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.
422d
From Proteopedia
| Line 1: | Line 1: | ||
| - | [[Image:422d.gif|left|200px]] | + | [[Image:422d.gif|left|200px]] |
| - | + | ||
| - | '''5'-R(*GP*AP*UP*CP*AP*CP*UP*UP*CP*GP*GP*U)-3'''' | + | {{Structure |
| + | |PDB= 422d |SIZE=350|CAPTION= <scene name='initialview01'>422d</scene>, resolution 2.60Å | ||
| + | |SITE= | ||
| + | |LIGAND= | ||
| + | |ACTIVITY= | ||
| + | |GENE= | ||
| + | }} | ||
| + | |||
| + | '''5'-R(*GP*AP*UP*CP*AP*CP*UP*UP*CP*GP*GP*U)-3'''' | ||
| + | |||
==Overview== | ==Overview== | ||
| Line 7: | Line 16: | ||
==About this Structure== | ==About this Structure== | ||
| - | 422D is a [ | + | 422D is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=422D OCA]. |
==Reference== | ==Reference== | ||
| - | Structure of the dodecamer r(GAUCACUUCGGU) with four 5'-overhang nucleotides., Eswaramoorthy S, Rao ST, Pan B, Sundaralingam M, Acta Crystallogr D Biol Crystallogr. 2004 Jan;60(Pt 1):8-12. Epub 2003 Dec, 18. PMID:[http:// | + | Structure of the dodecamer r(GAUCACUUCGGU) with four 5'-overhang nucleotides., Eswaramoorthy S, Rao ST, Pan B, Sundaralingam M, Acta Crystallogr D Biol Crystallogr. 2004 Jan;60(Pt 1):8-12. Epub 2003 Dec, 18. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/14684886 14684886] |
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Eswaramoorthy, S.]] | [[Category: Eswaramoorthy, S.]] | ||
| Line 17: | Line 26: | ||
[[Category: double helix]] | [[Category: double helix]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 19:08:06 2008'' |
Revision as of 17:08, 20 March 2008
| |||||||
| , resolution 2.60Å | |||||||
|---|---|---|---|---|---|---|---|
| Coordinates: | save as pdb, mmCIF, xml | ||||||
5'-R(*GP*AP*UP*CP*AP*CP*UP*UP*CP*GP*GP*U)-3'
Overview
The crystal structure of an RNA dodecamer, r(GAUCACUUCGGU), was solved at 2.6 A resolution by the molecular-replacement method and refined to an R(work) of 18.8% (R(free) = 22.8%) using 2494 reflections. The dodecamer crystallized in the monoclinic space group C2, with unit-cell parameters a = 71.34, b = 39.98, c = 32.47 A, beta = 104.7 degrees and two independent strands in the asymmetric unit. The dodecamer adopts an octamer duplex structure with four 5'-overhang residues (G1A2U3C4), which form Watson-Crick base pairs with another four 5'-overhang residues of a symmetry-related duplex. The octamer duplex (ACUUCGGU) contains at its center four mismatched base pairs flanked by two Watson-Crick base pairs. The mismatched bases form two G.U wobble base pairs at the ends and two U.C base pairs at the center, with one base-base hydrogen bond N4(C).O4(U) and a water bridge connecting the N(3) of the cytosine and uridine. The present study reinforces the concept of the stability of the conformation of UUCG in RNA double-helical structures.
About this Structure
422D is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Structure of the dodecamer r(GAUCACUUCGGU) with four 5'-overhang nucleotides., Eswaramoorthy S, Rao ST, Pan B, Sundaralingam M, Acta Crystallogr D Biol Crystallogr. 2004 Jan;60(Pt 1):8-12. Epub 2003 Dec, 18. PMID:14684886
Page seeded by OCA on Thu Mar 20 19:08:06 2008
