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1apa

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(New page: 200px<br /><applet load="1apa" size="450" color="white" frame="true" align="right" spinBox="true" caption="1apa, resolution 2.3&Aring;" /> '''X-RAY STRUCTURE OF A ...)
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[[Image:1apa.gif|left|200px]]<br /><applet load="1apa" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1apa, resolution 2.3&Aring;" />
 
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'''X-RAY STRUCTURE OF A POKEWEED ANTIVIRAL PROTEIN, CODED BY A NEW GENOMIC CLONE, AT 0.23 NM RESOLUTION. A MODEL STRUCTURE PROVIDES A SUITABLE ELECTROSTATIC FIELD FOR SUBSTRATE BINDING.'''<br />
 
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==Overview==
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==X-RAY STRUCTURE OF A POKEWEED ANTIVIRAL PROTEIN, CODED BY A NEW GENOMIC CLONE, AT 0.23 NM RESOLUTION. A MODEL STRUCTURE PROVIDES A SUITABLE ELECTROSTATIC FIELD FOR SUBSTRATE BINDING.==
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We have determined the crystal structure of alpha-pokeweed antiviral, protein, a member of ribosome-inactivating proteins, at 0.23 nm, resolution, by the molecular-replacement method. The crystals belong to, the space group P2(1)2(1)2 with unit-cell dimensions a = 4.71, b = 11.63, and c = 4.96 nm, and contain one protein molecule/asymmetric unit based on, a crystal volume/unit protein molecular mass of 2.1 x 10(-3) nm3/Da. The, crystallographic residual value was reduced to 17.2% (0.6-0.23 nm, resolution) with root-mean-square deviations in bond lengths of 1.9 pm and, bond angles of 2.2 degrees. The C alpha-C alpha distance map shows that, alpha-pokeweed antiviral protein is composed of three modules, the, N-terminal (Ala1-Leu76), the central (Tyr77-Lys185) and the C-terminal, (Tyr186-Thr266) modules. The substrate-binding site is formed as a cleft, between the central and C-terminal modules and all the active residues, exist on the central module. The electrostatic potential around the, substrate-binding site shows that the central and C-terminal module sides, of this cleft have a negatively and a positively charged region, respectively. This charge distribution in the protein seems to provide a, suitable interaction with the substrate rRNA.
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<StructureSection load='1apa' size='340' side='right'caption='[[1apa]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1apa]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Phytolacca_americana Phytolacca americana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1APA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1APA 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]] 2.3&#8491;</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=1apa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1apa OCA], [https://pdbe.org/1apa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1apa RCSB], [https://www.ebi.ac.uk/pdbsum/1apa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1apa ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RIPA_PHYAM RIPA_PHYAM] Inhibits viral infection of plants, and protein synthesis in vitro. Has also been shown to inhibit the replication of mammalian viruses. The protein may provide a means of cellular suicide upon invasion by a virus.
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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/ap/1apa_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=1apa ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1APA is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Phytolacca_americana Phytolacca americana]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1APA OCA].
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*[[Ribosome inactivating protein 3D structures|Ribosome inactivating protein 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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X-ray structure of a pokeweed antiviral protein, coded by a new genomic clone, at 0.23 nm resolution. A model structure provides a suitable electrostatic field for substrate binding., Ago H, Kataoka J, Tsuge H, Habuka N, Inagaki E, Noma M, Miyano M, Eur J Biochem. 1994 Oct 1;225(1):369-74. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=7925458 7925458]
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[[Category: Large Structures]]
[[Category: Phytolacca americana]]
[[Category: Phytolacca americana]]
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[[Category: Single protein]]
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[[Category: Ago H]]
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[[Category: Ago, H.]]
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[[Category: Habuka N]]
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[[Category: Habuka, N.]]
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[[Category: Inagaki E]]
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[[Category: Inagaki, E.]]
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[[Category: Kataoka J]]
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[[Category: Kataoka, J.]]
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[[Category: Miyano M]]
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[[Category: Miyano, M.]]
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[[Category: Noma M]]
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[[Category: Noma, M.]]
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[[Category: Tsuge H]]
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[[Category: Tsuge, H.]]
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[[Category: antiviral protein]]
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[[Category: genomic clone]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 11:01:13 2007''
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Current revision

X-RAY STRUCTURE OF A POKEWEED ANTIVIRAL PROTEIN, CODED BY A NEW GENOMIC CLONE, AT 0.23 NM RESOLUTION. A MODEL STRUCTURE PROVIDES A SUITABLE ELECTROSTATIC FIELD FOR SUBSTRATE BINDING.

PDB ID 1apa

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