2pfl: Difference between revisions

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[[Image:2pfl.png|left|200px]]


{{STRUCTURE_2pfl| PDB=2pfl | SCENE= }}
==CRYSTAL STRUCTURE OF PFL FROM E.COLI==
<StructureSection load='2pfl' size='340' side='right'caption='[[2pfl]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2pfl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PFL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PFL 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]] 2.9&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=2pfl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pfl OCA], [https://pdbe.org/2pfl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pfl RCSB], [https://www.ebi.ac.uk/pdbsum/2pfl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pfl ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/PFLB_ECOLI PFLB_ECOLI]
== 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/pf/2pfl_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=2pfl ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Pyruvate formate-lyase (PFL) from Escherichia coli uses a radical mechanism to reversibly cleave the C1-C2 bond of pyruvate using the Gly 734 radical and two cysteine residues (Cys 418, Cys 419). We have determined by X-ray crystallography the structures of PFL (non-radical form), its complex with the substrate analog oxamate, and the C418A,C419A double mutant. The atomic model (a dimer of 759-residue monomers) comprises a 10-stranded beta/alpha barrel assembled in an antiparallel manner from two parallel five-stranded beta-sheets; this architecture resembles that of ribonucleotide reductases. Gly 734 and Cys 419, positioned at the tips of opposing hairpin loops, meet in the apolar barrel center (Calpha-Sgamma = 3.7 A). Oxamate fits into a compact pocket where C2 is juxtaposed with Cys 418Sgamma (3.3 A), which in turn is close to Cys 419Sgamma (3.7 A). Our model of the active site is suggestive of a snapshot of the catalytic cycle, when the pyruvate-carbonyl awaits attack by the Cys 418 thiyl radical. We propose a homolytic radical mechanism for PFL that involves Cys 418 and Cys 419 both as thiyl radicals, with distinct chemical functions.


===CRYSTAL STRUCTURE OF PFL FROM E.COLI===
Structure and mechanism of the glycyl radical enzyme pyruvate formate-lyase.,Becker A, Fritz-Wolf K, Kabsch W, Knappe J, Schultz S, Volker Wagner AF Nat Struct Biol. 1999 Oct;6(10):969-75. PMID:10504733<ref>PMID:10504733</ref>


{{ABSTRACT_PUBMED_10504733}}
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 
</div>
==About this Structure==
<div class="pdbe-citations 2pfl" style="background-color:#fffaf0;"></div>
[[2pfl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PFL OCA].
== References ==
 
<references/>
==Reference==
__TOC__
<ref group="xtra">PMID:010504733</ref><references group="xtra"/>
</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
[[Category: Formate C-acetyltransferase]]
[[Category: Large Structures]]
[[Category: Becker, A.]]
[[Category: Becker A]]
[[Category: Fritz-Wolf, K.]]
[[Category: Fritz-Wolf K]]
[[Category: Kabsch, W.]]
[[Category: Kabsch W]]
[[Category: Knappe, J.]]
[[Category: Knappe J]]
[[Category: Schultz, S.]]
[[Category: Schultz S]]
[[Category: Wagner, A F.V.]]
[[Category: Wagner AFV]]
[[Category: Glucose metabolism]]
[[Category: Glycyl radical enzyme]]
[[Category: Lyase]]
[[Category: Transferase]]

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