3k6l: Difference between revisions

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{{Seed}}
[[Image:3k6l.jpg|left|200px]]


<!--
==The structure of E.coli peptide deformylase (PDF) in complex with peptidomimetic ligand BB2827==
The line below this paragraph, containing "STRUCTURE_3k6l", creates the "Structure Box" on the page.
<StructureSection load='3k6l' size='340' side='right'caption='[[3k6l]], [[Resolution|resolution]] 2.15&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'>[[3k6l]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K6L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K6L 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]] 2.15&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2BB:(2S,3R)-N~4~-[(1S)-1-(DIMETHYLCARBAMOYL)-2,2-DIMETHYLPROPYL]-N~1~,2-DIHYDROXY-3-(2-METHYLPROPYL)BUTANEDIAMIDE'>2BB</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
{{STRUCTURE_3k6l|  PDB=3k6l  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3k6l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k6l OCA], [https://pdbe.org/3k6l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k6l RCSB], [https://www.ebi.ac.uk/pdbsum/3k6l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k6l ProSAT]</span></td></tr>
 
</table>
===The structure of E.coli peptide deformylase (PDF) in complex with peptidomimetic ligand BB2827===
== Function ==
 
[https://www.uniprot.org/uniprot/DEF_ECOLI DEF_ECOLI] Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions.[HAMAP-Rule:MF_00163]
 
== Evolutionary Conservation ==
==About this Structure==
[[Image:Consurf_key_small.gif|200px|right]]
3K6L is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Escherichia_coli_k-12 Escherichia coli k-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K6L OCA].  
Check<jmol>
[[Category: Escherichia coli k-12]]
  <jmolCheckbox>
[[Category: Peptide deformylase]]
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/k6/3k6l_consurf.spt"</scriptWhenChecked>
[[Category: Barker, J.]]
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
[[Category: Cheng, R K.Y.]]
    <text>to colour the structure by Evolutionary Conservation</text>
[[Category: Crawley, L.]]
  </jmolCheckbox>
[[Category: Felicetti, B.]]
</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=3k6l ConSurf].
[[Category: Whittaker, M.]]
<div style="clear:both"></div>
[[Category: Wood, M.]]
__TOC__
[[Category: Ion binding]]
</StructureSection>
[[Category: Iron]]
[[Category: Escherichia coli K-12]]
[[Category: Metal-binding]]
[[Category: Large Structures]]
[[Category: Protein biosynthesis]]
[[Category: Barker J]]
[[Category: Translation]]
[[Category: Cheng RKY]]
 
[[Category: Crawley L]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 11 22:37:45 2009''
[[Category: Felicetti B]]
[[Category: Whittaker M]]
[[Category: Wood M]]
Retrieved from "https://proteopedia.org/3k6l"