4e10 - Revision history

OCA at 08:18, 9 October 2024

2024-10-09T08:18:57Z

← Older revision		Revision as of 08:18, 9 October 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4e10]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._C58 Agrobacterium fabrum str. C58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E10 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E10 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4e10]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._C58 Agrobacterium fabrum str. C58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E10 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E10 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=PTR:O-PHOSPHOTYROSINE'>PTR</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]] 2.506Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=PTR:O-PHOSPHOTYROSINE'>PTR</scene></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=4e10 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e10 OCA], [https://pdbe.org/4e10 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e10 RCSB], [https://www.ebi.ac.uk/pdbsum/4e10 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e10 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=4e10 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e10 OCA], [https://pdbe.org/4e10 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e10 RCSB], [https://www.ebi.ac.uk/pdbsum/4e10 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e10 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/Q7CWV1_AGRFC Q7CWV1_AGRFC]]		[https://www.uniprot.org/uniprot/Q7CWV1_AGRFC Q7CWV1_AGRFC]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 06:43, 28 September 2022

2022-09-28T06:43:49Z

← Older revision		Revision as of 06:43, 28 September 2022
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	==Protelomerase tela Y201A covalently complexed with substrate DNA==		==Protelomerase tela Y201A covalently complexed with substrate DNA==
	<StructureSection load='4e10' size='340' side='right' caption='[[4e10]], [[Resolution\|resolution]] 2.51Å' scene=''>		<StructureSection load='4e10' size='340' side='right'caption='[[4e10]], [[Resolution\|resolution]] 2.51Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4e10]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Agrt5 Agrt5~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E10 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4E10 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4e10]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._C58 Agrobacterium fabrum str. C58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E10 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4E10 FirstGlance]. <br>
	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=PTR:O-PHOSPHOTYROSINE'>PTR</scene>~~</td></tr>~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=PTR:O-PHOSPHOTYROSINE'>PTR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dwp\|4dwp]], [[4e0g\|4e0g]], [[4e0j\|4e0j]], [[4e0p\|4e0p]], [[4e0y\|4e0y]], [[4e0z\|4e0z]]</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=4e10 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e10 OCA], [https://pdbe.org/4e10 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4e10 RCSB], [https://www.ebi.ac.uk/pdbsum/4e10 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4e10 ProSAT]</span></td></tr>
	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">telA, Atu2523 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=176299 AGRT5])~~</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=4e10 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e10 OCA], [~~http~~://pdbe.org/4e10 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4e10 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4e10 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4e10 ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[[https://www.uniprot.org/uniprot/Q7CWV1_AGRFC Q7CWV1_AGRFC]]
	<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: ~~Agrt5~~]]		[[Category: Agrobacterium fabrum str. C58]]
	[[Category: ~~Aihara, H~~]]		[[Category: Large Structures]]
	[[Category: ~~Shi, K~~]]		[[Category: Aihara H]]
	[[Category: ~~Dna binding protein-dna complex]]~~		[[Category: Shi K]]
	~~[[Category: Protelemorase~~]]

