1hru: Difference between revisions

← Older edit Newer edit →

Revision as of 06:53, 26 March 2008

File:1hru.gif

, resolution 2.00Å

Ligands:

,

Gene:

YRDC (Escherichia coli)

Domains:

PRK10634

Resources:

FirstGlance, OCA, PDBsum, JenaLib, RCSB

Coordinates:

save as pdb, mmCIF, xml

THE STRUCTURE OF THE YRDC GENE PRODUCT FROM E.COLI

OverviewOverview

The yrdC family of genes codes for proteins that occur both independently and as a domain in proteins that have been implicated in regulation. An example for the latter case is the sua5 gene from yeast. SuaS was identified as a suppressor of a translation initiation defect in cytochrome c and is required for normal growth in yeast (Na JG, Pinto I, Hampsey M, 1992, Genetics 11:791-801). However, the function of the Sua5 protein remains unknown; Sua5 could act either at the transcriptional or the posttranscriptional levels to compensate for an aberrant translation start codon in the cyc gene. To potentially learn more about the function of YrdC and proteins featuring this domain, the crystal structure of the YrdC protein from Escherichia coli was determined at a resolution of 2.0 A. YrdC adopts a new fold with no obvious similarity to those of other proteins with known three-dimensional (3D) structure. The protein features a large concave surface on one side that exhibits a positive electrostatic potential. The dimensions of this depression, its curvature, and the fact that conserved basic amino acids are located at its floor suggest that YrdC may be a nucleic acid binding protein. An investigation of YrdC's binding affinities for single- and double-stranded RNA and DNA fragments as well as tRNAs demonstrates that YrdC binds preferentially to double-stranded RNA. Our work provides evidence that 3D structures of functionally uncharacterized gene products with unique sequences can yield novel folds and functional insights.

About this StructureAbout this Structure

1HRU is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.

ReferenceReference

The structure of the yrdC gene product from Escherichia coli reveals a new fold and suggests a role in RNA binding., Teplova M, Tereshko V, Sanishvili R, Joachimiak A, Bushueva T, Anderson WF, Egli M, Protein Sci. 2000 Dec;9(12):2557-66. PMID:11206077

Page seeded by OCA on Wed Mar 26 05:53:13 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 4: / Line 4: @@
 |PDB= 1hru |SIZE=350|CAPTION= <scene name='initialview01'>1hru</scene>, resolution 2.00&Aring;
 |SITE=
-|LIGAND= <scene name='pdbligand=PO4:PHOSPHATE ION'>PO4</scene>
+|LIGAND= <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>
 |ACTIVITY=
 |GENE= YRDC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])
+|DOMAIN=<span class='plainlinks'>[http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PRK10634 PRK10634]</span>
+|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1hru FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1hru OCA], [http://www.ebi.ac.uk/pdbsum/1hru PDBsum], [http://www.fli-leibniz.de/cgi-bin/ImgLib.pl?CODE=1kfv JenaLib], [http://www.rcsb.org/pdb/explore.do?structureId=1hru RCSB]</span>
 }}
@@ Line 30: / Line 32: @@
 [[Category: Teplova, M.]]
 [[Category: Tereshko, V.]]
-[[Category: PO4]]
 [[Category: mcsg]]
 [[Category: midwest center for structural genomic]]
@@ Line 41: / Line 42: @@
 [[Category: yrdc]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 11:40:51 2008''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 26 05:53:13 2008''