3sny - Revision history

OCA at 17:26, 1 November 2023

OCA — Wed, 01 Nov 2023 17:26:16 GMT

←Older revision		Revision as of 17:26, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='3sny' size='340' side='right'caption='[[3sny]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='3sny' size='340' side='right'caption='[[3sny]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3sny]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Clob8 Clob8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SNY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SNY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3sny]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_beijerinckii_NCIMB_8052 Clostridium beijerinckii NCIMB 8052]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SNY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SNY FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 1.85Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[3i9h\|3i9h]], [[3iaj\|3iaj]], [[3snz\|3snz]], [[3so0\|3so0]], [[3so1\|3so1]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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">Cbei_2825 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=290402 CLOB8])~~</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=3sny FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sny OCA], [https://pdbe.org/3sny PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3sny RCSB], [https://www.ebi.ac.uk/pdbsum/3sny PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3sny 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=3sny FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sny OCA], [https://pdbe.org/3sny PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3sny RCSB], [https://www.ebi.ac.uk/pdbsum/3sny PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3sny ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A6LX94_CLOB8 A6LX94_CLOB8]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Clob8~~]]	+	[[Category: Clostridium beijerinckii NCIMB 8052]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Sankaranarayanan, R]]	+	[[Category: Sankaranarayanan R]]
-	[[Category: Srivastava~~, S S]]~~	+	[[Category: Srivastava SS]]
-	~~[[Category: Calcium-bound betagamma-crystallin]]~~	+
-	~~[[Category: Metal binding protein~~]]	+

OCA at 08:03, 29 June 2022

OCA — Wed, 29 Jun 2022 08:03:23 GMT

←Older revision		Revision as of 08:03, 29 June 2022
Line 1:		Line 1:

	==Crystal structure of a mutant T82R of a betagamma-crystallin domain from Clostridium beijerinckii==		==Crystal structure of a mutant T82R of a betagamma-crystallin domain from Clostridium beijerinckii==
-	<StructureSection load='3sny' size='340' side='right' caption='[[3sny]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='3sny' size='340' side='right'caption='[[3sny]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3sny]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Clob8 Clob8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SNY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3SNY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3sny]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Clob8 Clob8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SNY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SNY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3i9h\|3i9h]], [[3iaj\|3iaj]], [[3snz\|3snz]], [[3so0\|3so0]], [[3so1\|3so1]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3i9h\|3i9h]], [[3iaj\|3iaj]], [[3snz\|3snz]], [[3so0\|3so0]], [[3so1\|3so1]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cbei_2825 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=290402 CLOB8])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cbei_2825 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=290402 CLOB8])</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=3sny FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sny OCA], [~~http~~://pdbe.org/3sny PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3sny RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3sny PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3sny 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=3sny FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sny OCA], [https://pdbe.org/3sny PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3sny RCSB], [https://www.ebi.ac.uk/pdbsum/3sny PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3sny ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</StructureSection>		</StructureSection>
	[[Category: Clob8]]		[[Category: Clob8]]
		+	[[Category: Large Structures]]
	[[Category: Sankaranarayanan, R]]		[[Category: Sankaranarayanan, R]]
	[[Category: Srivastava, S S]]		[[Category: Srivastava, S S]]
	[[Category: Calcium-bound betagamma-crystallin]]		[[Category: Calcium-bound betagamma-crystallin]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