OCA at 20:06, 15 December 2016

2016-12-15T20:06:11Z

← Older revision		Revision as of 20:06, 15 December 2016
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	==Protelomerase tela Y201A covalently complexed with substrate DNA==		==Protelomerase tela Y201A covalently complexed with substrate DNA==
	<StructureSection load='4e10' size='340' side='right' caption='[[4e10]], [[Resolution\|resolution]] 2.51Å' scene=''>		<StructureSection load='4e10' size='340' side='right' caption='[[4e10]], [[Resolution\|resolution]] 2.51Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4e10]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Agrobacterium_fabrum_str._c58 Agrobacterium fabrum str. c58~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E10 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E10 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4e10]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrt5 Agrt5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E10 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E10 FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=PTR:O-PHOSPHOTYROSINE'>PTR</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=PTR:O-PHOSPHOTYROSINE'>PTR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dwp\|4dwp]], [[4e0g\|4e0g]], [[4e0j\|4e0j]], [[4e0p\|4e0p]], [[4e0y\|4e0y]], [[4e0z\|4e0z]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dwp\|4dwp]], [[4e0g\|4e0g]], [[4e0j\|4e0j]], [[4e0p\|4e0p]], [[4e0y\|4e0y]], [[4e0z\|4e0z]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">telA, Atu2523 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=176299 ~~Agrobacterium fabrum str. C58~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">telA, Atu2523 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=176299 AGRT5])</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=4e10 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e10 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4e10 RCSB], [http://www.ebi.ac.uk/pdbsum/4e10 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=4e10 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e10 OCA], [http://pdbe.org/4e10 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4e10 RCSB], [http://www.ebi.ac.uk/pdbsum/4e10 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4e10 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 4e10" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Agrobacterium fabrum str. c58~~]]		[[Category: Agrt5]]
	[[Category: Aihara, H]]		[[Category: Aihara, H]]
	[[Category: Shi, K]]		[[Category: Shi, K]]
	[[Category: Dna binding protein-dna complex]]		[[Category: Dna binding protein-dna complex]]
	[[Category: Protelemorase]]		[[Category: Protelemorase]]

OCA at 16:13, 9 December 2014

2014-12-09T16:13:39Z

← Older revision		Revision as of 16:13, 9 December 2014
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	[[~~Image~~:~~4e10~~.~~jpg~~\|~~left~~\|~~200px~~]]		==Protelomerase tela Y201A covalently complexed with substrate DNA==
			<StructureSection load='4e10' size='340' side='right' caption='[[4e10]], [[Resolution\|resolution]] 2.51Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[4e10]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._c58 Agrobacterium fabrum str. c58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E10 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4E10 FirstGlance]. <br>
			</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=BRU:5-BROMO-2-DEOXYURIDINE-5-MONOPHOSPHATE'>BRU</scene>, <scene name='pdbligand=PTR:O-PHOSPHOTYROSINE'>PTR</scene></td></tr>
			<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4dwp\|4dwp]], [[4e0g\|4e0g]], [[4e0j\|4e0j]], [[4e0p\|4e0p]], [[4e0y\|4e0y]], [[4e0z\|4e0z]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">telA, Atu2523 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=176299 Agrobacterium fabrum str. C58])</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=4e10 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4e10 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4e10 RCSB], [http://www.ebi.ac.uk/pdbsum/4e10 PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Hairpin telomeres of bacterial linear chromosomes are generated by a DNA cutting-rejoining enzyme protelomerase. Protelomerase resolves a concatenated dimer of chromosomes as the last step of chromosome replication, converting a palindromic DNA sequence at the junctions between chromosomes into covalently closed hairpins. The mechanism by which protelomerase transforms a duplex DNA substrate into the hairpin telomeres remains largely unknown. We report here a series of crystal structures of the protelomerase TelA bound to DNA that represent distinct stages along the reaction pathway. The structures suggest that TelA converts a linear duplex substrate into hairpin turns via a transient strand-refolding intermediate that involves DNA-base flipping and wobble base-pairs. The extremely compact di-nucleotide hairpin structure of the product is fully stabilized by TelA prior to strand ligation, which drives the reaction to completion. The enzyme-catalyzed, multistep strand refolding is a novel mechanism in DNA rearrangement reactions.

	~~{{STRUCTURE_4e10\| PDB=4e10 \| SCENE= }}~~		An enzyme-catalyzed multistep DNA refolding mechanism in hairpin telomere formation.,Shi K, Huang WM, Aihara H PLoS Biol. 2013 Jan;11(1):e1001472. doi: 10.1371/journal.pbio.1001472. Epub 2013 , Jan 29. PMID:23382649<ref>PMID:23382649</ref>

