1o0f

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(New page: 200px<br /><applet load="1o0f" size="450" color="white" frame="true" align="right" spinBox="true" caption="1o0f, resolution 1.50&Aring;" /> '''RNASE A in complex w...)
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[[Image:1o0f.gif|left|200px]]<br /><applet load="1o0f" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1o0f, resolution 1.50&Aring;" />
 
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'''RNASE A in complex with 3',5'-ADP'''<br />
 
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==Overview==
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==RNASE A in complex with 3',5'-ADP==
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The crystal structures of bovine pancreatic ribonuclease A (RNase A) in, complex with 3',5'-ADP, 2',5'-ADP, 5'-ADP, U-2'-p and U-3'-p have been, determined at high resolution. The structures reveal that each inhibitor, binds differently in the RNase A active site by anchoring a phosphate, group in subsite P1. The most potent inhibitor of all five, 5'-ADP (Ki =, 1.2 microM), adopts a syn conformation (in contrast to 3',5'-ADP and, 2',5'-ADP, which adopt an anti), and it is the beta- rather than the, alpha-phosphate group that binds to P1. 3',5'-ADP binds with the, 5'-phosphate group in P1 and the adenosine in the B2 pocket. Two different, binding modes are observed in the two RNase A molecules of the asymmetric, unit for 2',5'-ADP. This inhibitor binds with either the 3' or the 5', phosphate groups in subsite P1, and in each case, the adenosine binds in, two different positions within the B2 subsite. The two uridilyl inhibitors, bind similarly with the uridine moiety in the B1 subsite but the placement, of a different phosphate group in P1 (2' versus 3') has significant, implications on their potency against RNase A. Comparative structural, analysis of the RNase A, eosinophil-derived neurotoxin (EDN), eosinophil, cationic protein (ECP), and human angiogenin (Ang) complexes with these, and other phosphonucleotide inhibitors provides a wealth of information, for structure-based design of inhibitors specific for each RNase. These, inhibitors could be developed to therapeutic agents that could control the, biological activities of EDN, ECP, and ANG, which play key roles in human, pathologies.
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<StructureSection load='1o0f' size='340' side='right'caption='[[1o0f]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1o0f]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1O0F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1O0F FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A3P:ADENOSINE-3-5-DIPHOSPHATE'>A3P</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1o0f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o0f OCA], [https://pdbe.org/1o0f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1o0f RCSB], [https://www.ebi.ac.uk/pdbsum/1o0f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1o0f ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RNAS1_BOVIN RNAS1_BOVIN] Endonuclease that catalyzes the cleavage of RNA on the 3' side of pyrimidine nucleotides. Acts on single stranded and double stranded RNA.<ref>PMID:7479688</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/o0/1o0f_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1o0f ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The crystal structures of bovine pancreatic ribonuclease A (RNase A) in complex with 3',5'-ADP, 2',5'-ADP, 5'-ADP, U-2'-p and U-3'-p have been determined at high resolution. The structures reveal that each inhibitor binds differently in the RNase A active site by anchoring a phosphate group in subsite P1. The most potent inhibitor of all five, 5'-ADP (Ki = 1.2 microM), adopts a syn conformation (in contrast to 3',5'-ADP and 2',5'-ADP, which adopt an anti), and it is the beta- rather than the alpha-phosphate group that binds to P1. 3',5'-ADP binds with the 5'-phosphate group in P1 and the adenosine in the B2 pocket. Two different binding modes are observed in the two RNase A molecules of the asymmetric unit for 2',5'-ADP. This inhibitor binds with either the 3' or the 5' phosphate groups in subsite P1, and in each case, the adenosine binds in two different positions within the B2 subsite. The two uridilyl inhibitors bind similarly with the uridine moiety in the B1 subsite but the placement of a different phosphate group in P1 (2' versus 3') has significant implications on their potency against RNase A. Comparative structural analysis of the RNase A, eosinophil-derived neurotoxin (EDN), eosinophil cationic protein (ECP), and human angiogenin (Ang) complexes with these and other phosphonucleotide inhibitors provides a wealth of information for structure-based design of inhibitors specific for each RNase. These inhibitors could be developed to therapeutic agents that could control the biological activities of EDN, ECP, and ANG, which play key roles in human pathologies.
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==About this Structure==
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High-resolution crystal structures of ribonuclease A complexed with adenylic and uridylic nucleotide inhibitors. Implications for structure-based design of ribonucleolytic inhibitors.,Leonidas DD, Chavali GB, Oikonomakos NG, Chrysina ED, Kosmopoulou MN, Vlassi M, Frankling C, Acharya KR Protein Sci. 2003 Nov;12(11):2559-74. PMID:14573867<ref>PMID:14573867</ref>
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1O0F is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus] with A3P as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Pancreatic_ribonuclease Pancreatic ribonuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.27.5 3.1.27.5] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1O0F OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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High-resolution crystal structures of ribonuclease A complexed with adenylic and uridylic nucleotide inhibitors. Implications for structure-based design of ribonucleolytic inhibitors., Leonidas DD, Chavali GB, Oikonomakos NG, Chrysina ED, Kosmopoulou MN, Vlassi M, Frankling C, Acharya KR, Protein Sci. 2003 Nov;12(11):2559-74. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=14573867 14573867]
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</div>
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[[Category: Bos taurus]]
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<div class="pdbe-citations 1o0f" style="background-color:#fffaf0;"></div>
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[[Category: Pancreatic ribonuclease]]
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[[Category: Single protein]]
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[[Category: Chrysina, E.D.]]
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[[Category: Kosmopoulou, M.N.]]
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[[Category: Leonidas, D.D.]]
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[[Category: Oikonomakos, N.G.]]
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[[Category: Vlassi, M.]]
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[[Category: A3P]]
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[[Category: hydrolase]]
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[[Category: ribonuclease]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 22:42:24 2007''
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==See Also==
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*[[Ribonuclease 3D structures|Ribonuclease 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Bos taurus]]
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[[Category: Large Structures]]
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[[Category: Chrysina ED]]
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[[Category: Kosmopoulou MN]]
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[[Category: Leonidas DD]]
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[[Category: Oikonomakos NG]]
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[[Category: Vlassi M]]

Current revision

RNASE A in complex with 3',5'-ADP

PDB ID 1o0f

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