4i43 - Revision history

OCA at 15:14, 20 September 2023

OCA — Wed, 20 Sep 2023 15:14:42 GMT

←Older revision		Revision as of 15:14, 20 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4i43]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I43 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4I43 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4i43]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I43 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4I43 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=4i43 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i43 OCA], [https://pdbe.org/4i43 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4i43 RCSB], [https://www.ebi.ac.uk/pdbsum/4i43 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4i43 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]] 2Å</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=4i43 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i43 OCA], [https://pdbe.org/4i43 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4i43 RCSB], [https://www.ebi.ac.uk/pdbsum/4i43 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4i43 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 08:40, 9 November 2022

OCA — Wed, 09 Nov 2022 08:40:03 GMT

←Older revision		Revision as of 08:40, 9 November 2022
Line 1:		Line 1:

	==Crystal structure of Prp8:Aar2 complex==		==Crystal structure of Prp8:Aar2 complex==
-	<StructureSection load='4i43' size='340' side='right' caption='[[4i43]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='4i43' size='340' side='right'caption='[[4i43]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4i43]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Baker's_yeast Baker's yeast~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I43 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4I43 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4i43]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I43 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4I43 FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3zef\|3zef]]</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=4i43 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i43 OCA], [https://pdbe.org/4i43 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4i43 RCSB], [https://www.ebi.ac.uk/pdbsum/4i43 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4i43 ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AAR2, YBL074C, YBL06.06, YBL0611 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), PRP8, DBF3, DNA39, RNA8, SLT21, USA2, YHR165C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</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=4i43 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i43 OCA], [~~http~~://pdbe.org/4i43 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4i43 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4i43 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4i43 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/AAR2_YEAST AAR2_YEAST]] Involved in splicing pre-mRNA of the A1 cistron and other genes that are important for cell growth. [[http://www.uniprot.org/uniprot/PRP8_YEAST PRP8_YEAST]] Required for pre-spliceosome formation, which is the first step of pre-mRNA splicing. This protein is associated with snRNP U5. Has a role in branch site-3' splice site selection. Associates with the branch site-3' splice 3'-exon region. Also has a role in cell cycle.<ref>PMID:2835658</ref> <ref>PMID:9150140</ref> <ref>PMID:12773561</ref> <ref>PMID:18779563</ref>	+	[https://www.uniprot.org/uniprot/AAR2_YEAST AAR2_YEAST] Involved in splicing pre-mRNA of the A1 cistron and other genes that are important for cell growth.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 4i43" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4i43" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Pre-mRNA splicing factors 3D structures\|Pre-mRNA splicing factors 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Baker's yeast~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Galej, W P~~]]	+	[[Category: Saccharomyces cerevisiae S288C]]
-	[[Category: ~~Nagai, K~~]]	+	[[Category: Galej WP]]
-	[[Category: ~~Newman, A J~~]]	+	[[Category: Nagai K]]
-	[[Category: ~~Oubridge, C~~]]	+	[[Category: Newman AJ]]
-	[[Category: ~~Aar2]]~~	+	[[Category: Oubridge C]]
-	~~[[Category: Endonuclease]]~~	+
-	~~[[Category: Jab1/mpn]]~~	+
-	~~[[Category: Pre-mrna splicing]]~~	+
-	~~[[Category: Prp8]]~~	+
-	~~[[Category: Reverse transcriptase]]~~	+
-	~~[[Category: Rnase h]]~~	+
-	~~[[Category: Spliceosome]]~~	+
-	~~[[Category: Splicing]]~~	+
-	~~[[Category: U5 snrnp~~]]	+

OCA at 20:01, 24 January 2018

OCA — Wed, 24 Jan 2018 20:01:53 GMT

←Older revision		Revision as of 20:01, 24 January 2018
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 4i43" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4i43" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Pre-mRNA-splicing factor\|Pre-mRNA-splicing factor]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 16:20, 4 August 2016

OCA — Thu, 04 Aug 2016 16:20:00 GMT

←Older revision		Revision as of 16:20, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of Prp8:Aar2 complex==		==Crystal structure of Prp8:Aar2 complex==
	<StructureSection load='4i43' size='340' side='right' caption='[[4i43]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='4i43' size='340' side='right' caption='[[4i43]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4i43]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Saccharomyces_cerevisiae_s288c Saccharomyces cerevisiae s288c~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I43 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4I43 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4i43]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I43 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4I43 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3zef\|3zef]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3zef\|3zef]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AAR2, YBL074C, YBL06.06, YBL0611 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 ~~Saccharomyces cerevisiae S288c~~]), PRP8, DBF3, DNA39, RNA8, SLT21, USA2, YHR165C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 ~~Saccharomyces cerevisiae S288c~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AAR2, YBL074C, YBL06.06, YBL0611 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), PRP8, DBF3, DNA39, RNA8, SLT21, USA2, YHR165C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</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=4i43 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i43 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4i43 RCSB], [http://www.ebi.ac.uk/pdbsum/4i43 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=4i43 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i43 OCA], [http://pdbe.org/4i43 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4i43 RCSB], [http://www.ebi.ac.uk/pdbsum/4i43 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4i43 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	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 4i43" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 24:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Saccharomyces cerevisiae s288c~~]]	+	[[Category: Baker's yeast]]
	[[Category: Galej, W P]]		[[Category: Galej, W P]]
	[[Category: Nagai, K]]		[[Category: Nagai, K]]

OCA at 16:57, 24 December 2014

OCA — Wed, 24 Dec 2014 16:57:00 GMT

←Older revision		Revision as of 16:57, 24 December 2014
Line 1:		Line 1:
-	[[~~Image:~~4i43.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of Prp8:Aar2 complex==
		+	<StructureSection load='4i43' size='340' side='right' caption='[[4i43]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4i43]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_s288c Saccharomyces cerevisiae s288c]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I43 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4I43 FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3zef\|3zef]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AAR2, YBL074C, YBL06.06, YBL0611 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Saccharomyces cerevisiae S288c]), PRP8, DBF3, DNA39, RNA8, SLT21, USA2, YHR165C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Saccharomyces cerevisiae S288c])</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=4i43 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4i43 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4i43 RCSB], [http://www.ebi.ac.uk/pdbsum/4i43 PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/AAR2_YEAST AAR2_YEAST]] Involved in splicing pre-mRNA of the A1 cistron and other genes that are important for cell growth. [[http://www.uniprot.org/uniprot/PRP8_YEAST PRP8_YEAST]] Required for pre-spliceosome formation, which is the first step of pre-mRNA splicing. This protein is associated with snRNP U5. Has a role in branch site-3' splice site selection. Associates with the branch site-3' splice 3'-exon region. Also has a role in cell cycle.<ref>PMID:2835658</ref> <ref>PMID:9150140</ref> <ref>PMID:12773561</ref> <ref>PMID:18779563</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The active centre of the spliceosome consists of an intricate network formed by U5, U2 and U6 small nuclear RNAs, and a pre-messenger-RNA substrate. Prp8, a component of the U5 small nuclear ribonucleoprotein particle, crosslinks extensively with this RNA catalytic core. Here we present the crystal structure of yeast Prp8 (residues 885-2413) in complex with Aar2, a U5 small nuclear ribonucleoprotein particle assembly factor. The structure reveals tightly associated domains of Prp8 resembling a bacterial group II intron reverse transcriptase and a type II restriction endonuclease. Suppressors of splice-site mutations, and an intron branch-point crosslink, map to a large cavity formed by the reverse transcriptase thumb, and the endonuclease-like and RNaseH-like domains. This cavity is large enough to accommodate the catalytic core of group II intron RNA. The structure provides crucial insights into the architecture of the spliceosome active site, and reinforces the notion that nuclear pre-mRNA splicing and group II intron splicing have a common origin.

-	~~{{STRUCTURE_4i43\| PDB=4i43 \| SCENE= }}~~	+	Crystal structure of Prp8 reveals active site cavity of the spliceosome.,Galej WP, Oubridge C, Newman AJ, Nagai K Nature. 2013 Jan 31;493(7434):638-43. doi: 10.1038/nature11843. Epub 2013 Jan 23. PMID:23354046<ref>PMID:23354046</ref>

-	~~===Crystal structure~~ of ~~Prp8:Aar2 complex===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_23354046}}~~	+	==See Also==
-		+	*[[Pre-mRNA-splicing factor\|Pre-mRNA-splicing factor]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~4i43~~]] ~~is a 2 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Saccharomyces_cerevisiae_s288c Saccharomyces cerevisiae s288c]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I43 OCA].~~	+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Saccharomyces cerevisiae s288c]]		[[Category: Saccharomyces cerevisiae s288c]]
-	[[Category: Galej, W P.]]	+	[[Category: Galej, W P]]
	[[Category: Nagai, K]]		[[Category: Nagai, K]]
-	[[Category: Newman, A J.]]	+	[[Category: Newman, A J]]
	[[Category: Oubridge, C]]		[[Category: Oubridge, C]]
	[[Category: Aar2]]		[[Category: Aar2]]

OCA at 09:25, 13 February 2013

OCA — Wed, 13 Feb 2013 09:25:41 GMT

←Older revision		Revision as of 09:25, 13 February 2013
Line 1:		Line 1:
-	[[Image:4i43.~~jpg~~\|left\|200px]]	+	[[Image:4i43.png\|left\|200px]]

	{{STRUCTURE_4i43\| PDB=4i43 \| SCENE= }}		{{STRUCTURE_4i43\| PDB=4i43 \| SCENE= }}
Line 5:		Line 5:
	===Crystal structure of Prp8:Aar2 complex===		===Crystal structure of Prp8:Aar2 complex===

		+	{{ABSTRACT_PUBMED_23354046}}

	==About this Structure==		==About this Structure==

OCA at 12:00, 23 January 2013

OCA — Wed, 23 Jan 2013 12:00:35 GMT

←Older revision		Revision as of 12:00, 23 January 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4i43.jpg\|left\|200px]]

-	~~The entry~~ 4i43 ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_4i43\| PDB=4i43 \| SCENE= }}

-	~~Authors~~: ~~Galej, W.P., Oubridge, C, Newman, A.J., Nagai, K~~	+	===Crystal structure of Prp8:Aar2 complex===

-	~~Description: Crystal~~ structure ~~of Prp8~~:Aar2 ~~complex~~	+
		+	==About this Structure==
		+	[[4i43]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_s288c Saccharomyces cerevisiae s288c]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4I43 OCA].
		+	[[Category: Saccharomyces cerevisiae s288c]]
		+	[[Category: Galej, W P.]]
		+	[[Category: Nagai, K]]
		+	[[Category: Newman, A J.]]
		+	[[Category: Oubridge, C]]
		+	[[Category: Aar2]]
		+	[[Category: Endonuclease]]
		+	[[Category: Jab1/mpn]]
		+	[[Category: Pre-mrna splicing]]
		+	[[Category: Prp8]]
		+	[[Category: Reverse transcriptase]]
		+	[[Category: Rnase h]]
		+	[[Category: Spliceosome]]
		+	[[Category: Splicing]]
		+	[[Category: U5 snrnp]]

OCA at 07:48, 9 January 2013

OCA — Wed, 09 Jan 2013 07:48:00 GMT

←Older revision		Revision as of 07:48, 9 January 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4i43 is ON HOLD	+	The entry 4i43 is ON HOLD until Paper Publication

	Authors: Galej, W.P., Oubridge, C, Newman, A.J., Nagai, K		Authors: Galej, W.P., Oubridge, C, Newman, A.J., Nagai, K

-	Description: Crystal structure ~~a the splicing factor~~	+	Description: Crystal structure of Prp8:Aar2 complex

OCA: Protected "4i43" [edit=sysop:move=sysop]

OCA — Wed, 05 Dec 2012 10:33:36 GMT

Protected "4i43" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:33, 5 December 2012

OCA: New page: '''Unreleased structure''' The entry 4i43 is ON HOLD Authors: Galej, W.P., Oubridge, C, Newman, A.J., Nagai, K Description: Crystal structure a the splicing factor

OCA — Wed, 05 Dec 2012 10:33:35 GMT

New page: '''Unreleased structure''' The entry 4i43 is ON HOLD Authors: Galej, W.P., Oubridge, C, Newman, A.J., Nagai, K Description: Crystal structure a the splicing factor

New page

'''Unreleased structure'''

The entry 4i43 is ON HOLD

Authors: Galej, W.P., Oubridge, C, Newman, A.J., Nagai, K

Description: Crystal structure a the splicing factor