	~~===Protelomerase tela Y201A covalently complexed with substrate DNA===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_23382649}}~~		== References ==
			<references/>
	==~~About this Structure~~==		__TOC__
	~~[[4e10]] is a 3 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Agrobacterium_fabrum_str._c58 Agrobacterium fabrum str. c58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E10 OCA].~~		</StructureSection>
	[[Category: Agrobacterium fabrum str. c58]]		[[Category: Agrobacterium fabrum str. c58]]
	[[Category: Aihara, H.]]		[[Category: Aihara, H]]
	[[Category: Shi, K.]]		[[Category: Shi, K]]
	[[Category: Dna binding protein-dna complex]]		[[Category: Dna binding protein-dna complex]]
	[[Category: Protelemorase]]		[[Category: Protelemorase]]

OCA at 10:32, 13 February 2013

2013-02-13T10:32:40Z

← Older revision		Revision as of 10:32, 13 February 2013
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	~~'''Unreleased structure'''~~		[[Image:4e10.jpg\|left\|200px]]

	~~The entry~~ 4e10 ~~is ON HOLD~~ ~~until Paper Publication~~		{{STRUCTURE_4e10\| PDB=4e10 \| SCENE= }}

	~~Authors: Shi, K., Aihara, H.~~		===Protelomerase tela Y201A covalently complexed with substrate DNA===

	~~Description~~: ~~Protelomerase tela Y201A covalently complexed with substrate DNA~~		{{ABSTRACT_PUBMED_23382649}}

			==About this Structure==
			[[4e10]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._c58 Agrobacterium fabrum str. c58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4E10 OCA].
			[[Category: Agrobacterium fabrum str. c58]]
			[[Category: Aihara, H.]]
			[[Category: Shi, K.]]
			[[Category: Dna binding protein-dna complex]]
			[[Category: Protelemorase]]

OCA at 13:13, 8 November 2012

2012-11-08T13:13:58Z

← Older revision		Revision as of 13:13, 8 November 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4e10 is ON HOLD until ~~Mar 05 2014~~		The entry 4e10 is ON HOLD until Paper Publication

	Authors: Shi, K., Aihara, H.		Authors: Shi, K., Aihara, H.

	Description: Protelomerase tela Y201A covalently complexed with substrate DNA		Description: Protelomerase tela Y201A covalently complexed with substrate DNA

OCA at 04:44, 12 September 2012

2012-09-12T04:44:37Z

← Older revision		Revision as of 04:44, 12 September 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4e10 is ON HOLD		The entry 4e10 is ON HOLD until Mar 05 2014

	Authors: Shi, K., Aihara, H.		Authors: Shi, K., Aihara, H.

	Description: Protelomerase tela Y201A covalently complexed with substrate DNA		Description: Protelomerase tela Y201A covalently complexed with substrate DNA

OCA at 04:57, 18 July 2012

2012-07-18T04:57:04Z

← Older revision		Revision as of 04:57, 18 July 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4e10 is ON HOLD ~~until sometime in the future~~		The entry 4e10 is ON HOLD

	Authors: Shi, K, Aihara, H		Authors: Shi, K., Aihara, H.

	Description: ~~PROTELOMERASE TELA~~ Y201A ~~COVALENTLY COMPLEXED WITH SUBSTRATE~~ DNA		Description: Protelomerase tela Y201A covalently complexed with substrate DNA

OCA at 07:28, 18 April 2012

2012-04-18T07:28:30Z

← Older revision		Revision as of 07:28, 18 April 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4e10 is ON HOLD		The entry 4e10 is ON HOLD until sometime in the future

	Authors: Shi, K, Aihara, H		Authors: Shi, K, Aihara, H

	Description: PROTELOMERASE TELA Y201A COVALENTLY COMPLEXED WITH SUBSTRATE DNA		Description: PROTELOMERASE TELA Y201A COVALENTLY COMPLEXED WITH SUBSTRATE DNA

OCA: Protected "4e10" [edit=sysop:move=sysop]

2012-03-14T06:15:33Z

Protected "4e10" [edit=sysop:move=sysop]

← Older revision	Revision as of 06:15, 14 March 2012
(No difference)