This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

4u7a

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 08:06, 22 March 2023

The carboxy-terminal domain of Erb1 is a seven-bladed beta-propeller that binds RNA.

Structural highlights

4u7a is a 1 chain structure with sequence from Saccharomyces cerevisiae. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ERB1_YEAST Component of the NOP7 complex, which is required for maturation of the 25S and 5.8S ribosomal RNAs and formation of the 60S ribosome.[HAMAP-Rule:MF_03027]^[1] ^[2]

Publication Abstract from PubMed

Erb1 (Eukaryotic Ribosome Biogenesis 1) protein is essential for the maturation of the ribosomal 60S subunit. Functional studies in yeast and mammalian cells showed that altogether with Nop7 and Ytm1 it forms a stable subcomplex called PeBoW that is crucial for a correct rRNA processing. The exact function of the protein within the process remains unknown. The N-terminal region of the protein includes a well conserved region shown to be involved in PeBoW complex formation whereas the carboxy-terminal half was predicted to contain seven WD40 repeats. This first structural report on Erb1 from yeast describes the architecture of a seven-bladed beta-propeller domain that revealed a characteristic extra motif formed by two alpha-helices and a beta-strand that insert within the second WD repeat. We performed analysis of molecular surface and crystal packing, together with multiple sequence alignment and comparison of the structure with other beta-propellers, in order to identify areas that are more likely to mediate protein-protein interactions. The abundance of many positively charged residues on the surface of the domain led us to investigate whether the propeller of Erb1 might be involved in RNA binding. Three independent assays confirmed that the protein interacted in vitro with polyuridilic acid (polyU), thus suggesting a possible role of the domain in rRNA rearrangement during ribosome biogenesis.

The Carboxy-Terminal Domain of Erb1 Is a Seven-Bladed ss-Propeller that Binds RNA.,Marcin W, Neira JL, Bravo J PLoS One. 2015 Apr 16;10(4):e0123463. doi: 10.1371/journal.pone.0123463., eCollection 2015. PMID:25880847^[3]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Pestov DG, Stockelman MG, Strezoska Z, Lau LF. ERB1, the yeast homolog of mammalian Bop1, is an essential gene required for maturation of the 25S and 5.8S ribosomal RNAs. Nucleic Acids Res. 2001 Sep 1;29(17):3621-30. PMID:11522832
↑ Tang L, Sahasranaman A, Jakovljevic J, Schleifman E, Woolford JL Jr. Interactions among Ytm1, Erb1, and Nop7 required for assembly of the Nop7-subcomplex in yeast preribosomes. Mol Biol Cell. 2008 Jul;19(7):2844-56. doi: 10.1091/mbc.E07-12-1281. Epub 2008, Apr 30. PMID:18448671 doi:http://dx.doi.org/10.1091/mbc.E07-12-1281
↑ Marcin W, Neira JL, Bravo J. The Carboxy-Terminal Domain of Erb1 Is a Seven-Bladed ss-Propeller that Binds RNA. PLoS One. 2015 Apr 16;10(4):e0123463. doi: 10.1371/journal.pone.0123463., eCollection 2015. PMID:25880847 doi:http://dx.doi.org/10.1371/journal.pone.0123463

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4u7a"

Categories: Large Structures | Saccharomyces cerevisiae | Bravo J | Wegrecki M

@@ Line 3: / Line 3: @@
 <StructureSection load='4u7a' size='340' side='right'caption='[[4u7a]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4u7a]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U7A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U7A FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4u7a]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U7A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U7A FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ERB1, YMR049C, YM9796.02C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</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=4u7a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u7a OCA], [https://pdbe.org/4u7a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u7a RCSB], [https://www.ebi.ac.uk/pdbsum/4u7a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u7a ProSAT]</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=4u7a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u7a OCA], [http://pdbe.org/4u7a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4u7a RCSB], [http://www.ebi.ac.uk/pdbsum/4u7a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4u7a ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/ERB1_YEAST ERB1_YEAST]] Component of the NOP7 complex, which is required for maturation of the 25S and 5.8S ribosomal RNAs and formation of the 60S ribosome.[HAMAP-Rule:MF_03027]<ref>PMID:11522832</ref> <ref>PMID:18448671</ref>
+[https://www.uniprot.org/uniprot/ERB1_YEAST ERB1_YEAST] Component of the NOP7 complex, which is required for maturation of the 25S and 5.8S ribosomal RNAs and formation of the 60S ribosome.[HAMAP-Rule:MF_03027]<ref>PMID:11522832</ref> <ref>PMID:18448671</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 20: @@
 ==See Also==
-*[[Ribosome biogenesis protein|Ribosome biogenesis protein]]
+*[[Ribosome biogenesis protein 3D structures|Ribosome biogenesis protein 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Atcc 18824]]
 [[Category: Large Structures]]
-[[Category: Bravo, J]]
+[[Category: Saccharomyces cerevisiae]]
-[[Category: Wegrecki, M]]
+[[Category: Bravo J]]
-[[Category: Beta-propeller]]
+[[Category: Wegrecki M]]
-[[Category: Protein binding]]
-[[Category: Ribosome biogenesis]]
-[[Category: Rrna binding]]
-[[Category: Wd40]]

4u7a

From Proteopedia

Revision as of 08:06, 22 March 2023

The carboxy-terminal domain of Erb1 is a seven-bladed beta-propeller that binds RNA.

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox