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1ds2

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[[Image:1ds2.gif|left|200px]]
 
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==CRYSTAL STRUCTURE OF SGPB:OMTKY3-COO-LEU18I==
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The line below this paragraph, containing "STRUCTURE_1ds2", creates the "Structure Box" on the page.
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<StructureSection load='1ds2' size='340' side='right'caption='[[1ds2]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1ds2]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Meleagris_gallopavo Meleagris gallopavo] and [https://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DS2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DS2 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 1.7&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1LU:(2S)-2-HYDROXY-4-METHYL-PENTANOIC+ACID'>1LU</scene></td></tr>
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{{STRUCTURE_1ds2| PDB=1ds2 | SCENE= }}
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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=1ds2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ds2 OCA], [https://pdbe.org/1ds2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ds2 RCSB], [https://www.ebi.ac.uk/pdbsum/1ds2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ds2 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/PRTB_STRGR PRTB_STRGR] Has a primary specificity for large aliphatic or aromatic amino acids.
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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/ds/1ds2_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=1ds2 ConSurf].
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<div style="clear:both"></div>
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'''CRYSTAL STRUCTURE OF SGPB:OMTKY3-COO-LEU18I'''
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==See Also==
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*[[Proteinase 3D structures|Proteinase 3D structures]]
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__TOC__
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==Overview==
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</StructureSection>
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X-ray crystallography has been used to determine the 3D structures of two complexes between Streptomyces griseus proteinase B (SGPB), a bacterial serine proteinase, and backbone variants of turkey ovomucoid third domain (OMTKY3). The natural P1 residue (Leu18I) has been substituted by a proline residue (OMTKY3-Pro18I) and in the second variant, the peptide bond between Thr17I and Leu18I was replaced by an ester bond (OMTKY3-psi[COO]-Leu18I). Both variants lack the P1 NH group that donates a bifurcated hydrogen bond to the carbonyl O of Ser214 and O(gamma) of the catalytic Ser195, one of the common interactions between serine proteinases and their canonical inhibitors. The SGPB:OMTKY3-Pro18I complex has many structural differences in the vicinity of the S1 pocket when compared with the previously determined structure of SGPB:OMTKY3-Leu18I. The result is a huge difference in the DeltaG degrees of binding (8.3 kcal/mol), only part of which can be attributed to the missing hydrogen bond. In contrast, very little structural difference exists between the complexes of SGPB:OMTKY3-psi[COO]-Leu18I and SGPB:OMTKY3-Leu18I, aside from an ester O replacing the P1 NH group. Therefore, the difference in DeltaG degrees, 1.5 kcal/mol as calculated from the measured equilibrium association constants, can be attributed to the contribution of the P1 NH hydrogen bond toward binding. A crystal structure of OMTKY3 having a reduced peptide bond between P1 Leu18I and P'1 Asp19I, (OMTKY3-psi[CH2NH2+]-Asp19I) has also been determined by X-ray crystallography. This variant has very weak association equilibrium constants with SGPB and with chymotrypsin. The structure of the free inhibitor suggests that the reduced peptide bond has not introduced any major structural changes in the inhibitor. Therefore, its poor ability to inhibit serine proteinases is likely due to the disruptions of the canonical interactions at the oxyanion hole.
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[[Category: Large Structures]]
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==About this Structure==
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1DS2 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Meleagris_gallopavo Meleagris gallopavo] and [http://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DS2 OCA].
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==Reference==
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Contribution of peptide bonds to inhibitor-protease binding: crystal structures of the turkey ovomucoid third domain backbone variants OMTKY3-Pro18I and OMTKY3-psi[COO]-Leu18I in complex with Streptomyces griseus proteinase B (SGPB) and the structure of the free inhibitor, OMTKY-3-psi[CH2NH2+]-Asp19I., Bateman KS, Huang K, Anderson S, Lu W, Qasim MA, Laskowski M Jr, James MN, J Mol Biol. 2001 Jan 26;305(4):839-49. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11162096 11162096]
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[[Category: Meleagris gallopavo]]
[[Category: Meleagris gallopavo]]
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[[Category: Protein complex]]
 
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[[Category: Streptogrisin B]]
 
[[Category: Streptomyces griseus]]
[[Category: Streptomyces griseus]]
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[[Category: Anderson, S.]]
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[[Category: Anderson S]]
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[[Category: Bateman, K S.]]
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[[Category: Bateman KS]]
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[[Category: Huang, K.]]
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[[Category: Huang K]]
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[[Category: James, M N.G.]]
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[[Category: James MNG]]
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[[Category: Jr., M Laskowski.]]
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[[Category: Laskowski Jr M]]
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[[Category: Lu, W.]]
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[[Category: Lu W]]
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[[Category: Qasim, M A.]]
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[[Category: Qasim MA]]
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[[Category: Canonical inhibitor]]
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[[Category: Ester bond]]
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[[Category: Omtky3]]
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[[Category: Ovomucoid]]
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[[Category: Protein inhibitor]]
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[[Category: Serine proteinase]]
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[[Category: Sgpb]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 14:12:17 2008''
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Current revision

CRYSTAL STRUCTURE OF SGPB:OMTKY3-COO-LEU18I

PDB ID 1ds2

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