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From Proteopedia
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| + | <StructureSection load="1rta" size="400" color="" spin="on" Scene= caption='Ribonuclease A (magenta) complex with thymidilic acid DNA tetramer (pink), [[1rta]]' > | ||
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| + | '''Ribonuclease''' (RNase) degrades RNA. The endonucleases cleave single or double stranded RNA and include RNase III, A, T1 H and P. Exo-RNases remove terminal nucleotide from the ends of the RNA molecule. They include RNase II D, T, PH, Polynucleotide Phosphorylase (PNPase) and oligoribonuclease (ORNase).
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| + | * '''RNase A''' cleaves C or U of single-stranded RNA (ssRNA).<br /> | ||
| + | * '''RNase BA''' is RNase from ''Bacillus amyloliquefaciens''.<br /> | ||
| + | * '''RNase D''' degrades 3'-end pre-tRNA.<br /> | ||
| + | * '''RNase H''' cleaves RNA/DNA double-strand to produce ssDNA.<br /> | ||
| + | * '''RNase I''' cleaves 3'-end of ssRNA.<br /> | ||
| + | * '''RNase II''' degrades 3'-end ssRNA.<br /> | ||
| + | * '''RNase III''' cleaves rRNA.<br /> | ||
| + | * '''RNase 5''' is known as angiogenin and is a potent stimulator of new blood vessels formation.<br /> | ||
| + | * '''RNase P''' is a ribozyme.<br /> | ||
| + | * '''RNase S''' is RNase A cleaved by subtilisin.<br /> | ||
| + | * '''RNase SA''' is RNase from ''Streptomyces auerofaciens''.<br /> | ||
| + | * '''RNase T''' is involved in RNA maturation.<br /> | ||
| + | * '''RNase T1''' cleaves 3'-end G from ssRNA.<br /> | ||
| + | * '''RNase U2''' cleaves 3'-end A from ssRNA.<br /> | ||
| + | * '''α-sarcin''' is a cytotoxic RNase which cleaves a phosphodiester bond in a conserved rRNA loop and inactivates the ribosome.<br /> | ||
| + | * '''oligoribonuclease''' is an exoribonuclease which cleaves 3'-end of viral RNA-DNA hybrid.<br /> | ||
| + | * '''Polynucleotide phosphorylase''' is a bifunctional enzyme which has exoribonuclease activity.<br /> | ||
| + | * '''Binase''' is a microbial RNase which cleaves endonucleolyticly ssRNA.<br /> | ||
| + | * '''Poly(A)-specific RNase''' cleaves exonucleolyticly the poly(A) tail.<br /> | ||
| + | For more details on RNase A see:<br /> | ||
| + | <br /> | ||
| + | *[[RNase A]] <br /> | ||
| + | *[[Ribonuclease A Catalysis]]<br /> | ||
| + | *[[RNase A Oligomers]]<br /> | ||
| + | *[[RNase A NMR]]<br /> | ||
| + | *[[User:R. Jeremy Johnson/RNaseA]]<br /> | ||
| + | *[[RNaseA Nobel Prizes]].<br /> | ||
| + | For RNase B and RNase S see [[RNaseS RNaseB]]. | ||
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| + | {{Clear}} | ||
| + | ==Active Site of Ribonuclease A== | ||
| + | Ribonuclease A cleaves RNA strands by catalyzing a transphosphorylation reaction where the 2'-OH of the ribose sugar attacks the neighboring phosphate, releasing the ribose on the the other side of the phosphate. This structure shows ribonuclease A (in blue) bound to short DNA strand composed of four thymidines (in pink). Ribonuclease binds tightly to DNA, but since DNA is missing the 2'-OH, ribonuclease does not cleave it. <scene name='Goodsell_Sandbox/Ribonuclease_catalytic_site/2'>Three amino acids</scene> are shown that are important for catalysis. The 3' carbon on the DNA is shown in red--it is the site where the 2'-OH is connected in RNA. The two histidines perform the proton transfers that are needed in the reaction, and the lysine stabilizes the intermediate that is formed as the 2'-OH attacks the phosphate. Ribonuclease cleaves RNA strands best next to cytidine and uridine nucleotides--the reason for this may be seen in a <scene name='Goodsell_Sandbox/Ribonuclease_recognition/2'>spacefilling representation</scene>. Notice that the small pyrimidine base is surrounded by protein atoms. A larger purine base would not fit well in this space.<ref>PMID:1429575</ref> | ||
| + | {{Clear}} | ||
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==Your Heading Here (maybe something like 'Structure')== | ==Your Heading Here (maybe something like 'Structure')== | ||
<StructureSection load='1stp' size='340' side='right' caption='Caption for this structure' scene=''> | <StructureSection load='1stp' size='340' side='right' caption='Caption for this structure' scene=''> | ||
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**[[2a1r]], [[3ctr]] - hParn + nucleotide<br /> | **[[2a1r]], [[3ctr]] - hParn + nucleotide<br /> | ||
| - | * | + | *RNase pop2 |
**[[4b8a]] - yRNase pop2 + cell division cycle protein 39<br /> | **[[4b8a]] - yRNase pop2 + cell division cycle protein 39<br /> | ||
**[[4b8c]] - yRNase pop2 + cell division cycle protein 39 + CCR4<br /> | **[[4b8c]] - yRNase pop2 + cell division cycle protein 39 + CCR4<br /> | ||
| - | *Other | + | *Other RNases |
**[[2zpo]] - RNase - ''Chelonia mydas''<br /> | **[[2zpo]] - RNase - ''Chelonia mydas''<br /> | ||
Current revision
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3D structures of ribonuclease
Updated on 21-December-2014
This is a sample scene created with SAT to by Group, and another to make of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.
References
- ↑ Birdsall DL, McPherson A. Crystal structure disposition of thymidylic acid tetramer in complex with ribonuclease A. J Biol Chem. 1992 Nov 5;267(31):22230-6. PMID:1429575
- ↑ Hanson, R. M., Prilusky, J., Renjian, Z., Nakane, T. and Sussman, J. L. (2013), JSmol and the Next-Generation Web-Based Representation of 3D Molecular Structure as Applied to Proteopedia. Isr. J. Chem., 53:207-216. doi:http://dx.doi.org/10.1002/ijch.201300024
- ↑ Herraez A. Biomolecules in the computer: Jmol to the rescue. Biochem Mol Biol Educ. 2006 Jul;34(4):255-61. doi: 10.1002/bmb.2006.494034042644. PMID:21638687 doi:10.1002/bmb.2006.494034042644
