3o7b - Revision history

OCA at 02:12, 21 November 2024

2024-11-21T02:12:54Z

← Older revision		Revision as of 02:12, 21 November 2024
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	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3o7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7b OCA], [https://pdbe.org/3o7b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3o7b RCSB], [https://www.ebi.ac.uk/pdbsum/3o7b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7b 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=3o7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7b OCA], [https://pdbe.org/3o7b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3o7b RCSB], [https://www.ebi.ac.uk/pdbsum/3o7b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7b ProSAT]</span></td></tr>
	</table>		</table>
	== ~~Function~~ ==		<div style="background-color:#fffaf0;">
	~~[https://www~~.~~uniprot~~.~~org/uniprot/NEP1_ARCFU NEP1_ARCFU] Methyltransferase~~ involved in ribosomal ~~biogenesis~~. ~~Specifically catalyzes~~ the N1-~~methylation~~ of ~~the~~ pseudouridine ~~corresponding to position 914~~ in M.~~jannaschii 16S rRNA (By similarity)~~.		== Publication Abstract from PubMed ==
			Nucleolar Essential Protein 1 (Nep1) is required for small subunit (SSU) ribosomal RNA (rRNA) maturation and is mutated in Bowen-Conradi Syndrome. Although yeast (Saccharomyces cerevisiae) Nep1 interacts with a consensus sequence found in three regions of SSU rRNA, the molecular details of the interaction are unknown. Nep1 is a SPOUT RNA methyltransferase, and can catalyze methylation at the N1 of pseudouridine. Nep1 is also involved in assembly of Rps19, an SSU ribosomal protein. Mutations in Nep1 that result in decreased methyl donor binding do not result in lethality, suggesting that enzymatic activity may not be required for function, and RNA binding may play a more important role. To study these interactions, the crystal structures of the scNep1 dimer and its complexes with RNA were determined. The results demonstrate that Nep1 recognizes its RNA site via base-specific interactions and stabilizes a stem-loop in the bound RNA. Furthermore, the RNA structure observed contradicts the predicted structures of the Nep1-binding sites within mature rRNA, suggesting that the Nep1 changes rRNA structure upon binding. Finally, a uridine base is bound in the active site of Nep1, positioned for a methyltransfer at the C5 position, supporting its role as an N1-specific pseudouridine methyltransferase.

			Structural insight into the functional mechanism of Nep1/Emg1 N1-specific pseudouridine methyltransferase in ribosome biogenesis.,Thomas SR, Keller CA, Szyk A, Cannon JR, Laronde-Leblanc NA Nucleic Acids Res. 2010 Nov 17. PMID:21087996<ref>PMID:21087996</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 3o7b" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 10:03, 14 February 2024

2024-02-14T10:03:47Z

← Older revision		Revision as of 10:03, 14 February 2024
Line 3:		Line 3:
	<StructureSection load='3o7b' size='340' side='right'caption='[[3o7b]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='3o7b' size='340' side='right'caption='[[3o7b]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3o7b]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Arcfl Arcfl~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3O7B FirstGlance]. <br>		<table><tr><td colspan='2'>[[3o7b]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3O7B FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SAH:S-ADENOSYL-L~~-~~HOMOCYSTEINE'>SAH</scene>~~, ~~<scene name='pdbligand=TYR:TYROSINE'>TYR</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]] 1.45Å</td></tr>
	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~AF_0734 ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=2234 ARCFL])~~</td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</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=3o7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7b OCA], [https://pdbe.org/3o7b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3o7b RCSB], [https://www.ebi.ac.uk/pdbsum/3o7b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7b 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=3o7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7b OCA], [https://pdbe.org/3o7b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3o7b RCSB], [https://www.ebi.ac.uk/pdbsum/3o7b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7b ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/NEP1_ARCFU NEP1_ARCFU]] Methyltransferase involved in ribosomal biogenesis. Specifically catalyzes the N1-methylation of the pseudouridine corresponding to position 914 in M.jannaschii 16S rRNA (By similarity).		[https://www.uniprot.org/uniprot/NEP1_ARCFU NEP1_ARCFU] Methyltransferase involved in ribosomal biogenesis. Specifically catalyzes the N1-methylation of the pseudouridine corresponding to position 914 in M.jannaschii 16S rRNA (By similarity).
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	Nucleolar Essential Protein 1 (Nep1) is required for small subunit (SSU) ribosomal RNA (rRNA) maturation and is mutated in Bowen-Conradi Syndrome. Although yeast (Saccharomyces cerevisiae) Nep1 interacts with a consensus sequence found in three regions of SSU rRNA, the molecular details of the interaction are unknown. Nep1 is a SPOUT RNA methyltransferase, and can catalyze methylation at the N1 of pseudouridine. Nep1 is also involved in assembly of Rps19, an SSU ribosomal protein. Mutations in Nep1 that result in decreased methyl donor binding do not result in lethality, suggesting that enzymatic activity may not be required for function, and RNA binding may play a more important role. To study these interactions, the crystal structures of the scNep1 dimer and its complexes with RNA were determined. The results demonstrate that Nep1 recognizes its RNA site via base-specific interactions and stabilizes a stem-loop in the bound RNA. Furthermore, the RNA structure observed contradicts the predicted structures of the Nep1-binding sites within mature rRNA, suggesting that the Nep1 changes rRNA structure upon binding. Finally, a uridine base is bound in the active site of Nep1, positioned for a methyltransfer at the C5 position, supporting its role as an N1-specific pseudouridine methyltransferase.

	Structural insight into the functional mechanism of Nep1/Emg1 N1-specific pseudouridine methyltransferase in ribosome biogenesis.,Thomas SR, Keller CA, Szyk A, Cannon JR, Laronde-Leblanc NA Nucleic Acids Res. 2010 Nov 17. PMID:21087996<ref>PMID:21087996</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 3o7b" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Arcfl~~]]		[[Category: Archaeoglobus fulgidus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: LaRonde-LeBlanc, N]]		[[Category: LaRonde-LeBlanc N]]
	[[Category: Thomas~~, S R]]~~		[[Category: Thomas SR]]
	~~[[Category: Methyltransferase]]~~
	~~[[Category: Ribosome biogenesis]]~~
	~~[[Category: Rrna processing]]~~
	~~[[Category: Spout]]~~
	~~[[Category: Transferase~~]]

OCA at 07:17, 12 May 2022

2022-05-12T07:17:48Z

← Older revision		Revision as of 07:17, 12 May 2022
Line 1:		Line 1:

	==Crystal structure of Archaeoglobus Fulgidus Nep1 bound to S-adenosylhomocysteine==		==Crystal structure of Archaeoglobus Fulgidus Nep1 bound to S-adenosylhomocysteine==
	<StructureSection load='3o7b' size='340' side='right' caption='[[3o7b]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='3o7b' size='340' side='right'caption='[[3o7b]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3o7b]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Arcfl Arcfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7B OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3O7B FirstGlance]. <br>		<table><tr><td colspan='2'>[[3o7b]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arcfl Arcfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3O7B FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF_0734 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF_0734 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])</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=3o7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7b OCA], [~~http~~://pdbe.org/3o7b PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3o7b RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3o7b PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7b 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=3o7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7b OCA], [https://pdbe.org/3o7b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3o7b RCSB], [https://www.ebi.ac.uk/pdbsum/3o7b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7b ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/NEP1_ARCFU NEP1_ARCFU]] Methyltransferase involved in ribosomal biogenesis. Specifically catalyzes the N1-methylation of the pseudouridine corresponding to position 914 in M.jannaschii 16S rRNA (By similarity).		[[https://www.uniprot.org/uniprot/NEP1_ARCFU NEP1_ARCFU]] Methyltransferase involved in ribosomal biogenesis. Specifically catalyzes the N1-methylation of the pseudouridine corresponding to position 914 in M.jannaschii 16S rRNA (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Arcfl]]		[[Category: Arcfl]]
			[[Category: Large Structures]]
	[[Category: LaRonde-LeBlanc, N]]		[[Category: LaRonde-LeBlanc, N]]
	[[Category: Thomas, S R]]		[[Category: Thomas, S R]]

OCA at 16:38, 4 August 2016

2016-08-04T16:38:34Z

← Older revision		Revision as of 16:38, 4 August 2016
Line 1:		Line 1:

