1v9f: Difference between revisions

Revision as of 16:33, 21 February 2008

Crystal structure of catalytic domain of pseudouridine synthase RluD from Escherichia coli

OverviewOverview

The most frequent modification of RNA, the conversion of uridine bases to pseudouridines, is found in all living organisms and often in highly conserved locations in ribosomal and transfer RNA. RluC and RluD are homologous enzymes which each convert three specific uridine bases in Escherichia coli ribosomal 23S RNA to pseudouridine: bases 955, 2504, and 2580 in the case of RluC and 1911, 1915, and 1917 in the case of RluD. Both have an N-terminal S4 RNA binding domain. While the loss of RluC has little phenotypic effect, loss of RluD results in a much reduced growth rate. We have determined the crystal structures of the catalytic domain of RluC, and full-length RluD. The S4 domain of RluD appears to be highly flexible or unfolded and is completely invisible in the electron density map. Despite the conserved topology shared by the two proteins, the surface shape and charge distribution are very different. The models suggest significant differences in substrate binding by different pseudouridine synthases.

About this StructureAbout this Structure

1V9F is a Single protein structure of sequence from Escherichia coli with as ligand. Active as Pseudouridylate synthase, with EC number 4.2.1.70 Full crystallographic information is available from OCA.

ReferenceReference

Crystal structures of the catalytic domains of pseudouridine synthases RluC and RluD from Escherichia coli., Mizutani K, Machida Y, Unzai S, Park SY, Tame JR, Biochemistry. 2004 Apr 20;43(15):4454-63. PMID:15078091

Page seeded by OCA on Thu Feb 21 15:32:53 2008

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OCA

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-[[Image:1v9f.jpg|left|200px]]<br /><applet load="1v9f" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1v9f.jpg|left|200px]]<br /><applet load="1v9f" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="1v9f, resolution 1.70&Aring;" />
 '''Crystal structure of catalytic domain of pseudouridine synthase RluD from Escherichia coli'''<br />
 ==Overview==
-The most frequent modification of RNA, the conversion of uridine bases to, pseudouridines, is found in all living organisms and often in highly, conserved locations in ribosomal and transfer RNA. RluC and RluD are, homologous enzymes which each convert three specific uridine bases in, Escherichia coli ribosomal 23S RNA to pseudouridine: bases 955, 2504, and, 2580 in the case of RluC and 1911, 1915, and 1917 in the case of RluD., Both have an N-terminal S4 RNA binding domain. While the loss of RluC has, little phenotypic effect, loss of RluD results in a much reduced growth, rate. We have determined the crystal structures of the catalytic domain of, RluC, and full-length RluD. The S4 domain of RluD appears to be highly, flexible or unfolded and is completely invisible in the electron density, map. Despite the conserved topology shared by the two proteins, the, surface shape and charge distribution are very different. The models, suggest significant differences in substrate binding by different, pseudouridine synthases.
+The most frequent modification of RNA, the conversion of uridine bases to pseudouridines, is found in all living organisms and often in highly conserved locations in ribosomal and transfer RNA. RluC and RluD are homologous enzymes which each convert three specific uridine bases in Escherichia coli ribosomal 23S RNA to pseudouridine: bases 955, 2504, and 2580 in the case of RluC and 1911, 1915, and 1917 in the case of RluD. Both have an N-terminal S4 RNA binding domain. While the loss of RluC has little phenotypic effect, loss of RluD results in a much reduced growth rate. We have determined the crystal structures of the catalytic domain of RluC, and full-length RluD. The S4 domain of RluD appears to be highly flexible or unfolded and is completely invisible in the electron density map. Despite the conserved topology shared by the two proteins, the surface shape and charge distribution are very different. The models suggest significant differences in substrate binding by different pseudouridine synthases.
 ==About this Structure==
-V9F is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with PO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Pseudouridylate_synthase Pseudouridylate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.70 4.2.1.70] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1V9F OCA].
+V9F is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with <scene name='pdbligand=PO4:'>PO4</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Pseudouridylate_synthase Pseudouridylate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.70 4.2.1.70] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V9F OCA].
 ==Reference==
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 [[Category: Machida, Y.]]
 [[Category: Mizutani, K.]]
-[[Category: Park, S.Y.]]
+[[Category: Park, S Y.]]
-[[Category: Tame, J.R.H.]]
+[[Category: Tame, J R.H.]]
 [[Category: Unzai, S.]]
 [[Category: PO4]]
@@ Line 23: / Line 23: @@
 [[Category: rna binding]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 04:31:25 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 15:32:53 2008''