1s4b: Difference between revisions

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New page: left|200px<br /> <applet load="1s4b" size="450" color="white" frame="true" align="right" spinBox="true" caption="1s4b, resolution 2.00Å" /> '''Crystal structure o...
 
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[[Image:1s4b.gif|left|200px]]<br />
<applet load="1s4b" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1s4b, resolution 2.00&Aring;" />
'''Crystal structure of human thimet oligopeptidase.'''<br />


==Overview==
==Crystal structure of human thimet oligopeptidase.==
Thimet oligopeptidase (TOP) is a zinc metallopeptidase that metabolizes a, number of bioactive peptides and degrades peptides released by the, proteasome, limiting antigenic presentation by MHC class I molecules. We, present the crystal structure of human TOP at 2.0-A resolution. The active, site is located at the base of a deep channel that runs the length of the, elongated molecule, an overall fold first seen in the closely related, metallopeptidase neurolysin. Comparison of the two related structures, indicates hinge-like flexibility and identifies elements near one end of, the channel that adopt different conformations. Relatively few of the, sequence differences between TOP and neurolysin map to the proposed, substrate-binding site, and four of these variable residues may account, for differences in substrate specificity. In addition, a loop segment, (residues 599-611) in TOP differs in conformation and degree of order from, the corresponding neurolysin loop, suggesting it may also play a role in, activity differences. Cysteines thought to mediate covalent, oligomerization of rat TOP, which can inactivate the enzyme, are found to, be surface-accessible in the human enzyme, and additional cysteines, (residues 321,350, and 644) may also mediate multimerization in the human, homolog. Disorder in the N terminus of TOP indicates it may be involved in, subcellular localization, but a potential nuclear import element is found, to be part of a helix and, therefore, unlikely to be involved in, transport. A large acidic patch on the surface could potentially mediate a, protein-protein interaction, possibly through formation of a covalent, linkage.
<StructureSection load='1s4b' size='340' side='right'caption='[[1s4b]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1s4b]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S4B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S4B FirstGlance]. <br>
1S4B is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with ZN as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Thimet_oligopeptidase Thimet oligopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.15 3.4.24.15] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1S4B OCA].
</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&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1s4b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s4b OCA], [https://pdbe.org/1s4b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s4b RCSB], [https://www.ebi.ac.uk/pdbsum/1s4b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s4b ProSAT]</span></td></tr>
Crystal structure of human thimet oligopeptidase provides insight into substrate recognition, regulation, and localization., Ray K, Hines CS, Coll-Rodriguez J, Rodgers DW, J Biol Chem. 2004 May 7;279(19):20480-9. Epub 2004 Mar 3. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=14998993 14998993]
</table>
== Function ==
[https://www.uniprot.org/uniprot/THOP1_HUMAN THOP1_HUMAN] Involved in the metabolism of neuropeptides under 20 amino acid residues long. Involved in cytoplasmic peptide degradation. Able to degrade the beta-amyloid precursor protein and generate amyloidogenic fragments.
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/s4/1s4b_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</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=1s4b ConSurf].
<div style="clear:both"></div>
__TOC__
</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Thimet oligopeptidase]]
[[Category: Coll-Rodriguez J]]
[[Category: Coll-Rodriguez, J.]]
[[Category: Hines CS]]
[[Category: Hines, C.S.]]
[[Category: Ray K]]
[[Category: Ray, K.]]
[[Category: Rodgers DW]]
[[Category: Rodgers, D.W.]]
[[Category: ZN]]
[[Category: zinc metallopeptidase domain]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 19:10:23 2007''

Latest revision as of 11:28, 14 February 2024

Crystal structure of human thimet oligopeptidase.Crystal structure of human thimet oligopeptidase.

Structural highlights

1s4b is a 1 chain structure with sequence from Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

THOP1_HUMAN Involved in the metabolism of neuropeptides under 20 amino acid residues long. Involved in cytoplasmic peptide degradation. Able to degrade the beta-amyloid precursor protein and generate amyloidogenic fragments.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

1s4b, resolution 2.00Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA
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