	==Crystal structure of Archaeoglobus Fulgidus Nep1 bound to S-adenosylhomocysteine==		==Crystal structure of Archaeoglobus Fulgidus Nep1 bound to S-adenosylhomocysteine==
	<StructureSection load='3o7b' size='340' side='right' caption='[[3o7b]], [[Resolution\|resolution]] 1.45Å' scene=''>		<StructureSection load='3o7b' size='340' side='right' caption='[[3o7b]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3o7b]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Archaeoglobus_fulgidus Archaeoglobus fulgidus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3O7B FirstGlance]. <br>		<table><tr><td colspan='2'>[[3o7b]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arcfl Arcfl]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3O7B FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF_0734 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ~~Archaeoglobus fulgidus~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF_0734 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 ARCFL])</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=3o7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7b OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3o7b RCSB], [http://www.ebi.ac.uk/pdbsum/3o7b 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=3o7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7b OCA], [http://pdbe.org/3o7b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3o7b RCSB], [http://www.ebi.ac.uk/pdbsum/3o7b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3o7b 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 3o7b" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Archaeoglobus fulgidus~~]]		[[Category: Arcfl]]
	[[Category: LaRonde-LeBlanc, N]]		[[Category: LaRonde-LeBlanc, N]]
	[[Category: Thomas, S R]]		[[Category: Thomas, S R]]

OCA at 11:03, 25 December 2014

2014-12-25T11:03:24Z

← Older revision		Revision as of 11:03, 25 December 2014
Line 7:		Line 7:
	<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=3o7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7b OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3o7b RCSB], [http://www.ebi.ac.uk/pdbsum/3o7b 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=3o7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7b OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3o7b RCSB], [http://www.ebi.ac.uk/pdbsum/3o7b PDBsum]</span></td></tr>
	</table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/NEP1_ARCFU NEP1_ARCFU]] Methyltransferase involved in ribosomal biogenesis. Specifically catalyzes the N1-methylation of the pseudouridine corresponding to position 914 in M.jannaschii 16S rRNA (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:18, 19 December 2014

2014-12-19T07:18:24Z

← Older revision		Revision as of 07:18, 19 December 2014
Line 1:		Line 1:
	~~{{STRUCTURE_3o7b\| PDB=3o7b \| SCENE= }}~~		==Crystal structure of Archaeoglobus Fulgidus Nep1 bound to S-adenosylhomocysteine==
	===Crystal structure of Archaeoglobus Fulgidus Nep1 bound to S-adenosylhomocysteine===		<StructureSection load='3o7b' size='340' side='right' caption='[[3o7b]], [[Resolution\|resolution]] 1.45Å' scene=''>
	~~{{ABSTRACT_PUBMED_21087996}}~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[3o7b]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3O7B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3O7B FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=TYR:TYROSINE'>TYR</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AF_0734 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2234 Archaeoglobus fulgidus])</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=3o7b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3o7b OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3o7b RCSB], [http://www.ebi.ac.uk/pdbsum/3o7b PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Nucleolar Essential Protein 1 (Nep1) is required for small subunit (SSU) ribosomal RNA (rRNA) maturation and is mutated in Bowen-Conradi Syndrome. Although yeast (Saccharomyces cerevisiae) Nep1 interacts with a consensus sequence found in three regions of SSU rRNA, the molecular details of the interaction are unknown. Nep1 is a SPOUT RNA methyltransferase, and can catalyze methylation at the N1 of pseudouridine. Nep1 is also involved in assembly of Rps19, an SSU ribosomal protein. Mutations in Nep1 that result in decreased methyl donor binding do not result in lethality, suggesting that enzymatic activity may not be required for function, and RNA binding may play a more important role. To study these interactions, the crystal structures of the scNep1 dimer and its complexes with RNA were determined. The results demonstrate that Nep1 recognizes its RNA site via base-specific interactions and stabilizes a stem-loop in the bound RNA. Furthermore, the RNA structure observed contradicts the predicted structures of the Nep1-binding sites within mature rRNA, suggesting that the Nep1 changes rRNA structure upon binding. Finally, a uridine base is bound in the active site of Nep1, positioned for a methyltransfer at the C5 position, supporting its role as an N1-specific pseudouridine methyltransferase.

