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.

5c77

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 06:22, 7 June 2023

A novel protein arginine methyltransferase

Structural highlights

5c77 is a 2 chain structure with sequence from Saccharomyces cerevisiae S288C. 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

SFM1_YEAST S-adenosyl-L-methionine-dependent protein-arginine N-methyltransferase that monomethylates ribosomal protein S3 (RPS3) at 'Arg-146'.^[1]

Publication Abstract from PubMed

SPOUT proteins constitute one class of methyltransferases, which so far are found to exert activity mainly towards RNAs. Previously, yeast Sfm1 was predicted to contain a SPOUT domain but can methylate ribosomal protein S3. Here we report the crystal structure of Sfm1, which comprises of a typical SPOUT domain and a small C-terminal domain. The active site is similar to that of protein arginine methyltransferases but different from that of RNA methyltransferases. In addition, Sfm1 exhibits a negatively charged surface surrounding the active site unsuitable for RNA binding. Our biochemical data show that Sfm1 exists as a monomer and has high activity towards ribosomal protein S3 but no activity towards RNA. It can specifically catalyze the methylation of Arg146 of S3 and the C-terminal domain is critical for substrate binding and activity. These results together provide the structural basis for Sfm1 functioning as a PRMT for ribosomal protein S3.

Structural basis for Sfm1 functioning as a protein arginine methyltransferase.,Lv F, Zhang T, Zhou Z, Gao S, Wong CC, Zhou JQ, Ding J Cell Discov. 2015 Dec 29;1:15037. doi: 10.1038/celldisc.2015.37. eCollection, 2015. PMID:27462434^[2]

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

References

↑ Young BD, Weiss DI, Zurita-Lopez CI, Webb KJ, Clarke SG, McBride AE. Identification of methylated proteins in the yeast small ribosomal subunit: a role for SPOUT methyltransferases in protein arginine methylation. Biochemistry. 2012 Jun 26;51(25):5091-104. doi: 10.1021/bi300186g. Epub 2012 Jun , 15. PMID:22650761 doi:http://dx.doi.org/10.1021/bi300186g
↑ Lv F, Zhang T, Zhou Z, Gao S, Wong CC, Zhou JQ, Ding J. Structural basis for Sfm1 functioning as a protein arginine methyltransferase. Cell Discov. 2015 Dec 29;1:15037. doi: 10.1038/celldisc.2015.37. eCollection, 2015. PMID:27462434 doi:http://dx.doi.org/10.1038/celldisc.2015.37

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5c77"

Categories: Large Structures | Saccharomyces cerevisiae S288C | Ding J | Lv F | Zhang T

@@ Line 3: / Line 3: @@
 <StructureSection load='5c77' size='340' side='right'caption='[[5c77]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5c77]] 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=5C77 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5C77 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5c77]] 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=5C77 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5C77 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></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></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5c74|5c74]]</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=5c77 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5c77 OCA], [https://pdbe.org/5c77 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5c77 RCSB], [https://www.ebi.ac.uk/pdbsum/5c77 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5c77 ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SFM1, YOR021C, OR26.11 ([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=5c77 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5c77 OCA], [http://pdbe.org/5c77 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5c77 RCSB], [http://www.ebi.ac.uk/pdbsum/5c77 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5c77 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/SFM1_YEAST SFM1_YEAST]] S-adenosyl-L-methionine-dependent protein-arginine N-methyltransferase that monomethylates ribosomal protein S3 (RPS3) at 'Arg-146'.<ref>PMID:22650761</ref>
+[https://www.uniprot.org/uniprot/SFM1_YEAST SFM1_YEAST] S-adenosyl-L-methionine-dependent protein-arginine N-methyltransferase that monomethylates ribosomal protein S3 (RPS3) at 'Arg-146'.<ref>PMID:22650761</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 24: / Line 22: @@
 __TOC__
 </StructureSection>
-[[Category: Baker's yeast]]
 [[Category: Large Structures]]
-[[Category: Ding, J]]
+[[Category: Saccharomyces cerevisiae S288C]]
-[[Category: Lv, F]]
+[[Category: Ding J]]
-[[Category: Zhang, T]]
+[[Category: Lv F]]
-[[Category: Arginine]]
+[[Category: Zhang T]]
-[[Category: Protein arginine methyltransferase]]
-[[Category: Sah]]
-[[Category: Transferase]]
-[[Category: Yeast]]

5c77

From Proteopedia

Revision as of 06:22, 7 June 2023

A novel protein arginine methyltransferase

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox