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.


1nov

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 1: Line 1:
-
[[Image:1nov.gif|left|200px]]
+
{{Seed}}
 +
[[Image:1nov.png|left|200px]]
<!--
<!--
Line 9: Line 10:
{{STRUCTURE_1nov| PDB=1nov | SCENE= }}
{{STRUCTURE_1nov| PDB=1nov | SCENE= }}
-
'''NODAMURA VIRUS'''
+
===NODAMURA VIRUS===
-
==Overview==
+
<!--
-
Monoclinic crystals of nodamura virus (NOV) have two virus molecules per asymmetric unit. Packing analysis reveals a pseudo-rhombohedral (pseudo-C2 monoclinic) arrangement of particles in the actual P2(1) space group (a = 562.1, b = 354.1, c = 612.8 A, beta = 110.9 degrees ). The R32 symmetry is broken rotationally and translationally. The pseudo-symmetry of the unit cell results in three possible monoclinic origins and also restrains the four particles in the unit cell to similar orientations. NOV particles deviate by less than 3 degrees from the ideal orientations, causing overlap of peaks in the rotation function and the generation of peaks that were not interpretable as particle symmetry elements. The space-group ambiguity was resolved by analysing the relationship between the particle orientations determined by high-resolution rotation functions and the attenuation of peak heights in native Patterson maps. Particles were centered less than 1 A from the R32 special positions. Three different approaches were required to identify the correct particle center. Following the solutions of the rotation and translation problems, phases were computed using the coordinates of flock house virus (FHV), another member of this virus family. The phases were improved by real-space molecular averaging with a 120-fold non-crystallographic symmetry and by solvent flattening with a spherical mask. The final model for the NOV structure was built using the 3.3 A averaged map. While the overall subunit structure was very similar to that of other nodaviruses, FHV and black beetle virus, NOV showed distinct structural features near particle threefold and quasi-threefold axes and at the protein-RNA interfaces that are consistent with phenotype differences among the related viruses.
+
The line below this paragraph, {{ABSTRACT_PUBMED_15299863}}, adds the Publication Abstract to the page
 +
(as it appears on PubMed at http://www.pubmed.gov), where 15299863 is the PubMed ID number.
 +
-->
 +
{{ABSTRACT_PUBMED_15299863}}
==About this Structure==
==About this Structure==
Line 28: Line 32:
[[Category: Insect virus]]
[[Category: Insect virus]]
[[Category: Nodamura virus]]
[[Category: Nodamura virus]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 02:47:45 2008''
+
 
 +
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 23:39:29 2008''

Revision as of 20:39, 28 July 2008

Image:1nov.png

Template:STRUCTURE 1nov

NODAMURA VIRUS

Template:ABSTRACT PUBMED 15299863

About this Structure

1NOV is a Protein complex structure of sequences from Nodamura virus. Full crystallographic information is available from OCA.

Reference

Resolution of space-group ambiguity and structure determination of nodamura virus to 3.3 A resolution from pseudo-R32 (monoclinic) crystals., Zlotnick A, Natarajan P, Munshi S, Johnson JE, Acta Crystallogr D Biol Crystallogr. 1997 Nov 1;53(Pt 6):738-46. PMID:15299863

Page seeded by OCA on Mon Jul 28 23:39:29 2008

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1nov"
Personal tools