5epq - Revision history

OCA at 08:14, 12 July 2023

OCA — Wed, 12 Jul 2023 08:14:36 GMT

←Older revision		Revision as of 08:14, 12 July 2023
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	<StructureSection load='5epq' size='340' side='right'caption='[[5epq]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='5epq' size='340' side='right'caption='[[5epq]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5epq]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Diploptera_punctata Diploptera punctata]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4nys 4nys]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EPQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5EPQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5epq]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Diploptera_punctata Diploptera punctata]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4nys 4nys]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EPQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5EPQ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OLA:OLEIC+ACID'>OLA</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]] 1.752Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4nyq\|4nyq]], [[4nyr\|4nyr]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OLA:OLEIC+ACID'>OLA</scene></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=5epq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5epq OCA], [~~http~~://pdbe.org/5epq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5epq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5epq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5epq 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=5epq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5epq OCA], [https://pdbe.org/5epq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5epq RCSB], [https://www.ebi.ac.uk/pdbsum/5epq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5epq ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q6SVB6_DIPPU Q6SVB6_DIPPU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	[[Category: Diploptera punctata]]		[[Category: Diploptera punctata]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Banerjee, S]]	+	[[Category: Banerjee S]]
-	[[Category: Chavas~~, L M.G~~]]	+	[[Category: Chavas LMG]]
-	[[Category: Ramaswamy, S]]	+	[[Category: Ramaswamy S]]
-	~~[[Category: Lipid binding protein]]~~	+
-	~~[[Category: Milk protein~~]]	+

OCA at 08:55, 1 January 2020

OCA — Wed, 01 Jan 2020 08:55:32 GMT

←Older revision		Revision as of 08:55, 1 January 2020
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	==Structure at 1.75 A resolution of a glycosylated, lipid-binding, lipocalin-like protein==		==Structure at 1.75 A resolution of a glycosylated, lipid-binding, lipocalin-like protein==
-	<StructureSection load='5epq' size='340' side='right' caption='[[5epq]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='5epq' size='340' side='right'caption='[[5epq]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5epq]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Diploptera_punctata Diploptera punctata]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4nys 4nys]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EPQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EPQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[5epq]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Diploptera_punctata Diploptera punctata]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4nys 4nys]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EPQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EPQ FirstGlance]. <br>
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	<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=5epq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5epq OCA], [http://pdbe.org/5epq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5epq RCSB], [http://www.ebi.ac.uk/pdbsum/5epq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5epq 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=5epq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5epq OCA], [http://pdbe.org/5epq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5epq RCSB], [http://www.ebi.ac.uk/pdbsum/5epq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5epq ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Macromolecular crystals for X-ray diffraction studies are typically grown in vitro from pure and homogeneous samples; however, there are examples of protein crystals that have been identified in vivo. Recent developments in micro-crystallography techniques and the advent of X-ray free-electron lasers have allowed the determination of several protein structures from crystals grown in cellulo. Here, an atomic resolution (1.2 A) crystal structure is reported of heterogeneous milk proteins grown inside a living organism in their functional niche. These in vivo-grown crystals were isolated from the midgut of an embryo within the only known viviparous cockroach, Diploptera punctata. The milk proteins crystallized in space group P1, and a structure was determined by anomalous dispersion from the native S atoms. The data revealed glycosylated proteins that adopt a lipocalin fold, bind lipids and organize to form a tightly packed crystalline lattice. A single crystal is estimated to contain more than three times the energy of an equivalent mass of dairy milk. This unique storage form of nourishment for developing embryos allows access to a constant supply of complete nutrients. Notably, the crystalline cockroach-milk proteins are highly heterogeneous with respect to amino-acid sequence, glycosylation and bound fatty-acid composition. These data present a unique example of protein heterogeneity within a single in vivo-grown crystal of a natural protein in its native environment at atomic resolution.
		+
		+	Structure of a heterogeneous, glycosylated, lipid-bound, in vivo-grown protein crystal at atomic resolution from the viviparous cockroach Diploptera punctata.,Banerjee S, Coussens NP, Gallat FX, Sathyanarayanan N, Srikanth J, Yagi KJ, Gray JS, Tobe SS, Stay B, Chavas LM, Ramaswamy S IUCrJ. 2016 Jun 27;3(Pt 4):282-93. doi: 10.1107/S2052252516008903. eCollection, 2016 Jul 1. PMID:27437115<ref>PMID:27437115</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5epq" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Art:Crystallography from the guts of a cockroach\|Art:Crystallography from the guts of a cockroach]]		*[[Art:Crystallography from the guts of a cockroach\|Art:Crystallography from the guts of a cockroach]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Diploptera punctata]]		[[Category: Diploptera punctata]]
		+	[[Category: Large Structures]]
	[[Category: Banerjee, S]]		[[Category: Banerjee, S]]
	[[Category: Chavas, L M.G]]		[[Category: Chavas, L M.G]]

OCA at 07:39, 28 February 2018

OCA — Wed, 28 Feb 2018 07:39:23 GMT

←Older revision		Revision as of 07:39, 28 February 2018
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	<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=5epq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5epq OCA], [http://pdbe.org/5epq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5epq RCSB], [http://www.ebi.ac.uk/pdbsum/5epq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5epq 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=5epq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5epq OCA], [http://pdbe.org/5epq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5epq RCSB], [http://www.ebi.ac.uk/pdbsum/5epq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5epq ProSAT]</span></td></tr>
	</table>		</table>
		+
		+	==See Also==
		+	*[[Art:Crystallography from the guts of a cockroach\|Art:Crystallography from the guts of a cockroach]]
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:32, 26 July 2016

OCA — Tue, 26 Jul 2016 06:32:37 GMT

←Older revision		Revision as of 06:32, 26 July 2016
Line 1:		Line 1:
		+
	==Structure at 1.75 A resolution of a glycosylated, lipid-binding, lipocalin-like protein==		==Structure at 1.75 A resolution of a glycosylated, lipid-binding, lipocalin-like protein==
	<StructureSection load='5epq' size='340' side='right' caption='[[5epq]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='5epq' size='340' side='right' caption='[[5epq]], [[Resolution\|resolution]] 1.75Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OLA:OLEIC+ACID'>OLA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OLA:OLEIC+ACID'>OLA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4nyq\|4nyq]], [[4nyr\|4nyr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4nyq\|4nyq]], [[4nyr\|4nyr]]</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=5epq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5epq OCA], [http://pdbe.org/5epq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5epq RCSB], [http://www.ebi.ac.uk/pdbsum/5epq 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=5epq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5epq OCA], [http://pdbe.org/5epq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5epq RCSB], [http://www.ebi.ac.uk/pdbsum/5epq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5epq ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 16:08, 2 December 2015

OCA — Wed, 02 Dec 2015 16:08:28 GMT

←Older revision		Revision as of 16:08, 2 December 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Structure at 1.75 A resolution of a glycosylated, lipid-binding, lipocalin-like protein==
-		+	<StructureSection load='5epq' size='340' side='right' caption='[[5epq]], [[Resolution\|resolution]] 1.75Å' scene=''>
-	~~The entry~~ 5epq is ~~ON HOLD~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5epq]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Diploptera_punctata Diploptera punctata]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4nys 4nys]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EPQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EPQ FirstGlance]. <br>
-	~~Authors~~: ~~Banerjee, S~~.~~, Chavas, L~~.M.G.~~, Ramaswamy, S~~.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=OLA:OLEIC+ACID'>OLA</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4nyq\|4nyq]], [[4nyr\|4nyr]]</td></tr>
-	~~Description: Structure at~~ 1.~~75 A resolution of~~ a ~~glycosylated~~, ~~lipid~~-~~binding~~, ~~lipocalin~~-~~like protein~~	+	<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=5epq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5epq OCA], [http://pdbe.org/5epq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5epq RCSB], [http://www.ebi.ac.uk/pdbsum/5epq PDBsum]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Ramaswamy~~, S]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Diploptera punctata]]
	[[Category: Banerjee, S]]		[[Category: Banerjee, S]]
-	[[Category: Chavas, L.M.G]]	+	[[Category: Chavas, L M.G]]
		+	[[Category: Ramaswamy, S]]
		+	[[Category: Lipid binding protein]]
		+	[[Category: Milk protein]]

OCA: Protected "5epq" [edit=sysop:move=sysop]

OCA — Tue, 01 Dec 2015 03:11:55 GMT

Protected "5epq" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:11, 1 December 2015

OCA: New page: '''Unreleased structure''' The entry 5epq is ON HOLD Authors: Banerjee, S., Chavas, L.M.G., Ramaswamy, S. Description: Structure at 1.75 A resolution of a glycosylated, lipid-binding, ...

OCA — Tue, 01 Dec 2015 03:11:54 GMT

New page: '''Unreleased structure''' The entry 5epq is ON HOLD Authors: Banerjee, S., Chavas, L.M.G., Ramaswamy, S. Description: Structure at 1.75 A resolution of a glycosylated, lipid-binding, ...

New page

'''Unreleased structure'''

The entry 5epq is ON HOLD

Authors: Banerjee, S., Chavas, L.M.G., Ramaswamy, S.

Description: Structure at 1.75 A resolution of a glycosylated, lipid-binding, lipocalin-like protein
[[Category: Unreleased Structures]]
[[Category: Ramaswamy, S]]
[[Category: Banerjee, S]]
[[Category: Chavas, L.M.G]]