5eip - Revision history

OCA at 09:10, 20 March 2024

OCA — Wed, 20 Mar 2024 09:10:56 GMT

←Older revision		Revision as of 09:10, 20 March 2024
Line 9:		Line 9:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/MMI1_SCHPO MMI1_SCHPO] RNA-binding protein that recognizes and binds N6-methyladenosine (m6A)-containing RNAs, a modification present at internal sites of mRNAs and some non-coding RNAs (By similarity). Required for elemination of certain meiosis-specific mRNAs in an early event following transcription. May bind to the cis-acting region (DSR) of the mRNA, activating the nuclear exosome which may lead to the degradation of the transcript from the 3' region (PubMed:16823445).[UniProtKB:Q06390]<ref>PMID:16823445</ref>		[https://www.uniprot.org/uniprot/MMI1_SCHPO MMI1_SCHPO] RNA-binding protein that recognizes and binds N6-methyladenosine (m6A)-containing RNAs, a modification present at internal sites of mRNAs and some non-coding RNAs (By similarity). Required for elemination of certain meiosis-specific mRNAs in an early event following transcription. May bind to the cis-acting region (DSR) of the mRNA, activating the nuclear exosome which may lead to the degradation of the transcript from the 3' region (PubMed:16823445).[UniProtKB:Q06390]<ref>PMID:16823445</ref>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Meiosis is one of the most dramatic differentiation programs accompanied by a striking change in gene expression profiles in fission yeast Schizosaccharomyces pombe. Whereas a number of meiosis-specific transcripts are expressed untimely in mitotic cells, and the entry of meiosis will be blocked as the accumulation of meiosis-specific mRNAs in the mitotic cells. A YTH domain containing protein Mmi1 was identified as a pivotal effector in a post-transcriptional event termed selective elimination of meiosis-specific mRNAs. Mmi1 can recognize and bind a class of meiosis-specific transcripts expressed inappropriately in mitotic cells, which all contain a conservative region called DSR, as a mark to remove them in cooperation with nuclear exosomes. Here we report the 1.6 A resolution crystal structure of the Mmi1-YTH domain in complex with a high consensus hexanucleotide motif, which is multiple copied in the DSR region. Our structure observations, supported by site-directed mutations of key residues illustrate the mechanism for specific recognition of DSR-RNA by Mmi1. Moreover, different from other YTH domain family proteins, Mmi1-YTH domain has a distinctive RNA-binding properties although it has a similar fold as other ones.
-
-	Structural insights into the specific recognition of DSR by the YTH domain containing protein Mmi1.,Wu B, Xu J, Su S, Liu H, Gan J, Ma J Biochem Biophys Res Commun. 2017 Sep 16;491(2):310-316. doi:, 10.1016/j.bbrc.2017.07.104. Epub 2017 Jul 20. PMID:28735863<ref>PMID:28735863</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5eip" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:29, 5 July 2023

OCA — Wed, 05 Jul 2023 06:29:36 GMT

←Older revision		Revision as of 06:29, 5 July 2023
Line 3:		Line 3:
	<StructureSection load='5eip' size='340' side='right'caption='[[5eip]], [[Resolution\|resolution]] 1.49Å' scene=''>		<StructureSection load='5eip' size='340' side='right'caption='[[5eip]], [[Resolution\|resolution]] 1.49Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5eip]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EIP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5EIP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5eip]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe_972h- Schizosaccharomyces pombe 972h-]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EIP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5EIP FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">[[~~5eim~~\|~~5eim~~]]</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]] 1.49Å</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=5eip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eip OCA], [~~http~~://pdbe.org/5eip PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5eip RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5eip PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5eip 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=5eip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eip OCA], [https://pdbe.org/5eip PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5eip RCSB], [https://www.ebi.ac.uk/pdbsum/5eip PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5eip ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/MMI1_SCHPO MMI1_SCHPO]] RNA-binding protein that recognizes and binds N6-methyladenosine (m6A)-containing RNAs, a modification present at internal sites of mRNAs and some non-coding RNAs (By similarity). Required for elemination of certain meiosis-specific mRNAs in an early event following transcription. May bind to the cis-acting region (DSR) of the mRNA, activating the nuclear exosome which may lead to the degradation of the transcript from the 3' region (PubMed:16823445).[UniProtKB:Q06390]<ref>PMID:16823445</ref>	+	[https://www.uniprot.org/uniprot/MMI1_SCHPO MMI1_SCHPO] RNA-binding protein that recognizes and binds N6-methyladenosine (m6A)-containing RNAs, a modification present at internal sites of mRNAs and some non-coding RNAs (By similarity). Required for elemination of certain meiosis-specific mRNAs in an early event following transcription. May bind to the cis-acting region (DSR) of the mRNA, activating the nuclear exosome which may lead to the degradation of the transcript from the 3' region (PubMed:16823445).[UniProtKB:Q06390]<ref>PMID:16823445</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Ma, J B~~]]	+	[[Category: Schizosaccharomyces pombe 972h-]]
-	[[Category: ~~Su, S C~~]]	+	[[Category: Ma JB]]
-	[[Category: ~~Wu, B X~~]]	+	[[Category: Su SC]]
-	[[Category: ~~Xu, J H~~]]	+	[[Category: Wu BX]]
-	[[Category: ~~Dsr]]~~	+	[[Category: Xu JH]]
-	~~[[Category: Mmi1]]~~	+
-	~~[[Category: Rna binding protein]]~~	+
-	~~[[Category: Yth~~]]	+

OCA at 06:59, 22 April 2020

OCA — Wed, 22 Apr 2020 06:59:42 GMT

←Older revision		Revision as of 06:59, 22 April 2020
Line 1:		Line 1:

	==apo-structure of YTH domain of SpMmi1==		==apo-structure of YTH domain of SpMmi1==
-	<StructureSection load='5eip' size='340' side='right' caption='[[5eip]], [[Resolution\|resolution]] 1.49Å' scene=''>	+	<StructureSection load='5eip' size='340' side='right'caption='[[5eip]], [[Resolution\|resolution]] 1.49Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5eip]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EIP OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5EIP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5eip]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EIP OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5EIP FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5eim\|5eim]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5eim\|5eim]]</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=5eip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eip OCA], [http://pdbe.org/5eip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5eip RCSB], [http://www.ebi.ac.uk/pdbsum/5eip PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5eip ProSAT]</span></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=5eip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eip OCA], [http://pdbe.org/5eip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5eip RCSB], [http://www.ebi.ac.uk/pdbsum/5eip PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5eip ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Ma, J B]]		[[Category: Ma, J B]]
	[[Category: Su, S C]]		[[Category: Su, S C]]

OCA at 04:36, 21 September 2017

OCA — Thu, 21 Sep 2017 04:36:15 GMT

←Older revision		Revision as of 04:36, 21 September 2017
Line 1:		Line 1:
		+
	==apo-structure of YTH domain of SpMmi1==		==apo-structure of YTH domain of SpMmi1==
	<StructureSection load='5eip' size='340' side='right' caption='[[5eip]], [[Resolution\|resolution]] 1.49Å' scene=''>		<StructureSection load='5eip' size='340' side='right' caption='[[5eip]], [[Resolution\|resolution]] 1.49Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[5eip]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EIP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EIP FirstGlance]. <br>		<table><tr><td colspan='2'>[[5eip]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EIP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EIP FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5eim\|5eim]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5eim\|5eim]]</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=5eip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eip OCA], [http://pdbe.org/5eip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5eip RCSB], [http://www.ebi.ac.uk/pdbsum/5eip 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=5eip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eip OCA], [http://pdbe.org/5eip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5eip RCSB], [http://www.ebi.ac.uk/pdbsum/5eip PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5eip ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/MMI1_SCHPO MMI1_SCHPO]] RNA-binding protein that recognizes and binds N6-methyladenosine (m6A)-containing RNAs, a modification present at internal sites of mRNAs and some non-coding RNAs (By similarity). Required for elemination of certain meiosis-specific mRNAs in an early event following transcription. May bind to the cis-acting region (DSR) of the mRNA, activating the nuclear exosome which may lead to the degradation of the transcript from the 3' region (PubMed:16823445).[UniProtKB:Q06390]<ref>PMID:16823445</ref>		[[http://www.uniprot.org/uniprot/MMI1_SCHPO MMI1_SCHPO]] RNA-binding protein that recognizes and binds N6-methyladenosine (m6A)-containing RNAs, a modification present at internal sites of mRNAs and some non-coding RNAs (By similarity). Required for elemination of certain meiosis-specific mRNAs in an early event following transcription. May bind to the cis-acting region (DSR) of the mRNA, activating the nuclear exosome which may lead to the degradation of the transcript from the 3' region (PubMed:16823445).[UniProtKB:Q06390]<ref>PMID:16823445</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Meiosis is one of the most dramatic differentiation programs accompanied by a striking change in gene expression profiles in fission yeast Schizosaccharomyces pombe. Whereas a number of meiosis-specific transcripts are expressed untimely in mitotic cells, and the entry of meiosis will be blocked as the accumulation of meiosis-specific mRNAs in the mitotic cells. A YTH domain containing protein Mmi1 was identified as a pivotal effector in a post-transcriptional event termed selective elimination of meiosis-specific mRNAs. Mmi1 can recognize and bind a class of meiosis-specific transcripts expressed inappropriately in mitotic cells, which all contain a conservative region called DSR, as a mark to remove them in cooperation with nuclear exosomes. Here we report the 1.6 A resolution crystal structure of the Mmi1-YTH domain in complex with a high consensus hexanucleotide motif, which is multiple copied in the DSR region. Our structure observations, supported by site-directed mutations of key residues illustrate the mechanism for specific recognition of DSR-RNA by Mmi1. Moreover, different from other YTH domain family proteins, Mmi1-YTH domain has a distinctive RNA-binding properties although it has a similar fold as other ones.
		+
		+	Structural insights into the specific recognition of DSR by the YTH domain containing protein Mmi1.,Wu B, Xu J, Su S, Liu H, Gan J, Ma J Biochem Biophys Res Commun. 2017 Sep 16;491(2):310-316. doi:, 10.1016/j.bbrc.2017.07.104. Epub 2017 Jul 20. PMID:28735863<ref>PMID:28735863</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5eip" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 02:35, 28 January 2016

OCA — Thu, 28 Jan 2016 02:35:57 GMT

←Older revision		Revision as of 02:35, 28 January 2016
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==apo-structure of YTH domain of SpMmi1==
-		+	<StructureSection load='5eip' size='340' side='right' caption='[[5eip]], [[Resolution\|resolution]] 1.49Å' scene=''>
-	~~The entry~~ 5eip is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5eip]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EIP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EIP FirstGlance]. <br>
-	~~Authors~~: ~~Wu, B~~.X., ~~Xu, J~~.H., Su, S.C., ~~Ma, J~~.B.	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5eim\|5eim]]</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=5eip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5eip OCA], [http://pdbe.org/5eip PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5eip RCSB], [http://www.ebi.ac.uk/pdbsum/5eip PDBsum]</span></td></tr>
-	~~Description~~: ~~apo~~-~~structure~~ of ~~YTH domain~~ of ~~SpMmi1~~	+	</table>
-	[[Category: ~~Unreleased Structures~~]]	+	== Function ==
-	[[Category: Su, S.C]]	+	[[http://www.uniprot.org/uniprot/MMI1_SCHPO MMI1_SCHPO]] RNA-binding protein that recognizes and binds N6-methyladenosine (m6A)-containing RNAs, a modification present at internal sites of mRNAs and some non-coding RNAs (By similarity). Required for elemination of certain meiosis-specific mRNAs in an early event following transcription. May bind to the cis-acting region (DSR) of the mRNA, activating the nuclear exosome which may lead to the degradation of the transcript from the 3' region (PubMed:16823445).[UniProtKB:Q06390]<ref>PMID:16823445</ref>
-	[[Category: Xu, J.H]]	+	== References ==
-	[[Category: ~~Ma, J.B~~]]	+	<references/>
-	[[Category: ~~Wu, B.X~~]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Ma, J B]]
		+	[[Category: Su, S C]]
		+	[[Category: Wu, B X]]
		+	[[Category: Xu, J H]]
		+	[[Category: Dsr]]
		+	[[Category: Mmi1]]
		+	[[Category: Rna binding protein]]
		+	[[Category: Yth]]

OCA: Protected "5eip" [edit=sysop:move=sysop]

OCA — Tue, 01 Dec 2015 02:53:26 GMT

Protected "5eip" [edit=sysop:move=sysop]

←Older revision

Revision as of 02:53, 1 December 2015

OCA: New page: '''Unreleased structure''' The entry 5eip is ON HOLD until Paper Publication Authors: Wu, B.X., Xu, J.H., Su, S.C., Ma, J.B. Description: apo-structure of YTH domain of SpMmi1 [[Catego...

OCA — Tue, 01 Dec 2015 02:53:24 GMT

New page: '''Unreleased structure''' The entry 5eip is ON HOLD until Paper Publication Authors: Wu, B.X., Xu, J.H., Su, S.C., Ma, J.B. Description: apo-structure of YTH domain of SpMmi1 [[Catego...

New page

'''Unreleased structure'''

The entry 5eip is ON HOLD until Paper Publication

Authors: Wu, B.X., Xu, J.H., Su, S.C., Ma, J.B.

Description: apo-structure of YTH domain of SpMmi1
[[Category: Unreleased Structures]]
[[Category: Su, S.C]]
[[Category: Xu, J.H]]
[[Category: Ma, J.B]]
[[Category: Wu, B.X]]