</div>
	<div class="pdbe-citations 4qkx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4qkx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Adrenergic receptor 3D structures\|Adrenergic receptor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
	[[Category: Gmeiner, P]]		[[Category: Gmeiner, P]]

OCA at 12:36, 6 November 2017

OCA — Mon, 06 Nov 2017 12:36:59 GMT

←Older revision		Revision as of 12:36, 6 November 2017
Line 17:		Line 17:
	</div>		</div>
	<div class="pdbe-citations 4qkx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4qkx" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Adrenergic receptor\|Adrenergic receptor]]
-	*[[Beta-2 adrenergic receptor\|Beta-2 adrenergic receptor]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 21:17, 11 August 2016

OCA — Thu, 11 Aug 2016 21:17:03 GMT

←Older revision		Revision as of 21:17, 11 August 2016
Line 1:		Line 1:
		+
	==Structure of beta2 adrenoceptor bound to a covalent agonist and an engineered nanobody==		==Structure of beta2 adrenoceptor bound to a covalent agonist and an engineered nanobody==
	<StructureSection load='4qkx' size='340' side='right' caption='[[4qkx]], [[Resolution\|resolution]] 3.30Å' scene=''>		<StructureSection load='4qkx' size='340' side='right' caption='[[4qkx]], [[Resolution\|resolution]] 3.30Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=35V:4-[(1R)-1-HYDROXY-2-({2-[3-METHOXY-4-(2-SULFANYLETHOXY)PHENYL]ETHYL}AMINO)ETHYL]BENZENE-1,2-DIOL'>35V</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=35V:4-[(1R)-1-HYDROXY-2-({2-[3-METHOXY-4-(2-SULFANYLETHOXY)PHENYL]ETHYL}AMINO)ETHYL]BENZENE-1,2-DIOL'>35V</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=4qkx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4qkx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4qkx RCSB], [http://www.ebi.ac.uk/pdbsum/4qkx 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=4qkx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4qkx OCA], [http://pdbe.org/4qkx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4qkx RCSB], [http://www.ebi.ac.uk/pdbsum/4qkx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4qkx ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	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 4qkx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Adrenergic receptor\|Adrenergic receptor]]
		+	*[[Beta-2 adrenergic receptor\|Beta-2 adrenergic receptor]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 14:57, 5 January 2015

OCA — Mon, 05 Jan 2015 14:57:15 GMT

←Older revision		Revision as of 14:57, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4qkx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4QKX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4QKX FirstGlance]. <br>		<table><tr><td colspan='2'>[[4qkx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4QKX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4QKX FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=35V:4-[(1R)-1-HYDROXY-2-({2-[3-METHOXY-4-(2-SULFANYLETHOXY)PHENYL]ETHYL}AMINO)ETHYL]BENZENE-1,2-DIOL'>35V</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=35V:4-[(1R)-1-HYDROXY-2-({2-[3-METHOXY-4-(2-SULFANYLETHOXY)PHENYL]ETHYL}AMINO)ETHYL]BENZENE-1,2-DIOL'>35V</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></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=4qkx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4qkx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4qkx RCSB], [http://www.ebi.ac.uk/pdbsum/4qkx 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=4qkx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4qkx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4qkx RCSB], [http://www.ebi.ac.uk/pdbsum/4qkx PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 20:
	</StructureSection>		</StructureSection>
	[[Category: Lysozyme]]		[[Category: Lysozyme]]
-	[[Category: Gmeiner, P.]]	+	[[Category: Gmeiner, P]]
-	[[Category: Hiller, C.]]	+	[[Category: Hiller, C]]
-	[[Category: Huebner, H.]]	+	[[Category: Huebner, H]]
-	[[Category: Kobilka, B K.]]	+	[[Category: Kobilka, B K]]
-	[[Category: Kruse, A C.]]	+	[[Category: Kruse, A C]]
-	[[Category: Manglik, A.]]	+	[[Category: Manglik, A]]
-	[[Category: Weichert, D.]]	+	[[Category: Weichert, D]]
-	[[Category: Zhang, C.]]	+	[[Category: Zhang, C]]
	[[Category: 7-transmembrane helice]]		[[Category: 7-transmembrane helice]]
	[[Category: G protein]]		[[Category: G protein]]

OCA at 07:56, 23 July 2014

OCA — Wed, 23 Jul 2014 07:56:12 GMT

←Older revision		Revision as of 07:56, 23 July 2014
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Structure of beta2 adrenoceptor bound to a covalent agonist and an engineered nanobody==
		+	<StructureSection load='4qkx' size='340' side='right' caption='[[4qkx]], [[Resolution\|resolution]] 3.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4qkx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4QKX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4QKX FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=35V:4-[(1R)-1-HYDROXY-2-({2-[3-METHOXY-4-(2-SULFANYLETHOXY)PHENYL]ETHYL}AMINO)ETHYL]BENZENE-1,2-DIOL'>35V</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span></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=4qkx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4qkx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4qkx RCSB], [http://www.ebi.ac.uk/pdbsum/4qkx PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Structural studies on G protein-coupled receptors (GPCRs) provide important insights into the architecture and function of these important drug targets. However, the crystallization of GPCRs in active states is particularly challenging, requiring the formation of stable and conformationally homogeneous ligand-receptor complexes. Native hormones, neurotransmitters, and synthetic agonists that bind with low affinity are ineffective at stabilizing an active state for crystallogenesis. To promote structural studies on the pharmacologically highly relevant class of aminergic GPCRs, we here present the development of covalently binding molecular tools activating Gs-, Gi-, and Gq-coupled receptors. The covalent agonists are derived from the monoamine neurotransmitters noradrenaline, dopamine, serotonin, and histamine, and they were accessed using a general and versatile synthetic strategy. We demonstrate that the tool compounds presented herein display an efficient covalent binding mode and that the respective covalent ligand-receptor complexes activate G proteins comparable to the natural neurotransmitters. A crystal structure of the beta2-adrenoreceptor in complex with a covalent noradrenaline analog and a conformationally selective antibody (nanobody) verified that these agonists can be used to facilitate crystallogenesis.

-	~~The entry 4qkx is ON HOLD~~	+	Covalent agonists for studying G protein-coupled receptor activation.,Weichert D, Kruse AC, Manglik A, Hiller C, Zhang C, Hubner H, Kobilka BK, Gmeiner P Proc Natl Acad Sci U S A. 2014 Jul 8. pii: 201410415. PMID:25006259<ref>PMID:25006259</ref>

-	~~Authors: Weichert~~, D.~~, Kruse, A~~.C., ~~Manglik, A~~., Hiller, C.~~, Zhang, C.,~~ Huebner, H., Kobilka, B.K., ~~Gmeiner~~, P.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Structure of beta2 adrenoceptor bound to a covalent agonist and an engineered nanobody~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Lysozyme]]
		+	[[Category: Gmeiner, P.]]
		+	[[Category: Hiller, C.]]
		+	[[Category: Huebner, H.]]
		+	[[Category: Kobilka, B K.]]
		+	[[Category: Kruse, A C.]]
		+	[[Category: Manglik, A.]]
		+	[[Category: Weichert, D.]]
		+	[[Category: Zhang, C.]]
		+	[[Category: 7-transmembrane helice]]
		+	[[Category: G protein]]
		+	[[Category: Membrane]]
		+	[[Category: Membrane protein-immune system complex]]
		+	[[Category: Signal transduction]]

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

OCA — Wed, 18 Jun 2014 06:39:07 GMT

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

←Older revision

Revision as of 06:39, 18 June 2014

OCA: New page: '''Unreleased structure''' The entry 4qkx is ON HOLD Authors: Weichert, D., Kruse, A.C., Manglik, A., Hiller, C., Zhang, C., Huebner, H., Kobilka, B.K., Gmeiner, P. Description: Struct...

OCA — Wed, 18 Jun 2014 06:39:06 GMT

New page: '''Unreleased structure''' The entry 4qkx is ON HOLD Authors: Weichert, D., Kruse, A.C., Manglik, A., Hiller, C., Zhang, C., Huebner, H., Kobilka, B.K., Gmeiner, P. Description: Struct...

New page

'''Unreleased structure'''

The entry 4qkx is ON HOLD

Authors: Weichert, D., Kruse, A.C., Manglik, A., Hiller, C., Zhang, C., Huebner, H., Kobilka, B.K., Gmeiner, P.

Description: Structure of beta2 adrenoceptor bound to a covalent agonist and an engineered nanobody