|
|
| (One intermediate revision not shown.) |
| Line 1: |
Line 1: |
| | | | |
| | ==NMR solution structure of TcUBP1, a single RBD-unit from Trypanosoma cruzi== | | ==NMR solution structure of TcUBP1, a single RBD-unit from Trypanosoma cruzi== |
| - | <StructureSection load='1u6f' size='340' side='right'caption='[[1u6f]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''> | + | <StructureSection load='1u6f' size='340' side='right'caption='[[1u6f]]' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[1u6f]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Trycr Trycr]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1U6F OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1U6F FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[1u6f]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1U6F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1U6F FirstGlance]. <br> |
| - | </td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Tcubp-1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5693 TRYCR])</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://proteopedia.org/fgij/fg.htm?mol=1u6f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1u6f OCA], [http://pdbe.org/1u6f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1u6f RCSB], [http://www.ebi.ac.uk/pdbsum/1u6f PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1u6f 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=1u6f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1u6f OCA], [https://pdbe.org/1u6f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1u6f RCSB], [https://www.ebi.ac.uk/pdbsum/1u6f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1u6f ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q967R0_TRYCR Q967R0_TRYCR] |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
| Line 31: |
Line 33: |
| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Trycr]] | + | [[Category: Trypanosoma cruzi]] |
| - | [[Category: Frasch, A]] | + | [[Category: D'orso I]] |
| - | [[Category: Gehring, K]]
| + | [[Category: Frasch A]] |
| - | [[Category: Volpon, L]]
| + | [[Category: Gehring K]] |
| - | [[Category: Orso, I D]]
| + | [[Category: Volpon L]] |
| - | [[Category: Gu-rich rna]] | + | |
| - | [[Category: Mrna-binding protein]] | + | |
| - | [[Category: Rna binding protein]] | + | |
| - | [[Category: Tcubp1]]
| + | |
| - | [[Category: Trypanosome]]
| + | |
| Structural highlights
Function
Q967R0_TRYCR
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
TcUBP1 is a trypanosome cytoplasmic RNA-binding protein containing a single, conserved RNA-recognition motif (RRM) domain involved in selective destabilization of U-rich mRNAs such as the Trypanosoma cruzi small mucin gene family mRNA, TcSMUG. TcUBP1 binds specific transcripts in vivo and co-localizes in the perinuclear part of the cell with components of the mRNA-stability determinant pathway such as poly(A)-binding protein 1 (PABP1) and TcUBP2, a closely related RRM-containing protein. In TcUBP proteins, the RRM domain is flanked by N-terminal Gln-rich and C-terminal Gly-Gln-rich extensions, which are involved in protein-protein interactions. In this work, we determined the solution structure of the TcUBP1 RRM domain by nuclear magnetic resonance (NMR) spectroscopy. The domain has a characteristic betaalphabetabetaalphabeta fold, consisting of a beta sheet composed of four antiparallel betastrands and two alpha helices packed against one face of the beta sheet. A unique aspect of TcUBP1 is the participation of a beta hairpin (beta4-beta5) in the beta sheet, resulting in an enlarged RNA-binding surface. Detailed analysis of the TcUBP1 interaction with a short single-stranded RNA derived from the 3' UTR of TcSMUG was carried out by titration experiments using both NMR spectroscopy and isothermal titration calorimetry. This analysis revealed that amino acids located within the beta hairpin (beta4-beta5) contribute to complex formation. This enlarged protein-RNA interface could compensate for the lack of additional RNA-binding domains in TcUBP1, as observed in many other RRM-containing proteins. The structure of TcUBP1 reveals new aspects of single RRM-RNA interactions and insight into how N- and C-terminal extensions can contribute to RNA binding.
NMR structural study of TcUBP1, a single RRM domain protein from Trypanosoma cruzi: contribution of a beta hairpin to RNA binding.,Volpon L, D'Orso I, Young CR, Frasch AC, Gehring K Biochemistry. 2005 Mar 15;44(10):3708-17. PMID:15751947[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Volpon L, D'Orso I, Young CR, Frasch AC, Gehring K. NMR structural study of TcUBP1, a single RRM domain protein from Trypanosoma cruzi: contribution of a beta hairpin to RNA binding. Biochemistry. 2005 Mar 15;44(10):3708-17. PMID:15751947 doi:10.1021/bi047450e
|
