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1pma

From Proteopedia

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[[Image:1pma.gif|left|200px]]<br /><applet load="1pma" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="1pma, resolution 3.4&Aring;" />
 
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'''PROTEASOME FROM THERMOPLASMA ACIDOPHILUM'''<br />
 
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==Overview==
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==PROTEASOME FROM THERMOPLASMA ACIDOPHILUM==
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The three-dimensional structure of the proteasome from the archaebacterium Thermoplasma acidophilum has been elucidated by x-ray crystallographic analysis by means of isomorphous replacement and cyclic averaging. The atomic model was built and refined to a crystallographic R factor of 22.1 percent. The 673-kilodalton protease complex consists of 14 copies of two different subunits, alpha and beta, forming a barrel-shaped structure of four stacked rings. The two inner rings consist of seven beta subunits each, and the two outer rings consist of seven alpha subunits each. A narrow channel controls access to the three inner compartments. The alpha 7 beta 7 beta 7 alpha 7 subunit assembly has 72-point group symmetry. The structures of the alpha and beta subunits are similar, consisting of a core of two antiparallel beta sheets that is flanked by alpha helices on both sides. The binding of a peptide aldehyde inhibitor marks the active site in the central cavity at the amino termini of the beta subunits and suggests a novel proteolytic mechanism.
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<StructureSection load='1pma' size='340' side='right'caption='[[1pma]], [[Resolution|resolution]] 3.40&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1pma]] is a 28 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoplasma_acidophilum Thermoplasma acidophilum]. The October 2013 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Proteasome'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2013_10 10.2210/rcsb_pdb/mom_2013_10]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PMA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PMA 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]] 3.4&#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=1pma FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pma OCA], [https://pdbe.org/1pma PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pma RCSB], [https://www.ebi.ac.uk/pdbsum/1pma PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pma ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/PSA_THEAC PSA_THEAC] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The T.acidophilum proteasome is able to cleave oligopeptides after Tyr, Leu, Phe, and to a lesser extent after Glu and Arg. Thus, displays chymotrypsin-like activity and low level of caspase-like and trypsin-like activities.<ref>PMID:8999862</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/pm/1pma_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=1pma 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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1PMA is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Thermoplasma_acidophilum Thermoplasma acidophilum]. Active as [http://en.wikipedia.org/wiki/Proteasome_endopeptidase_complex Proteasome endopeptidase complex], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.25.1 3.4.25.1] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PMA OCA].
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*[[Proteasome 3D structures|Proteasome 3D structures]]
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== References ==
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==Reference==
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<references/>
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Crystal structure of the 20S proteasome from the archaeon T. acidophilum at 3.4 A resolution., Lowe J, Stock D, Jap B, Zwickl P, Baumeister W, Huber R, Science. 1995 Apr 28;268(5210):533-9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=7725097 7725097]
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__TOC__
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[[Category: Proteasome endopeptidase complex]]
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</StructureSection>
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[[Category: Protein complex]]
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[[Category: Large Structures]]
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[[Category: Proteasome]]
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[[Category: RCSB PDB Molecule of the Month]]
[[Category: Thermoplasma acidophilum]]
[[Category: Thermoplasma acidophilum]]
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[[Category: Baumeister, W.]]
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[[Category: Baumeister W]]
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[[Category: Huber, R.]]
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[[Category: Huber R]]
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[[Category: Jap, B.]]
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[[Category: Jap B]]
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[[Category: Loewe, J.]]
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[[Category: Loewe J]]
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[[Category: Stock, D.]]
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[[Category: Stock D]]
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[[Category: Zwickl, P.]]
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[[Category: Zwickl P]]
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[[Category: hydrolase]]
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[[Category: protease]]
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[[Category: proteasome]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:30:13 2008''
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Current revision

PROTEASOME FROM THERMOPLASMA ACIDOPHILUM

PDB ID 1pma

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