1s4f: Difference between revisions

Revision as of 15:57, 21 February 2008

Crystal Structure of RNA-dependent RNA polymerase construct 2 from bovine viral diarrhea virus (BVDV)

OverviewOverview

The bovine viral diarrhea virus (BVDV) RNA-dependent RNA polymerase can initiate RNA replication by a de novo mechanism without a primer. The structure of BVDV polymerase, determined to 2.9-A resolution, contains a unique N-terminal domain, in addition to the fingers, palm, and thumb domains common to other polymerases. The structure of BVDV polymerase complexed with GTP, which is required for de novo (primer-independent) initiation, shows that GTP binds adjacent to the initiation NTP, suggesting that the GTP mimics a vestigial RNA product. Comparison of five monomers in two different crystal forms showed conformational changes in the fingertip region and in the thumb domain that may help to translocate the RNA template and product strands during elongation. The putative binding sites of previously reported BVDV inhibitors are also discussed.

About this StructureAbout this Structure

1S4F is a Single protein structure of sequence from Bovine viral diarrhea virus 1. Full crystallographic information is available from OCA.

ReferenceReference

The structure of the RNA-dependent RNA polymerase from bovine viral diarrhea virus establishes the role of GTP in de novo initiation., Choi KH, Groarke JM, Young DC, Kuhn RJ, Smith JL, Pevear DC, Rossmann MG, Proc Natl Acad Sci U S A. 2004 Mar 30;101(13):4425-30. Epub 2004 Mar 19. PMID:15070734

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OCA

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-[[Image:1s4f.jpg|left|200px]]<br /><applet load="1s4f" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1s4f.jpg|left|200px]]<br /><applet load="1s4f" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="1s4f, resolution 3.00&Aring;" />
 '''Crystal Structure of RNA-dependent RNA polymerase construct 2 from bovine viral diarrhea virus (BVDV)'''<br />
 ==Overview==
-The bovine viral diarrhea virus (BVDV) RNA-dependent RNA polymerase can, initiate RNA replication by a de novo mechanism without a primer. The, structure of BVDV polymerase, determined to 2.9-A resolution, contains a, unique N-terminal domain, in addition to the fingers, palm, and thumb, domains common to other polymerases. The structure of BVDV polymerase, complexed with GTP, which is required for de novo (primer-independent), initiation, shows that GTP binds adjacent to the initiation NTP, suggesting that the GTP mimics a vestigial RNA product. Comparison of five, monomers in two different crystal forms showed conformational changes in, the fingertip region and in the thumb domain that may help to translocate, the RNA template and product strands during elongation. The putative, binding sites of previously reported BVDV inhibitors are also discussed.
+The bovine viral diarrhea virus (BVDV) RNA-dependent RNA polymerase can initiate RNA replication by a de novo mechanism without a primer. The structure of BVDV polymerase, determined to 2.9-A resolution, contains a unique N-terminal domain, in addition to the fingers, palm, and thumb domains common to other polymerases. The structure of BVDV polymerase complexed with GTP, which is required for de novo (primer-independent) initiation, shows that GTP binds adjacent to the initiation NTP, suggesting that the GTP mimics a vestigial RNA product. Comparison of five monomers in two different crystal forms showed conformational changes in the fingertip region and in the thumb domain that may help to translocate the RNA template and product strands during elongation. The putative binding sites of previously reported BVDV inhibitors are also discussed.
 ==About this Structure==
-S4F is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bovine_viral_diarrhea_virus_1 Bovine viral diarrhea virus 1]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1S4F OCA].
+S4F is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bovine_viral_diarrhea_virus_1 Bovine viral diarrhea virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S4F OCA].
 ==Reference==
@@ Line 13: / Line 13: @@
 [[Category: Bovine viral diarrhea virus 1]]
 [[Category: Single protein]]
-[[Category: Choi, K.H.]]
+[[Category: Choi, K H.]]
-[[Category: Groarke, J.M.]]
+[[Category: Groarke, J M.]]
-[[Category: Kuhn, R.J.]]
+[[Category: Kuhn, R J.]]
-[[Category: Pevear, D.C.]]
+[[Category: Pevear, D C.]]
-[[Category: Rossmann, M.G.]]
+[[Category: Rossmann, M G.]]
-[[Category: Smith, J.L.]]
+[[Category: Smith, J L.]]
-[[Category: Young, D.C.]]
+[[Category: Young, D C.]]
 [[Category: bovine viral diarrhea virus]]
 [[Category: bvdv]]
@@ Line 27: / Line 27: @@
 [[Category: rna synthesis]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 02:05:36 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:57:49 2008''