1tf9: Difference between revisions

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New page: left|200px<br /><applet load="1tf9" size="450" color="white" frame="true" align="right" spinBox="true" caption="1tf9, resolution 1.30Å" /> '''Streptomyces griseus...
 
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[[Image:1tf9.gif|left|200px]]<br /><applet load="1tf9" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1tf9, resolution 1.30&Aring;" />
'''Streptomyces griseus aminopeptidase complexed with P-Iodo-L-Phenylalanine'''<br />


==Overview==
==Streptomyces griseus aminopeptidase complexed with P-Iodo-L-Phenylalanine==
The bacterial aminopeptidase isolated from the extracellular extract of, Streptomyces griseus (SGAP) is a double-zinc exopeptidase with a high, preference for large hydrophobic amino-terminus residues. It is a monomer, of a relatively low molecular weight (30 kDa), is heat-stable, displays a, high and efficient catalytic turnover and its activity is modulated by, calcium ions. Several free amino acids were found to inhibit the activity, of SGAP in the millimolar concentration range and can therefore serve for, the study of binding of both inhibitors and reaction products. The current, study is focused on the X-ray crystallographic analysis of the SGAP, complexes with L-tryptophan and p-iodo-L-phenylalanine, both at 1.30 A, resolution. These two bulky inhibitory amino acids were found to bind to, the active site of SGAP in very similar positions and orientations. Both, of them bind to the two active-site zinc ions via their free carboxylate, group, while displacing the zinc-bound water/hydroxide that is present in, the native enzyme. Further stabilization of the binding of the amino-acid, carboxylate group is achieved by its relatively strong interactions with, the hydroxyl group of Tyr246 and the carboxylate group of Glu131. The, binding is also stabilized by three specific hydrogen bonds between the, amine group of the bound amino acid and enzyme residues Glu131, Asp160 and, Arg202. These consistent interactions confirm the key role of these, residues in the specific binding of the free amine of substrates and, products, as proposed previously. The phenyl ring of Phe219 of the enzyme, is involved in stacking interactions with the corresponding aromatic ring, of the bound affector. This interaction seems to be important for the, binding and orientation of the aromatic side chain within the specificity, pocket. These structural results correlate well with the results obtained, for the complexes of SGAP with other inhibitory amino acids and support, the general catalytic mechanism proposed for this and related enzymes.
<StructureSection load='1tf9' size='340' side='right'caption='[[1tf9]], [[Resolution|resolution]] 1.30&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1tf9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TF9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TF9 FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.3&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=PHI:IODO-PHENYLALANINE'>PHI</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1tf9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tf9 OCA], [https://pdbe.org/1tf9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1tf9 RCSB], [https://www.ebi.ac.uk/pdbsum/1tf9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1tf9 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/APX_STRGG APX_STRGG] An exopeptidase specific for larger hydrophobic amino acids (especially leucine), no cleavage occurs if the next residue is proline (PubMed:8444149).<ref>PMID:2503378</ref> <ref>PMID:8444149</ref> <ref>PMID:8665903</ref>
== 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/tf/1tf9_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=1tf9 ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1TF9 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Streptomyces_chryseus Streptomyces chryseus] with ZN, CA and PHI as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1TF9 OCA].
*[[Aminopeptidase 3D structures|Aminopeptidase 3D structures]]
 
*[[Streptomyces griseus Aminopeptidase (SGAP)|Streptomyces griseus Aminopeptidase (SGAP)]]
==Reference==
== References ==
Binding of inhibitory aromatic amino acids to Streptomyces griseus aminopeptidase., Reiland V, Gilboa R, Spungin-Bialik A, Schomburg D, Shoham Y, Blumberg S, Shoham G, Acta Crystallogr D Biol Crystallogr. 2004 Oct;60(Pt 10):1738-46. Epub 2004, Sep 23. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15388919 15388919]
<references/>
[[Category: Single protein]]
__TOC__
[[Category: Streptomyces chryseus]]
</StructureSection>
[[Category: Blumberg, S.]]
[[Category: Large Structures]]
[[Category: Gilboa, R.]]
[[Category: Streptomyces griseus]]
[[Category: Reiland, V.]]
[[Category: Blumberg S]]
[[Category: Schomburg, D.]]
[[Category: Gilboa R]]
[[Category: Shoham, G.]]
[[Category: Reiland V]]
[[Category: Shoham, Y.]]
[[Category: Schomburg D]]
[[Category: Spungin-Bialik, A.]]
[[Category: Shoham G]]
[[Category: CA]]
[[Category: Shoham Y]]
[[Category: PHI]]
[[Category: Spungin-Bialik A]]
[[Category: ZN]]
[[Category: calcium activation]]
[[Category: double-zinc metalloproteinase]]
[[Category: protein-inhibitor complex]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 03:13:05 2007''

Latest revision as of 11:40, 1 May 2024

Streptomyces griseus aminopeptidase complexed with P-Iodo-L-PhenylalanineStreptomyces griseus aminopeptidase complexed with P-Iodo-L-Phenylalanine

Structural highlights

1tf9 is a 1 chain structure with sequence from Streptomyces griseus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.3Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

APX_STRGG An exopeptidase specific for larger hydrophobic amino acids (especially leucine), no cleavage occurs if the next residue is proline (PubMed:8444149).[1] [2] [3]

Evolutionary Conservation

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

See Also

References

  1. ↑ Spungin A, Blumberg S. Streptomyces griseus aminopeptidase is a calcium-activated zinc metalloprotein. Purification and properties of the enzyme. Eur J Biochem. 1989 Aug 1;183(2):471-7. PMID:2503378 doi:10.1111/j.1432-1033.1989.tb14952.x
  2. ↑ Ben-Meir D, Spungin A, Ashkenazi R, Blumberg S. Specificity of Streptomyces griseus aminopeptidase and modulation of activity by divalent metal ion binding and substitution. Eur J Biochem. 1993 Feb 15;212(1):107-12. PMID:8444149 doi:10.1111/j.1432-1033.1993.tb17639.x
  3. ↑ Maras B, Greenblatt HM, Shoham G, Spungin-Bialik A, Blumberg S, Barra D. Aminopeptidase from Streptomyces griseus: primary structure and comparison with other zinc-containing aminopeptidases. Eur J Biochem. 1996 Mar 15;236(3):843-6. PMID:8665903 doi:10.1111/j.1432-1033.1996.00843.x

1tf9, resolution 1.30Å

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