	~~==Function==~~		Structural insight into the functional mechanism of Nep1/Emg1 N1-specific pseudouridine methyltransferase in ribosome biogenesis.,Thomas SR, Keller CA, Szyk A, Cannon JR, Laronde-Leblanc NA Nucleic Acids Res. 2010 Nov 17. PMID:21087996<ref>PMID:21087996</ref>
	~~[[http:~~/~~/www.uniprot.org/uniprot/NEP1_ARCFU NEP1_ARCFU]] Methyltransferase involved~~ in ~~ribosomal~~ biogenesis. ~~Specifically catalyzes the N1~~-~~methylation of the pseudouridine corresponding to position 914 in M~~.~~jannaschii 16S rRNA (By similarity)~~.

	~~==About this Structure==~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	~~[[3o7b]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3O7B OCA].~~		</div>
			== References ==
	==~~Reference~~==		<references/>
	~~<ref group="xtra">PMID:021087996</ref>~~<references ~~group="xtra"~~/><~~references~~/>		__TOC__
			</StructureSection>
	[[Category: Archaeoglobus fulgidus]]		[[Category: Archaeoglobus fulgidus]]
	[[Category: LaRonde-LeBlanc, N.]]		[[Category: LaRonde-LeBlanc, N]]
	[[Category: Thomas, S R.]]		[[Category: Thomas, S R]]
	[[Category: Methyltransferase]]		[[Category: Methyltransferase]]
	[[Category: Ribosome biogenesis]]		[[Category: Ribosome biogenesis]]

OCA at 12:00, 24 April 2013

2013-04-24T12:00:34Z

← Older revision		Revision as of 12:00, 24 April 2013
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	~~[[Image:3o7b.png\|left\|200px]]~~

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_3o7b", 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_3o7b\| PDB=3o7b \| SCENE= }}		{{STRUCTURE_3o7b\| PDB=3o7b \| SCENE= }}

	===Crystal structure of Archaeoglobus Fulgidus Nep1 bound to S-adenosylhomocysteine===		===Crystal structure of Archaeoglobus Fulgidus Nep1 bound to S-adenosylhomocysteine===
			{{ABSTRACT_PUBMED_21087996}}

			==Function==
	~~<!--~~		[[http://www.uniprot.org/uniprot/NEP1_ARCFU NEP1_ARCFU]] Methyltransferase involved in ribosomal biogenesis. Specifically catalyzes the N1-methylation of the pseudouridine corresponding to position 914 in M.jannaschii 16S rRNA (By similarity).
	~~The line below this paragraph, {{ABSTRACT_PUBMED_21087996}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at~~ http://www.~~pubmed~~.~~gov~~)~~, where 21087996 is the PubMed ID number~~.
	~~-->~~
	~~{{ABSTRACT_PUBMED_21087996}}~~

	==About this Structure==		==About this Structure==
Line 22:		Line 10:

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~21087996~~</ref><references group="xtra"/>		<ref group="xtra">PMID:021087996</ref><references group="xtra"/><references/>
	[[Category: Archaeoglobus fulgidus]]		[[Category: Archaeoglobus fulgidus]]
	[[Category: LaRonde-LeBlanc, N.]]		[[Category: LaRonde-LeBlanc, N.]]
	[[Category: Thomas, S R.]]		[[Category: Thomas, S R.]]
			[[Category: Methyltransferase]]
			[[Category: Ribosome biogenesis]]
			[[Category: Rrna processing]]
			[[Category: Spout]]
			[[Category: Transferase]]

OCA at 04:32, 13 April 2011

2011-04-13T04:32:41Z

← Older revision		Revision as of 04:32, 13 April 2011
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	[[Image:3o7b.~~jpg~~\|left\|200px]]		[[Image:3o7b.png\|left\|200px]]

	<!--		<!--

OCA: Protected "3o7b" [edit=sysop:move=sysop]

2011-01-19T06:24:22Z

Protected "3o7b" [edit=sysop:move=sysop]

← Older revision	Revision as of 06:24, 19 January 2011
(No difference)

OCA at 06:24, 19 January 2011

2011-01-19T06:24:21Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+[[Image:3o7b.jpg|left|200px]]
-The entry 3o7b is ON HOLD
+<!--
-Authors: Thomas, S.R., LaRonde-LeBlanc, N.
+===Crystal structure of Archaeoglobus Fulgidus Nep1 bound to S-adenosylhomocysteine===
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Aug 11 23:38:15 2010''
+<!--