OCA at 14:50, 6 March 2024

OCA — Wed, 06 Mar 2024 14:50:58 GMT

←Older revision		Revision as of 14:50, 6 March 2024
Line 1:		Line 1:

-	====	+	==Structure of RAG1 (R848M/E649V)-RAG2-DNA Strand Transfer Complex (Dynamic-Form)==
-	<StructureSection load='6xnx' size='340' side='right'caption='[[6xnx]]' scene=''>	+	<StructureSection load='6xnx' size='340' side='right'caption='[[6xnx]], [[Resolution\|resolution]] 2.70Å' 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'>[[6xnx]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6XNX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6XNX 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=6xnx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xnx OCA], [~~http~~://pdbe.org/6xnx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6xnx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6xnx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6xnx ProSAT]</span></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 2.7Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=6xnx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xnx OCA], [https://pdbe.org/6xnx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6xnx RCSB], [https://www.ebi.ac.uk/pdbsum/6xnx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6xnx ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/RAG1_MOUSE RAG1_MOUSE] Catalytic component of the RAG complex, a multiprotein complex that mediates the DNA cleavage phase during V(D)J recombination. V(D)J recombination assembles a diverse repertoire of immunoglobulin and T-cell receptor genes in developing B and T-lymphocytes through rearrangement of different V (variable), in some cases D (diversity), and J (joining) gene segments. In the RAG complex, RAG1 mediates the DNA-binding to the conserved recombination signal sequences (RSS) and catalyzes the DNA cleavage activities by introducing a double-strand break between the RSS and the adjacent coding segment. RAG2 is not a catalytic component but is required for all known catalytic activities. DNA cleavage occurs in 2 steps: a first nick is introduced in the top strand immediately upstream of the heptamer, generating a 3'-hydroxyl group that can attack the phosphodiester bond on the opposite strand in a direct transesterification reaction, thereby creating 4 DNA ends: 2 hairpin coding ends and 2 blunt, 5'-phosphorylated ends. The chromatin structure plays an essential role in the V(D)J recombination reactions and the presence of histone H3 trimethylated at 'Lys-4' (H3K4me3) stimulates both the nicking and haipinning steps. The RAG complex also plays a role in pre-B cell allelic exclusion, a process leading to expression of a single immunoglobulin heavy chain allele to enforce clonality and monospecific recognition by the B-cell antigen receptor (BCR) expressed on individual B-lymphocytes. The introduction of DNA breaks by the RAG complex on one immunoglobulin allele induces ATM-dependent repositioning of the other allele to pericentromeric heterochromatin, preventing accessibility to the RAG complex and recombination of the second allele. In addition to its endonuclease activity, RAG1 also acts as a E3 ubiquitin-protein ligase that mediates monoubiquitination of histone H3. Histone H3 monoubiquitination is required for the joining step of V(D)J recombination. Mediates polyubiquitination of KPNA1.<ref>PMID:2598259</ref> <ref>PMID:8521468</ref> <ref>PMID:9094713</ref> <ref>PMID:10601032</ref> <ref>PMID:10678172</ref> <ref>PMID:12629039</ref> <ref>PMID:14671314</ref> <ref>PMID:17028591</ref> <ref>PMID:19524534</ref> <ref>PMID:19118899</ref> <ref>PMID:19448632</ref> <ref>PMID:20122409</ref> <ref>PMID:19396172</ref>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Mus musculus]]
		+	[[Category: Corbett E]]
		+	[[Category: Schatz DG]]
		+	[[Category: Wu S]]
		+	[[Category: Zhang Y]]

OCA at 11:17, 26 August 2020

OCA — Wed, 26 Aug 2020 11:17:53 GMT

←Older revision		Revision as of 11:17, 26 August 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6xnx ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='6xnx' size='340' side='right'caption='[[6xnx]]' scene=''>
-	~~Authors~~:	+	== 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~~:	+	</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=6xnx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xnx OCA], [http://pdbe.org/6xnx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6xnx RCSB], [http://www.ebi.ac.uk/pdbsum/6xnx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6xnx ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

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

OCA — Wed, 22 Jul 2020 06:45:57 GMT

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

←Older revision

Revision as of 06:45, 22 July 2020

OCA: New page: '''Unreleased structure''' The entry 6xnx is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 22 Jul 2020 06:45:55 GMT

New page: '''Unreleased structure''' The entry 6xnx is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6xnx is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]

6xnx - Revision history

OCA at 14:50, 6 March 2024

OCA at 11:17, 26 August 2020

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

OCA: New page: '''Unreleased structure''' The entry 6xnx is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures