1ppz: Difference between revisions

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[[Image:1ppz.gif|left|200px]]


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==Trypsin complexes at atomic and ultra-high resolution==
The line below this paragraph, containing "STRUCTURE_1ppz", creates the "Structure Box" on the page.
<StructureSection load='1ppz' size='340' side='right'caption='[[1ppz]], [[Resolution|resolution]] 1.23&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[1ppz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Fusarium_oxysporum Fusarium oxysporum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PPZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PPZ FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.23&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MIS:MONOISOPROPYLPHOSPHORYLSERINE'>MIS</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
{{STRUCTURE_1ppz|  PDB=1ppz |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ppz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ppz OCA], [https://pdbe.org/1ppz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ppz RCSB], [https://www.ebi.ac.uk/pdbsum/1ppz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ppz ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/TRYP_FUSOX TRYP_FUSOX]
== 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/pp/1ppz_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=1ppz ConSurf].
<div style="clear:both"></div>


'''Trypsin complexes at atomic and ultra-high resolution'''
==See Also==
 
*[[Trypsin 3D structures|Trypsin 3D structures]]
 
__TOC__
==Overview==
</StructureSection>
A series of crystal structures of trypsin, containing either an autoproteolytic cleaved peptide fragment or a covalently bound inhibitor, were determined at atomic and ultra-high resolution and subjected to ab initio quantum chemical calculations and multipole refinement. Quantum chemical calculations reproduced the observed active site crystal structure with severe deviations from standard stereochemistry and indicated the protonation state of the catalytic residues. Multipole refinement directly revealed the charge distribution in the active site and proved the validity of the ab initio calculations. The combined results confirmed the catalytic function of the active site residues and the two water molecules acting as the nucleophile and the proton donor. The crystal structures represent snapshots from the reaction pathway, close to a tetrahedral intermediate. The de-acylation of trypsin then occurs in true SN2 fashion.
 
==About this Structure==
1PPZ is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Fusarium_oxysporum Fusarium oxysporum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PPZ OCA].
 
==Reference==
Trypsin revisited: crystallography AT (SUB) atomic resolution and quantum chemistry revealing details of catalysis., Schmidt A, Jelsch C, Ostergaard P, Rypniewski W, Lamzin VS, J Biol Chem. 2003 Oct 31;278(44):43357-62. Epub 2003 Aug 22. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12937176 12937176]
[[Category: Fusarium oxysporum]]
[[Category: Fusarium oxysporum]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Trypsin]]
[[Category: Jelsch C]]
[[Category: Jelsch, C.]]
[[Category: Lamzin VS]]
[[Category: Lamzin, V S.]]
[[Category: Rypniewski W]]
[[Category: Rypniewski, W.]]
[[Category: Schmidt A]]
[[Category: Schmidt, A.]]
[[Category: Atomic and ultra-high resolution]]
[[Category: Complex]]
[[Category: Dfp]]
[[Category: Serine protease]]
[[Category: Trypsin]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 05:21:02 2008''

Latest revision as of 08:58, 17 April 2024

Trypsin complexes at atomic and ultra-high resolutionTrypsin complexes at atomic and ultra-high resolution

Structural highlights

1ppz is a 1 chain structure with sequence from Fusarium oxysporum. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.23Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

TRYP_FUSOX

Evolutionary Conservation

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

See Also

1ppz, resolution 1.23Å

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

OCA
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