5nm0 - Revision history

OCA at 13:06, 15 November 2023

OCA — Wed, 15 Nov 2023 13:06:26 GMT

←Older revision		Revision as of 13:06, 15 November 2023
Line 3:		Line 3:
	<StructureSection load='5nm0' size='340' side='right'caption='[[5nm0]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='5nm0' size='340' side='right'caption='[[5nm0]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5nm0]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Camelus_glama Camelus~~ glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NM0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5NM0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5nm0]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Lama_glama Lama glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NM0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NM0 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</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]] 1.5Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5nlu\|5nlu]], [[5nlw\|5nlw]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5nm0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nm0 OCA], [~~http~~://pdbe.org/5nm0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5nm0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5nm0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5nm0 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=5nm0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nm0 OCA], [https://pdbe.org/5nm0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5nm0 RCSB], [https://www.ebi.ac.uk/pdbsum/5nm0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5nm0 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Camelus~~ glama]]	+	[[Category: Lama glama]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Andersen~~, G R~~]]	+	[[Category: Andersen GR]]
-	[[Category: Andersen~~, K R~~]]	+	[[Category: Andersen KR]]
-	[[Category: Hansen~~, S B~~]]	+	[[Category: Hansen SB]]
-	[[Category: Laursen~~, N S]]~~	+	[[Category: Laursen NS]]
-	~~[[Category: Ig domain llama single domain antibody nanobody hg derivative]]~~	+
-	~~[[Category: Immune system~~]]	+

OCA at 12:07, 26 August 2020

OCA — Wed, 26 Aug 2020 12:07:58 GMT

←Older revision		Revision as of 12:07, 26 August 2020
Line 1:		Line 1:

	==Nb36 Ser85Cys with Hg, crystal form 1==		==Nb36 Ser85Cys with Hg, crystal form 1==
-	<StructureSection load='5nm0' size='340' side='right' caption='[[5nm0]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='5nm0' size='340' side='right'caption='[[5nm0]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5nm0]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Camelus_glama Camelus glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NM0 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5NM0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5nm0]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Camelus_glama Camelus glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NM0 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5NM0 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5nlu\|5nlu]], [[5nlw\|5nlw]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5nlu\|5nlu]], [[5nlw\|5nlw]]</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=5nm0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nm0 OCA], [http://pdbe.org/5nm0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nm0 RCSB], [http://www.ebi.ac.uk/pdbsum/5nm0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nm0 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5nm0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nm0 OCA], [http://pdbe.org/5nm0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nm0 RCSB], [http://www.ebi.ac.uk/pdbsum/5nm0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nm0 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Camelus glama]]		[[Category: Camelus glama]]
		+	[[Category: Large Structures]]
	[[Category: Andersen, G R]]		[[Category: Andersen, G R]]
	[[Category: Andersen, K R]]		[[Category: Andersen, K R]]

OCA at 06:15, 1 November 2017

OCA — Wed, 01 Nov 2017 06:15:25 GMT

←Older revision		Revision as of 06:15, 1 November 2017
Line 3:		Line 3:
	<StructureSection load='5nm0' size='340' side='right' caption='[[5nm0]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='5nm0' size='340' side='right' caption='[[5nm0]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5nm0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NM0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NM0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5nm0]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Camelus_glama Camelus glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NM0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NM0 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5nlu\|5nlu]], [[5nlw\|5nlw]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5nlu\|5nlu]], [[5nlw\|5nlw]]</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=5nm0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nm0 OCA], [http://pdbe.org/5nm0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nm0 RCSB], [http://www.ebi.ac.uk/pdbsum/5nm0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nm0 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=5nm0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nm0 OCA], [http://pdbe.org/5nm0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nm0 RCSB], [http://www.ebi.ac.uk/pdbsum/5nm0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nm0 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The generation of high-quality protein crystals and the loss of phase information during an X-ray crystallography diffraction experiment represent the major bottlenecks in the determination of novel protein structures. A generic method for introducing Hg atoms into any crystal independent of the presence of free cysteines in the target protein could considerably facilitate the process of obtaining unbiased experimental phases. Nanobodies (single-domain antibodies) have recently been shown to promote the crystallization and structure determination of flexible proteins and complexes. To extend the usability of nanobodies for crystallographic work, variants of the Nb36 nanobody with a single free cysteine at one of four framework-residue positions were developed. These cysteines could be labelled with fluorophores or Hg. For one cysteine variant (Nb36-C85) two nanobody structures were experimentally phased using single-wavelength anomalous dispersion (SAD) and single isomorphous replacement with anomalous signal (SIRAS), taking advantage of radiation-induced changes in Cys-Hg bonding. Importantly, Hg labelling influenced neither the interaction of Nb36 with its antigen complement C5 nor its structure. The results suggest that Cys-Hg-labelled nanobodies may become efficient tools for obtaining de novo phase information during the structure determination of nanobody-protein complexes.
		+
		+	Introducing site-specific cysteines into nanobodies for mercury labelling allows de novo phasing of their crystal structures.,Hansen SB, Laursen NS, Andersen GR, Andersen KR Acta Crystallogr D Struct Biol. 2017 Oct 1;73(Pt 10):804-813. doi:, 10.1107/S2059798317013171. Epub 2017 Sep 27. PMID:28994409<ref>PMID:28994409</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5nm0" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Camelus glama]]
	[[Category: Andersen, G R]]		[[Category: Andersen, G R]]
	[[Category: Andersen, K R]]		[[Category: Andersen, K R]]

OCA at 16:13, 12 October 2017

OCA — Thu, 12 Oct 2017 16:13:46 GMT

←Older revision		Revision as of 16:13, 12 October 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5nm0 is ~~ON HOLD~~	+	==Nb36 Ser85Cys with Hg, crystal form 1==
-		+	<StructureSection load='5nm0' size='340' side='right' caption='[[5nm0]], [[Resolution\|resolution]] 1.50Å' scene=''>
-	~~Authors~~: ~~Hansen~~, S.B, ~~Andersen, K~~.R., ~~Laursen~~, N.S., ~~Andersen~~, G.R.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5nm0]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NM0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NM0 FirstGlance]. <br>
-	~~Description: Nb36 Ser85Cys with Hg, crystal form 1~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5nlu\|5nlu]], [[5nlw\|5nlw]]</td></tr>
-	[[Category: Andersen, G.R]]	+	<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=5nm0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nm0 OCA], [http://pdbe.org/5nm0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nm0 RCSB], [http://www.ebi.ac.uk/pdbsum/5nm0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nm0 ProSAT]</span></td></tr>
-	[[Category: Hansen, S.B~~, Andersen, K.R~~]]	+	</table>
-	[[Category: Laursen, N.S]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Andersen, G R]]
		+	[[Category: Andersen, K R]]
		+	[[Category: Hansen, S B]]
		+	[[Category: Laursen, N S]]
		+	[[Category: Ig domain llama single domain antibody nanobody hg derivative]]
		+	[[Category: Immune system]]

OCA: Protected "5nm0" [edit=sysop:move=sysop]

OCA — Wed, 12 Apr 2017 08:10:23 GMT

Protected "5nm0" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:10, 12 April 2017

OCA: New page: '''Unreleased structure''' The entry 5nm0 is ON HOLD Authors: Hansen, S.B, Andersen, K.R., Laursen, N.S., Andersen, G.R. Description: Nb36 Ser85Cys with Hg, crystal form 1 [[Category: ...

OCA — Wed, 12 Apr 2017 08:10:22 GMT

New page: '''Unreleased structure''' The entry 5nm0 is ON HOLD Authors: Hansen, S.B, Andersen, K.R., Laursen, N.S., Andersen, G.R. Description: Nb36 Ser85Cys with Hg, crystal form 1 [[Category: ...

New page

'''Unreleased structure'''

The entry 5nm0 is ON HOLD

Authors: Hansen, S.B, Andersen, K.R., Laursen, N.S., Andersen, G.R.

Description: Nb36 Ser85Cys with Hg, crystal form 1
[[Category: Unreleased Structures]]
[[Category: Andersen, G.R]]
[[Category: Hansen, S.B, Andersen, K.R]]
[[Category: Laursen, N.S]]