4x4e - Revision history

OCA at 10:46, 10 January 2024

2024-01-10T10:46:56Z

← Older revision		Revision as of 10:46, 10 January 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4x4e]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterobacter_sp._RFL1396 Enterobacter sp. RFL1396] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X4E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4X4E FirstGlance]. <br>		<table><tr><td colspan='2'>[[4x4e]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterobacter_sp._RFL1396 Enterobacter sp. RFL1396] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X4E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4X4E FirstGlance]. <br>
	</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=4x4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x4e OCA], [https://pdbe.org/4x4e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4x4e RCSB], [https://www.ebi.ac.uk/pdbsum/4x4e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4x4e 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]] 2.8Å</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=4x4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x4e OCA], [https://pdbe.org/4x4e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4x4e RCSB], [https://www.ebi.ac.uk/pdbsum/4x4e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4x4e ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 21:11, 12 April 2023

2023-04-12T21:11:41Z

← Older revision		Revision as of 21:11, 12 April 2023
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	<StructureSection load='4x4e' size='340' side='right'caption='[[4x4e]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='4x4e' size='340' side='right'caption='[[4x4e]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4x4e]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X4E OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4X4E FirstGlance]. <br>		<table><tr><td colspan='2'>[[4x4e]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterobacter_sp._RFL1396 Enterobacter sp. RFL1396] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X4E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4X4E FirstGlance]. <br>
	</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=4x4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x4e OCA], [~~http~~://pdbe.org/4x4e PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4x4e RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4x4e PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4x4e ProSAT]</span></td></tr>		</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=4x4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x4e OCA], [https://pdbe.org/4x4e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4x4e RCSB], [https://www.ebi.ac.uk/pdbsum/4x4e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4x4e ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/Q8GGH0_9ENTR Q8GGH0_9ENTR]
	<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: Enterobacter sp. RFL1396]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Bury, C S~~]]		[[Category: Synthetic construct]]
	[[Category: ~~Garman, E F~~]]		[[Category: Bury CS]]
	[[Category: ~~McGeehan, J E~~]]		[[Category: Garman EF]]
	[[Category: ~~Gene regulation]]~~		[[Category: McGeehan JE]]
	~~[[Category: Protein-dna complex]]~~
	~~[[Category: Radiation damage~~]]

OCA at 06:49, 10 July 2019

2019-07-10T06:49:54Z

← Older revision		Revision as of 06:49, 10 July 2019
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	==RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLEX C.Esp1396I: DOSE (DWD) 14.4 MGy==		==RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLEX C.Esp1396I: DOSE (DWD) 14.4 MGy==
	<StructureSection load='4x4e' size='340' side='right' caption='[[4x4e]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='4x4e' size='340' side='right'caption='[[4x4e]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4x4e]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X4E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4X4E FirstGlance]. <br>		<table><tr><td colspan='2'>[[4x4e]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X4E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4X4E FirstGlance]. <br>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Bury, C S]]		[[Category: Bury, C S]]
	[[Category: Garman, E F]]		[[Category: Garman, E F]]

OCA at 00:07, 26 January 2017

2017-01-26T00:07:42Z

← Older revision		Revision as of 00:07, 26 January 2017
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	==RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLEX C.Esp1396I: DOSE (DWD) 14.4 MGy==		==RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLEX C.Esp1396I: DOSE (DWD) 14.4 MGy==
	<StructureSection load='4x4e' size='340' side='right' caption='[[4x4e]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='4x4e' size='340' side='right' caption='[[4x4e]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4x4e]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X4E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4X4E FirstGlance]. <br>		<table><tr><td colspan='2'>[[4x4e]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X4E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4X4E FirstGlance]. <br>
	</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=4x4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x4e OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4x4e RCSB], [http://www.ebi.ac.uk/pdbsum/4x4e PDBsum]</span></td></tr>		</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=4x4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x4e OCA], [http://pdbe.org/4x4e PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4x4e RCSB], [http://www.ebi.ac.uk/pdbsum/4x4e PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4x4e ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 4x4e" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:43, 11 March 2015

2015-03-11T11:43:58Z

← Older revision		Revision as of 11:43, 11 March 2015
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	'''~~Unreleased~~ structure'''		==RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLEX C.Esp1396I: DOSE (DWD) 14.4 MGy==
			<StructureSection load='4x4e' size='340' side='right' caption='[[4x4e]], [[Resolution\|resolution]] 2.80Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[4x4e]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4X4E OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4X4E FirstGlance]. <br>
			</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=4x4e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4x4e OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4x4e RCSB], [http://www.ebi.ac.uk/pdbsum/4x4e PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Significant progress has been made in macromolecular crystallography over recent years in both the understanding and mitigation of X-ray induced radiation damage when collecting diffraction data from crystalline proteins. In contrast, despite the large field that is productively engaged in the study of radiation chemistry of nucleic acids, particularly of DNA, there are currently very few X-ray crystallographic studies on radiation damage mechanisms in nucleic acids. Quantitative comparison of damage to protein and DNA crystals separately is challenging, but many of the issues are circumvented by studying pre-formed biological nucleoprotein complexes where direct comparison of each component can be made under the same controlled conditions. Here a model protein-DNA complex C.Esp1396I is employed to investigate specific damage mechanisms for protein and DNA in a biologically relevant complex over a large dose range (2.07-44.63 MGy). In order to allow a quantitative analysis of radiation damage sites from a complex series of macromolecular diffraction data, a computational method has been developed that is generally applicable to the field. Typical specific damage was observed for both the protein on particular amino acids and for the DNA on, for example, the cleavage of base-sugar N1-C and sugar-phosphate C-O bonds. Strikingly the DNA component was determined to be far more resistant to specific damage than the protein for the investigated dose range. At low doses the protein was observed to be susceptible to radiation damage while the DNA was far more resistant, damage only being observed at significantly higher doses.

	~~The entry 4x4e is ON HOLD until Paper Publication~~		Radiation damage to nucleoprotein complexes in macromolecular crystallography.,Bury C, Garman EF, Ginn HM, Ravelli RB, Carmichael I, Kneale G, McGeehan JE J Synchrotron Radiat. 2015 Mar;22(Pt 2):213-24. doi: 10.1107/S1600577514026289., Epub 2015 Jan 30. PMID:25723923<ref>PMID:25723923</ref>

	~~Authors: Bury~~, C.S.~~, McGeehan, J.E., Garman, E.F~~.		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~Description: RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLEX C.Esp1396I: DOSE (DWD) 14.4 MGy~~		== References ==
	[[Category: ~~Unreleased Structures~~]]		<references/>
	[[Category: Garman, E.F]]		__TOC__
	[[Category: ~~Bury~~, ~~C.S~~]]		</StructureSection>
	[[Category: ~~Mcgeehan, J.E~~]]		[[Category: Bury, C S]]
			[[Category: Garman, E F]]
			[[Category: McGeehan, J E]]
			[[Category: Gene regulation]]
			[[Category: Protein-dna complex]]
			[[Category: Radiation damage]]

OCA at 20:28, 24 December 2014

2014-12-24T20:28:12Z

← Older revision		Revision as of 20:28, 24 December 2014
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	Description: RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLEX C.Esp1396I: DOSE (DWD) 14.4 MGy		Description: RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLEX C.Esp1396I: DOSE (DWD) 14.4 MGy
			[[Category: Unreleased Structures]]
			[[Category: Garman, E.F]]
			[[Category: Bury, C.S]]
			[[Category: Mcgeehan, J.E]]

OCA: Protected "4x4e" [edit=sysop:move=sysop]

2014-12-10T14:21:54Z

Protected "4x4e" [edit=sysop:move=sysop]

← Older revision	Revision as of 14:21, 10 December 2014
(No difference)

OCA: New page: '''Unreleased structure''' The entry 4x4e is ON HOLD until Paper Publication Authors: Bury, C.S., McGeehan, J.E., Garman, E.F. Description: RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLE...

2014-12-10T14:21:53Z

New page: '''Unreleased structure''' The entry 4x4e is ON HOLD until Paper Publication Authors: Bury, C.S., McGeehan, J.E., Garman, E.F. Description: RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLE...

New page

'''Unreleased structure'''

The entry 4x4e is ON HOLD until Paper Publication

Authors: Bury, C.S., McGeehan, J.E., Garman, E.F.

Description: RADIATION DAMAGE TO THE NUCLEOPROTEIN COMPLEX C.Esp1396I: DOSE (DWD) 14.4 MGy