We apologize for Proteopedia being slow to respond. For the past two years, a new implementation of Proteopedia has been being built. Soon, it will replace this 18-year old system. All existing content will be moved to the new system at a date that will be announced here.
1vc7
From Proteopedia
(Difference between revisions)
proteopedia linkproteopedia link
|
|
| (8 intermediate revisions not shown.) |
| Line 1: |
Line 1: |
| - | [[Image:1vc7.gif|left|200px]] | + | #REDIRECT [[4prf]] This PDB entry is obsolete and replaced by 4prf |
| - | | + | |
| - | {{Structure
| + | |
| - | |PDB= 1vc7 |SIZE=350|CAPTION= <scene name='initialview01'>1vc7</scene>, resolution 2.45Å
| + | |
| - | |SITE=
| + | |
| - | |LIGAND= <scene name='pdbligand=SR:STRONTIUM ION'>SR</scene>
| + | |
| - | |ACTIVITY=
| + | |
| - | |GENE=
| + | |
| - | }}
| + | |
| - | | + | |
| - | '''Crystal Structure of the Hepatitis Delta Virus Gemonic Ribozyme Precursor, with C75U mutaion, in Sr2+ solution'''
| + | |
| - | | + | |
| - | | + | |
| - | ==Overview==
| + | |
| - | Ribozymes enhance chemical reaction rates using many of the same catalytic strategies as protein enzymes. In the hepatitis delta virus (HDV) ribozyme, site-specific self-cleavage of the viral RNA phosphodiester backbone requires both divalent cations and a cytidine nucleotide. General acid-base catalysis, substrate destabilization and global and local conformational changes have all been proposed to contribute to the ribozyme catalytic mechanism. Here we report ten crystal structures of the HDV ribozyme in its pre-cleaved state, showing that cytidine is positioned to activate the 2'-OH nucleophile in the precursor structure. This observation supports its proposed role as a general base in the reaction mechanism. Comparison of crystal structures of the ribozyme in the pre- and post-cleavage states reveals a significant conformational change in the RNA after cleavage and that a catalytically critical divalent metal ion from the active site is ejected. The HDV ribozyme has remarkable chemical similarity to protein ribonucleases and to zymogens for which conformational dynamics are integral to biological activity. This finding implies that RNA structural rearrangements control the reactivity of ribozymes and ribonucleoprotein enzymes.
| + | |
| - | | + | |
| - | ==About this Structure==
| + | |
| - | 1VC7 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VC7 OCA].
| + | |
| - | | + | |
| - | ==Reference==
| + | |
| - | A conformational switch controls hepatitis delta virus ribozyme catalysis., Ke A, Zhou K, Ding F, Cate JH, Doudna JA, Nature. 2004 May 13;429(6988):201-5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15141216 15141216]
| + | |
| - | [[Category: Homo sapiens]]
| + | |
| - | [[Category: Single protein]]
| + | |
| - | [[Category: Cate, J H.D.]]
| + | |
| - | [[Category: Ding, F.]]
| + | |
| - | [[Category: Doudna, J A.]]
| + | |
| - | [[Category: Ke, A.]]
| + | |
| - | [[Category: Zhou, K.]]
| + | |
| - | [[Category: SR]]
| + | |
| - | [[Category: hdv]]
| + | |
| - | [[Category: precursor]]
| + | |
| - | [[Category: ribozyme]]
| + | |
| - | [[Category: rna]]
| + | |
| - | [[Category: u1a]]
| + | |
| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 14:43:36 2008''
| + | |
Current revision
- REDIRECT 4prf This PDB entry is obsolete and replaced by 4prf
