6vi2 - Revision history

OCA at 08:13, 11 October 2023

OCA — Wed, 11 Oct 2023 08:13:04 GMT

←Older revision		Revision as of 08:13, 11 October 2023
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-	====	+	==Structure of the unaligned Fab4==
-	<StructureSection load='6vi2' size='340' side='right'caption='[[6vi2]]' scene=''>	+	<StructureSection load='6vi2' size='340' side='right'caption='[[6vi2]], [[Resolution\|resolution]] 1.15Å' 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= OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6vi2]] is a 4 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=6VI2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6VI2 FirstGlance]. <br>
-	</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=6vi2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6vi2 OCA], [~~http~~://pdbe.org/6vi2 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6vi2 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6vi2 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6vi2 ProSAT]</span></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]] 1.15Å</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=6vi2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6vi2 OCA], [https://pdbe.org/6vi2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6vi2 RCSB], [https://www.ebi.ac.uk/pdbsum/6vi2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6vi2 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The genome-packaging motor of tailed bacteriophages and herpesviruses is a multisubunit protein complex formed by several copies of a large (TerL) and a small (TerS) terminase subunit. The motor assembles transiently at the portal protein vertex of an empty precursor capsid to power the energy-dependent packaging of viral DNA. Both the ATPase and nuclease activities associated with genome packaging reside in TerL. Structural studies of TerL from bacteriophage P22 have been hindered by the conformational flexibility of this enzyme and its susceptibility to proteolysis. Here, an unbiased, synthetic phage-display Fab library was screened and a panel of high-affinity Fabs against P22 TerL were identified. This led to the discovery of a recombinant antibody fragment, Fab4, that binds a 33-amino-acid alpha-helical hairpin at the N-terminus of TerL with an equilibrium dissociation constant Kd of 71.5 nM. A 1.51 A resolution crystal structure of Fab4 bound to the TerL epitope (TLE) together with a 1.15 A resolution crystal structure of the unliganded Fab4, which is the highest resolution ever achieved for a Fab, elucidate the principles governing the recognition of this novel helical epitope. TLE adopts two different conformations in the asymmetric unit and buries as much as 1250 A(2) of solvent-accessible surface in Fab4. TLE recognition is primarily mediated by conformational changes in the third complementarity-determining region of the Fab4 heavy chain (CDR H3) that take place upon epitope binding. It is demonstrated that TLE can be introduced genetically at the N-terminus of a target protein, where it retains high-affinity binding to Fab4.
		+
		+	Recognition of an alpha-helical hairpin in P22 large terminase by a synthetic antibody fragment.,Lokareddy RK, Ko YH, Hong N, Doll SG, Paduch M, Niederweis M, Kossiakoff AA, Cingolani G Acta Crystallogr D Struct Biol. 2020 Sep 1;76(Pt 9):876-888. doi:, 10.1107/S2059798320009912. Epub 2020 Aug 17. PMID:32876063<ref>PMID:32876063</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6vi2" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Cingolani G]]
		+	[[Category: Ko Y]]
		+	[[Category: Lokareddy R]]

OCA at 06:49, 2 September 2020

OCA — Wed, 02 Sep 2020 06:49:15 GMT

←Older revision		Revision as of 06:49, 2 September 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6vi2 ~~is ON HOLD until Jan 11 2022~~	+	====
-		+	<StructureSection load='6vi2' size='340' side='right'caption='[[6vi2]]' scene=''>
-	~~Authors~~: ~~Cingolani, G~~.~~, Lokareddy, R~~.~~, Ko, Y~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description: Structure of~~ the ~~unaligned Fab4~~	+	</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=6vi2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6vi2 OCA], [http://pdbe.org/6vi2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6vi2 RCSB], [http://www.ebi.ac.uk/pdbsum/6vi2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6vi2 ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Cingolani~~, G]]	+	__TOC__
-	[[Category: ~~Ko, Y~~]]	+	</StructureSection>
-	[[Category: ~~Lokareddy, R~~]]	+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 03:51, 13 May 2020

OCA — Wed, 13 May 2020 03:51:18 GMT

←Older revision		Revision as of 03:51, 13 May 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6vi2 is ON HOLD	+	The entry 6vi2 is ON HOLD until Jan 11 2022

	Authors: Cingolani, G., Lokareddy, R., Ko, Y.		Authors: Cingolani, G., Lokareddy, R., Ko, Y.
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	Description: Structure of the unaligned Fab4		Description: Structure of the unaligned Fab4
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Ko, Y]]
	[[Category: Cingolani, G]]		[[Category: Cingolani, G]]
		+	[[Category: Ko, Y]]
	[[Category: Lokareddy, R]]		[[Category: Lokareddy, R]]

OCA: Protected "6vi2" [edit=sysop:move=sysop]

OCA — Wed, 22 Jan 2020 14:30:26 GMT

Protected "6vi2" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:30, 22 January 2020

OCA: New page: '''Unreleased structure''' The entry 6vi2 is ON HOLD Authors: Cingolani, G., Lokareddy, R., Ko, Y. Description: Structure of the unaligned Fab4 Category: Unreleased Structures [[Ca...

OCA — Wed, 22 Jan 2020 14:30:25 GMT

New page: '''Unreleased structure''' The entry 6vi2 is ON HOLD Authors: Cingolani, G., Lokareddy, R., Ko, Y. Description: Structure of the unaligned Fab4 Category: Unreleased Structures [[Ca...

New page

'''Unreleased structure'''

The entry 6vi2 is ON HOLD

Authors: Cingolani, G., Lokareddy, R., Ko, Y.

Description: Structure of the unaligned Fab4
[[Category: Unreleased Structures]]
[[Category: Ko, Y]]
[[Category: Cingolani, G]]
[[Category: Lokareddy, R]]