1gik

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[[Image:1gik.gif|left|200px]]
 
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{{Structure
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==POKEWEED ANTIVIRAL PROTEIN FROM SEEDS==
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|PDB= 1gik |SIZE=350|CAPTION= <scene name='initialview01'>1gik</scene>, resolution 1.80&Aring;
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<StructureSection load='1gik' size='340' side='right'caption='[[1gik]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene> and <scene name='pdbligand=NDG:2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE'>NDG</scene>
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<table><tr><td colspan='2'>[[1gik]] 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=1GIK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GIK FirstGlance]. <br>
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|ACTIVITY= [http://en.wikipedia.org/wiki/rRNA_N-glycosylase rRNA N-glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.22 3.2.2.22]
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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]] 1.8&#8491;</td></tr>
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|GENE=
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
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}}
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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=1gik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gik OCA], [https://pdbe.org/1gik PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gik RCSB], [https://www.ebi.ac.uk/pdbsum/1gik PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gik ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RIPS_PHYAM RIPS_PHYAM] Inhibits viral infection of plants, and protein synthesis in vitro.
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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/gi/1gik_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=1gik 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 structure of pokeweed antiviral protein from seeds of Phytolacca americana (PAP-S) was solved at 1.8A. PAP-S is a one-chain ribosome-inactivating protein (RIP) and distinctively contains three well-defined N-acetylglucosamines, each covalently linked to an asparagine residue at positions, 10, 44, and 255, respectively. The high-resolution structure clearly shows the three mono-sugars to have either an alpha- or a beta-conformation. Two of sugars are located on the same side of the molecule with the active pocket. Except one hydrogen bond, there are no intermolecular interactions between the polypeptide chain and the sugars. Instead the sugar conformations appear to be stabilized by intermolecular interactions. The sugar structure defined at high resolution provides a structural basis for understanding their possible biological activity. The structural comparisons of PAP-S with other PAPs reveal that the major disparity of these homologous molecules is the different charge distribution on the upper right side of the front side near the active pocket. Based on the available structure of the 50S ribosomal subunit, the possible interactions between PAPs and the ribosome are discussed.
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'''POKEWEED ANTIVIRAL PROTEIN FROM SEEDS'''
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Crystal structure of pokeweed antiviral protein with well-defined sugars from seeds at 1.8A resolution.,Zeng ZH, He XL, Li HM, Hu Z, Wang DC J Struct Biol. 2003 Feb;141(2):171-8. PMID:12615543<ref>PMID:12615543</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 1gik" style="background-color:#fffaf0;"></div>
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==Overview==
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==See Also==
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The crystal structure of pokeweed antiviral protein from seeds of Phytolacca americana (PAP-S) was solved at 1.8A. PAP-S is a one-chain ribosome-inactivating protein (RIP) and distinctively contains three well-defined N-acetylglucosamines, each covalently linked to an asparagine residue at positions, 10, 44, and 255, respectively. The high-resolution structure clearly shows the three mono-sugars to have either an alpha- or a beta-conformation. Two of sugars are located on the same side of the molecule with the active pocket. Except one hydrogen bond, there are no intermolecular interactions between the polypeptide chain and the sugars. Instead the sugar conformations appear to be stabilized by intermolecular interactions. The sugar structure defined at high resolution provides a structural basis for understanding their possible biological activity. The structural comparisons of PAP-S with other PAPs reveal that the major disparity of these homologous molecules is the different charge distribution on the upper right side of the front side near the active pocket. Based on the available structure of the 50S ribosomal subunit, the possible interactions between PAPs and the ribosome are discussed.
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*[[Ribosome inactivating protein 3D structures|Ribosome inactivating protein 3D structures]]
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== References ==
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==About this Structure==
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<references/>
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1GIK is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Phytolacca_americana Phytolacca americana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GIK OCA].
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__TOC__
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</StructureSection>
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==Reference==
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[[Category: Large Structures]]
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Crystal structure of pokeweed antiviral protein with well-defined sugars from seeds at 1.8A resolution., Zeng ZH, He XL, Li HM, Hu Z, Wang DC, J Struct Biol. 2003 Feb;141(2):171-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12615543 12615543]
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[[Category: Phytolacca americana]]
[[Category: Phytolacca americana]]
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[[Category: Single protein]]
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[[Category: He XL]]
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[[Category: rRNA N-glycosylase]]
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[[Category: Hu Z]]
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[[Category: He, X L.]]
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[[Category: Li HM]]
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[[Category: Hu, Z.]]
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[[Category: Wang DC]]
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[[Category: Li, H M.]]
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[[Category: Zeng ZH]]
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[[Category: Wang, D C.]]
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[[Category: Zeng, Z H.]]
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[[Category: NAG]]
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[[Category: NDG]]
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[[Category: alpha+beta]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 11:23:33 2008''
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Current revision

POKEWEED ANTIVIRAL PROTEIN FROM SEEDS

PDB ID 1gik

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