OCA at 10:59, 5 August 2016

OCA — Fri, 05 Aug 2016 10:59:13 GMT

←Older revision

Revision as of 10:59, 5 August 2016

OCA at 06:57, 21 December 2014

OCA — Sun, 21 Dec 2014 06:57:48 GMT

←Older revision		Revision as of 06:57, 21 December 2014
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-	~~{{STRUCTURE_3sny\| PDB=3sny \| SCENE= }}~~	+	==Crystal structure of a mutant T82R of a betagamma-crystallin domain from Clostridium beijerinckii==
-	===Crystal structure of a mutant T82R of a betagamma-crystallin domain from Clostridium beijerinckii===	+	<StructureSection load='3sny' size='340' side='right' caption='[[3sny]], [[Resolution\|resolution]] 1.85Å' scene=''>
-	~~{{ABSTRACT_PUBMED_22099475}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3sny]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_beijerinckii_ncimb_8052 Clostridium beijerinckii ncimb 8052]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SNY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3SNY FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3i9h\|3i9h]], [[3iaj\|3iaj]], [[3snz\|3snz]], [[3so0\|3so0]], [[3so1\|3so1]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Cbei_2825 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=290402 Clostridium beijerinckii NCIMB 8052])</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=3sny FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sny OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3sny RCSB], [http://www.ebi.ac.uk/pdbsum/3sny PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Numerous proteins belonging to the recently expanded betagamma-crystallin superfamily bind Ca(2+) at the double-clamp N/D-N/D-X(1)-X(2)-S/T-S motif. However, there have been no attempts to understand the intricacies involving Ca(2+) binding, such as the determinants of Ca(2+)-binding affinity and their contributions to gain in stability. This work is an in-depth analysis of understanding the modes and determinants of Ca(2+) binding to betagamma-crystallin motifs. We have performed extensive naturally occurring substitutions from related proteins on the betagamma-crystallin domains of flavollin, a low-affinity Ca(2+)-binding protein, and clostrillin, a moderate-affinity protein. We monitored the consequences of these modifications on Ca(2)(+) binding by isothermal titration calorimetry, thermal stability and conformational and crystal structure analyses. We demonstrate that Ca(2)(+) binding to the two sites of a betagamma-domain is interdependent and that the presence of Arg at the fifth position disables a site. A change from Thr to Ser, or vice versa, influences Ca(2+)-binding affinity, highlighting the basis of diversity found in these domains. A subtle change in the first site has a greater influence on Ca(2)(+) binding than a similar alteration in the second site. Thus, the second site is more variable in nature. Replacing an acidic or hydrophobic residue in a binding site alters the Ca(2+)-binding properties drastically. While it appears from their binding site sequence that these domains have evolved randomly, our examination illustrates the subtlety in the design of these modules. Decoding such design schemes would aid in our understanding of the functional themes underlying differential Ca(2)(+) binding and in predicting these in emerging sequence information.

-	~~==About this Structure==~~	+	Decoding the molecular design principles underlying Ca(2+) binding to betagamma-crystallin motifs.,Mishra A, Suman SK, Srivastava SS, Sankaranarayanan R, Sharma Y J Mol Biol. 2012 Jan 6;415(1):75-91. Epub 2011 Oct 31. PMID:22099475<ref>PMID:22099475</ref>
-	~~[[3sny]] is a~~ 1 ~~chain structure with sequence from [http~~:~~//en~~.~~wikipedia~~.~~org/wiki/Clostridium_beijerinckii_ncimb_8052 Clostridium beijerinckii ncimb 8052]. Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3SNY OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:022099475</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Clostridium beijerinckii ncimb 8052]]		[[Category: Clostridium beijerinckii ncimb 8052]]
-	[[Category: Sankaranarayanan, R.]]	+	[[Category: Sankaranarayanan, R]]
-	[[Category: Srivastava, S S.]]	+	[[Category: Srivastava, S S]]
	[[Category: Calcium-bound betagamma-crystallin]]		[[Category: Calcium-bound betagamma-crystallin]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

OCA at 05:03, 10 October 2013

OCA — Thu, 10 Oct 2013 05:03:26 GMT

←Older revision		Revision as of 05:03, 10 October 2013
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-	[[Image:3sny.jpg\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_3sny", creates the "Structure Box" on the page.
-	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.
-	-->
	{{STRUCTURE_3sny\| PDB=3sny \| SCENE= }}		{{STRUCTURE_3sny\| PDB=3sny \| SCENE= }}
-
	===Crystal structure of a mutant T82R of a betagamma-crystallin domain from Clostridium beijerinckii===		===Crystal structure of a mutant T82R of a betagamma-crystallin domain from Clostridium beijerinckii===
		+	{{ABSTRACT_PUBMED_22099475}}

		+	==About this Structure==
		+	[[3sny]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_beijerinckii_ncimb_8052 Clostridium beijerinckii ncimb 8052]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SNY OCA].

-	==~~About this Structure~~==	+	==Reference==
-	~~[[3sny]] is a 1 chain structure with sequence from [http~~://~~en.wikipedia.org~~/~~wiki/Clostridium_beijerinckii Clostridium beijerinckii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SNY OCA].~~	+	<ref group="xtra">PMID:022099475</ref><references group="xtra"/><references/>
-	[[Category: Clostridium beijerinckii]]	+	[[Category: Clostridium beijerinckii ncimb 8052]]
	[[Category: Sankaranarayanan, R.]]		[[Category: Sankaranarayanan, R.]]
	[[Category: Srivastava, S S.]]		[[Category: Srivastava, S S.]]
	[[Category: Calcium-bound betagamma-crystallin]]		[[Category: Calcium-bound betagamma-crystallin]]
	[[Category: Metal binding protein]]		[[Category: Metal binding protein]]

OCA at 12:29, 16 November 2011

OCA — Wed, 16 Nov 2011 12:29:01 GMT

←Older revision		Revision as of 12:29, 16 November 2011
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-	~~'''Unreleased structure'''~~	+	[[Image:3sny.jpg\|left\|200px]]

-	The ~~entry 3sny~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3sny", creates the "Structure Box" on the page.
		+	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.
		+	-->
		+	{{STRUCTURE_3sny\| PDB=3sny \| SCENE= }}

-	~~Authors: Srivastava, S.S., Sankaranarayanan, R.~~	+	===Crystal structure of a mutant T82R of a betagamma-crystallin domain from Clostridium beijerinckii===

-	~~Description: Crystal structure of~~ a ~~mutant T82R of a betagamma-crystallin domain~~ from Clostridium beijerinckii	+
		+	==About this Structure==
		+	[[3sny]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_beijerinckii Clostridium beijerinckii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SNY OCA].
		+	[[Category: Clostridium beijerinckii]]
		+	[[Category: Sankaranarayanan, R.]]
		+	[[Category: Srivastava, S S.]]
		+	[[Category: Calcium-bound betagamma-crystallin]]
		+	[[Category: Metal binding protein]]

OCA at 08:20, 3 August 2011

OCA — Wed, 03 Aug 2011 08:20:16 GMT

←Older revision		Revision as of 08:20, 3 August 2011
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3sny is ON HOLD	+	The entry 3sny is ON HOLD until Paper Publication

	Authors: Srivastava, S.S., Sankaranarayanan, R.		Authors: Srivastava, S.S., Sankaranarayanan, R.

-	Description: Crystal structure of a mutant~~(T81R)~~ of a betagamma-crystallin domain from Clostridium beijerinckii	+	Description: Crystal structure of a mutant T82R of a betagamma-crystallin domain from Clostridium beijerinckii

OCA at 06:13, 20 July 2011

OCA — Wed, 20 Jul 2011 06:13:18 GMT

←Older revision		Revision as of 06:13, 20 July 2011
Line 3:		Line 3:
	The entry 3sny is ON HOLD		The entry 3sny is ON HOLD

-	Authors: Srivastava, ~~Shanti Swaroop~~, Sankaranarayanan, ~~Rajan~~	+	Authors: Srivastava, S.S., Sankaranarayanan, R.

	Description: Crystal structure of a mutant(T81R) of a betagamma-crystallin domain from Clostridium beijerinckii		Description: Crystal structure of a mutant(T81R) of a betagamma-crystallin domain from Clostridium beijerinckii

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

OCA — Wed, 06 Jul 2011 18:30:22 GMT

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

←Older revision

Revision as of 18:30, 6 July 2011

OCA: New page: '''Unreleased structure''' The entry 3sny is ON HOLD Authors: Srivastava, Shanti Swaroop, Sankaranarayanan, Rajan Description: Crystal structure of a mutant(T81R) of a betagamma-crysta...

OCA — Wed, 06 Jul 2011 18:30:20 GMT

New page: '''Unreleased structure''' The entry 3sny is ON HOLD Authors: Srivastava, Shanti Swaroop, Sankaranarayanan, Rajan Description: Crystal structure of a mutant(T81R) of a betagamma-crysta...

New page

'''Unreleased structure'''

The entry 3sny is ON HOLD

Authors: Srivastava, Shanti Swaroop, Sankaranarayanan, Rajan

Description: Crystal structure of a mutant(T81R) of a betagamma-crystallin domain from Clostridium beijerinckii