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.

2e29

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

Solution structure of the GUCT domain from human ATP-dependent RNA helicase DDX50, DEAD box protein 50

Structural highlights

2e29 is a 1 chain structure with sequence from Homo sapiens. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Solution NMR
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT, TOPSAN

Function

DDX50_HUMAN

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Human RNA helicase II/Gualpha (RH-II/Gualpha) and RNA helicase II/Gubeta (RH-II/Gubeta) are paralogues that share the same domain structure, consisting of the DEAD box helicase domain (DEAD), the helicase conserved C-terminal domain (helicase_C), and the GUCT domain. The N-terminal regions of the RH-II/Gu proteins, including the DEAD domain and the helicase_C domain, unwind double-stranded RNAs. The C-terminal tail of RH-II/Gualpha, which follows the GUCT domain, folds a single RNA strand, while that of RH-II/Gubeta does not, and the GUCT domain is not essential for either the RNA helicase or foldase activity. Thus, little is known about the GUCT domain. In this study, we have determined the solution structure of the RH-II/Gubeta GUCT domain. Structural calculations using NOE-based distance restraints and residual dipolar coupling-based angular restraints yielded a well-defined structure with beta-alpha-alpha-beta-beta-alpha-beta topology in the region for K585-A659, while the Pfam HMM algorithm defined the GUCT domain as G571-E666. This structure-based domain boundary revealed false positives in the sequence homologue search using the HMM definition. A structural homology search revealed that the GUCT domain has the RRM fold, which is typically found in RNA-interacting proteins. However, it lacks the surface-exposed aromatic residues and basic residues on the beta-sheet that are important for the RNA recognition in the canonical RRM domains. In addition, the overall surface of the GUCT domain is fairly acidic, and thus the GUCT domain is unlikely to interact with RNA molecules. Instead, it may interact with proteins via its hydrophobic surface around the surface-exposed tryptophan. Proteins 2009. (c) 2008 Wiley-Liss, Inc.

Solution structure of the GUCT domain from human RNA helicase II/Gubeta reveals the RRM fold, but implausible RNA interactions.,Ohnishi S, Paakkonen K, Koshiba S, Tochio N, Sato M, Kobayashi N, Harada T, Watanabe S, Muto Y, Guntert P, Tanaka A, Kigawa T, Yokoyama S Proteins. 2008 Jul 9;74(1):133-144. PMID:18615715^[1]

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

References

↑ Ohnishi S, Paakkonen K, Koshiba S, Tochio N, Sato M, Kobayashi N, Harada T, Watanabe S, Muto Y, Guntert P, Tanaka A, Kigawa T, Yokoyama S. Solution structure of the GUCT domain from human RNA helicase II/Gubeta reveals the RRM fold, but implausible RNA interactions. Proteins. 2008 Jul 9;74(1):133-144. PMID:18615715 doi:10.1002/prot.22138

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2e29"

@@ Line 1: / Line 1: @@
 ==Solution structure of the GUCT domain from human ATP-dependent RNA helicase DDX50, DEAD box protein 50==
-<StructureSection load='2e29' size='340' side='right' caption='[[2e29]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
+<StructureSection load='2e29' size='340' side='right'caption='[[2e29]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2e29]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E29 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2E29 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2e29]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E29 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2E29 FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">DDX50 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=2e29 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e29 OCA], [http://pdbe.org/2e29 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2e29 RCSB], [http://www.ebi.ac.uk/pdbsum/2e29 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2e29 ProSAT], [http://www.topsan.org/Proteins/RSGI/2e29 TOPSAN]</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=2e29 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e29 OCA], [https://pdbe.org/2e29 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2e29 RCSB], [https://www.ebi.ac.uk/pdbsum/2e29 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2e29 ProSAT], [https://www.topsan.org/Proteins/RSGI/2e29 TOPSAN]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/DDX50_HUMAN DDX50_HUMAN]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 28: / Line 30: @@
 ==See Also==
-*[[Helicase|Helicase]]
+*[[Helicase 3D structures|Helicase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
-[[Category: Guntert, P]]
+[[Category: Large Structures]]
-[[Category: Harada, T]]
+[[Category: Guntert P]]
-[[Category: Kigawa, T]]
+[[Category: Harada T]]
-[[Category: Koshiba, S]]
+[[Category: Kigawa T]]
-[[Category: Ohnishi, S]]
+[[Category: Koshiba S]]
-[[Category: Paakkonen, K]]
+[[Category: Ohnishi S]]
-[[Category: Structural genomic]]
+[[Category: Paakkonen K]]
-[[Category: Sato, M]]
+[[Category: Sato M]]
-[[Category: Watanabe, S]]
+[[Category: Watanabe S]]
-[[Category: Yokoyama, S]]
+[[Category: Yokoyama S]]
-[[Category: Atp binding]]
-[[Category: Guct domain]]
-[[Category: Helicase]]
-[[Category: Hydrolase]]
-[[Category: National project on protein structural and functional analyse]]
-[[Category: Nppsfa]]
-[[Category: Nuclear protein]]
-[[Category: Nucleotide-binding]]
-[[Category: Rna-binding]]
-[[Category: Rsgi]]

2e29

From Proteopedia

Current revision

Solution structure of the GUCT domain from human ATP-dependent RNA helicase DDX50, DEAD box protein 50

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox