3utr - Revision history

OCA at 08:06, 20 July 2022

2022-07-20T08:06:05Z

←Older revision		Revision as of 08:06, 20 July 2022
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	==HUMAN U1A/U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)==		==HUMAN U1A/U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)==
-	<StructureSection load='3utr' size='340' side='right' caption='[[3utr]]' scene=''>	+	<StructureSection load='3utr' size='340' side='right'caption='[[3utr]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3UTR FirstGlance]. <br>	+	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UTR 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=3utr FirstGlance], [~~http~~://www.ebi.ac.uk/pdbsum/3utr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3utr 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=3utr FirstGlance], [https://www.ebi.ac.uk/pdbsum/3utr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3utr ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</StructureSection>		</StructureSection>
	[[Category: Theoretical Model]]		[[Category: Theoretical Model]]
		+	[[Category: Large Structures]]
	[[Category: Avis, J M]]		[[Category: Avis, J M]]
	[[Category: Jovine, L]]		[[Category: Jovine, L]]
	[[Category: Nagai, K]]		[[Category: Nagai, K]]
	[[Category: Oubridge, C]]		[[Category: Oubridge, C]]

OCA at 09:15, 21 February 2019

2019-02-21T09:15:47Z

←Older revision		Revision as of 09:15, 21 February 2019
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UTR FirstGlance]. <br>		<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UTR 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=3utr FirstGlance], [http://www.ebi.ac.uk/pdbsum/3utr 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=3utr FirstGlance], [http://www.ebi.ac.uk/pdbsum/3utr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3utr ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 11:08, 11 February 2016

2016-02-11T11:08:53Z

←Older revision		Revision as of 11:08, 11 February 2016
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		+	{{Theoretical_model}}
		+
	==HUMAN U1A/U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)==		==HUMAN U1A/U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)==
	<StructureSection load='3utr' size='340' side='right' caption='[[3utr]]' scene=''>		<StructureSection load='3utr' size='340' side='right' caption='[[3utr]]' scene=''>
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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 3utr" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Theoretical Model]]
	[[Category: Avis, J M]]		[[Category: Avis, J M]]
	[[Category: Jovine, L]]		[[Category: Jovine, L]]
	[[Category: Nagai, K]]		[[Category: Nagai, K]]
	[[Category: Oubridge, C]]		[[Category: Oubridge, C]]

OCA at 16:54, 9 December 2014

2014-12-09T16:54:55Z

←Older revision		Revision as of 16:54, 9 December 2014
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-	~~{{Theoretical_model}}~~	+	==HUMAN U1A/U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)==
		+	<StructureSection load='3utr' size='340' side='right' caption='[[3utr]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UTR 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=3utr FirstGlance], [http://www.ebi.ac.uk/pdbsum/3utr PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	BACKGROUND: Human U1A protein binds to hairpin II of U1 small nuclear RNA (snRNA) and, together with other proteins, forms the U1 snRNP essential in pre-mRNA splicing. U1A protein also binds to the 3' untranslated region (3'UTR) of its own pre-mRNA, inhibiting polyadenylation of the 3'end and thereby downregulating its own expression. The 3'UTR folds into an evolutionarily conserved secondary structure with two internal loops; one loop contains the sequence AUUGCAC and the other its variant AUUGUAC. The sequence AUUGCAC is also found in hairpin II of U1 snRNA; hence, U1A protein recognizes the same heptanucleotide sequence in two different structural contexts. In order to better understand the control mechanism of the polyadenylation process, we have built a model of the U1A protein-3'UTR complex based on the crystal structure of the U1A protein-hairpin II RNA complex which we determined previously. RESULTS: In the crystal structure of the U1A protein-hairpin II RNA complex the AUUGCAC sequence fits tightly into a groove on the surface of U1A protein. The conservation of the heptanucleotide in the 3'UTR strongly suggests that U1A protein forms identical sequence-specific contacts with the heptanucleotide sequence when complexed with the 3'UTR. The crystal structure of the hairpin II complex and the twofold symmetry in the 3'UTR RNA provide sufficient information to restrict the conformation of the 3'UTR RNA and have enabled us to build a model of the 3'UTR complex. CONCLUSIONS: In the U1A-3'UTR complex, sequence-specific interactions are made entirely by the conserved heptanucleotide and the last base pair (C:G) of the stem. The structure is stabilized by protein-protein contacts and by electrostatic interactions between basic amino acids of the protein and the phosphate backbone of the RNA stem regions. The formation of a protein dimer necessary for the inhibition of poly(A) polymerase requires a conformational change of the C termini of the proteins upon RNA binding. This mechanism could prevent the inhibition of poly(A) polymerase by free U1A protein. The model is consistent with biochemical data, and the protein-protein interactions within the 3'UTR complex account for the cooperativity of U1A protein binding to the 3'UTR. The model also serves as an important structural guide for designing further experiments to understand the interaction between the U1A-3'UTR complex and poly(A) polymerase.

-	~~[[Image~~:~~3utr~~.~~png\|left\|200px]]~~	+	Two structurally different RNA molecules are bound by the spliceosomal protein U1A using the same recognition strategy.,Jovine L, Oubridge C, Avis JM, Nagai K Structure. 1996 May 15;4(5):621-31. PMID:8736559<ref>PMID:8736559</ref>

-	~~{{STRUCTURE_3utr\| PDB=3utr \| SCENE= }}~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~===HUMAN U1A~~/~~U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)===~~	+	== References ==
-		+	<references/>
-	~~{{ABSTRACT_PUBMED_8736559}}~~	+	__TOC__
-		+	</StructureSection>
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:008736559<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Avis, J M]]		[[Category: Avis, J M]]
	[[Category: Jovine, L]]		[[Category: Jovine, L]]
	[[Category: Nagai, K]]		[[Category: Nagai, K]]
	[[Category: Oubridge, C]]		[[Category: Oubridge, C]]

OCA: Protected "3utr" [edit=sysop:move=sysop]

2012-10-21T09:38:51Z

Protected "3utr" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:38, 21 October 2012

OCA at 09:38, 21 October 2012

2012-10-21T09:38:48Z

←Older revision		Revision as of 09:38, 21 October 2012
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	{{Theoretical_model}}		{{Theoretical_model}}
-	~~{{Seed}}~~	+
	[[Image:3utr.png\|left\|200px]]		[[Image:3utr.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3utr", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3utr\| PDB=3utr \| SCENE= }}		{{STRUCTURE_3utr\| PDB=3utr \| SCENE= }}

	===HUMAN U1A/U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)===		===HUMAN U1A/U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_8736559}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 8736559 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_8736559}}		{{ABSTRACT_PUBMED_8736559}}
-
-	==About this Structure==
-	Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UTR OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~8736559~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:008736559</ref><references group="xtra"/>
	[[Category: Avis, J M]]		[[Category: Avis, J M]]
	[[Category: Jovine, L]]		[[Category: Jovine, L]]
	[[Category: Nagai, K]]		[[Category: Nagai, K]]
	[[Category: Oubridge, C]]		[[Category: Oubridge, C]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Apr 8 08:43:05 2010''

OCA at 05:43, 8 April 2010

2010-04-08T05:43:05Z

←Older revision		Revision as of 05:43, 8 April 2010
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-	~~'''Theoretical Model'''~~	+	{{Theoretical_model}}
		+	{{Seed}}
		+	[[Image:3utr.png\|left\|200px]]

-	~~The entry 3UTR is a Theoretical Model titled 'HUMAN U1A/U1A PRE~~-~~MRNA 3'UTR COMPLEX~~ (~~THEORETICAL MODEL~~)'.	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3utr", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3utr\| PDB=3utr \| SCENE= }}

-	~~[[Category:Theoretical Model]]~~	+	===HUMAN U1A/U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)===


-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Jul 30 09~~:58:~~53 2008~~''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_8736559}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 8736559 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_8736559}}
		+
		+	==About this Structure==
		+	Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UTR OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:8736559</ref><references group="xtra"/>
		+	[[Category: Avis, J M]]
		+	[[Category: Jovine, L]]
		+	[[Category: Nagai, K]]
		+	[[Category: Oubridge, C]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Apr 8 08:43:05 2010''

OCA at 06:58, 30 July 2008

2008-07-30T06:58:54Z

←Older revision		Revision as of 06:58, 30 July 2008
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-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul ~~23 13~~:33:48 2008''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 30 09:58:53 2008''

OCA: New page: '''Theoretical Model''' The entry 3UTR is a Theoretical Model titled 'HUMAN U1A/U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)'. Category:Theoretical Model ''Page seeded by [http:/...

2008-07-23T10:33:49Z

New page: '''Theoretical Model''' The entry 3UTR is a Theoretical Model titled 'HUMAN U1A/U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)'. Category:Theoretical Model ''Page seeded by [http:/...

New page

'''Theoretical Model'''

The entry 3UTR is a Theoretical Model titled 'HUMAN U1A/U1A PRE-MRNA 3'UTR COMPLEX (THEORETICAL MODEL)'.

[[Category:Theoretical Model]]

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 23 13:33:48 2008''