1n5n

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:53, 14 February 2024) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1n5n.gif|left|200px]]
 
-
<!--
+
==Crystal Structure of Peptide Deformylase from Pseudomonas aeruginosa==
-
The line below this paragraph, containing "STRUCTURE_1n5n", creates the "Structure Box" on the page.
+
<StructureSection load='1n5n' size='340' side='right'caption='[[1n5n]], [[Resolution|resolution]] 1.80&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'>[[1n5n]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1N5N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1N5N 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]] 1.8&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-
{{STRUCTURE_1n5n| PDB=1n5n | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1n5n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n5n OCA], [https://pdbe.org/1n5n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1n5n RCSB], [https://www.ebi.ac.uk/pdbsum/1n5n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1n5n ProSAT]</span></td></tr>
-
 
+
</table>
-
'''Crystal Structure of Peptide Deformylase from Pseudomonas aeruginosa'''
+
== Function ==
-
 
+
[https://www.uniprot.org/uniprot/DEF_PSEAE DEF_PSEAE] 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 (By similarity).
-
 
+
== Evolutionary Conservation ==
-
==Overview==
+
[[Image:Consurf_key_small.gif|200px|right]]
-
Peptide deformylase (PDF) has received considerable attention during the last few years as a potential target for a new type of antibiotics. It is an essential enzyme in eubacteria for the removal of the formyl group from the N terminus of the nascent polypeptide chain. We have solved the X-ray structures of four members of this enzyme family, two from the Gram-positive pathogens Streptococcus pneumoniae and Staphylococcus aureus, and two from the Gram-negative bacteria Thermotoga maritima and Pseudomonas aeruginosa. Combined with the known structures from the Escherichia coli enzyme and the recently solved structure of the eukaryotic deformylase from Plasmodium falciparum, a complete picture of the peptide deformylase structure and function relationship is emerging. This understanding could help guide a more rational design of inhibitors. A structure-based comparison between PDFs reveals some conserved differences between type I and type II enzymes. Moreover, our structures provide insights into the known instability of PDF caused by oxidation of the metal-ligating cysteine residue.
+
Check<jmol>
-
 
+
<jmolCheckbox>
-
==About this Structure==
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/n5/1n5n_consurf.spt"</scriptWhenChecked>
-
1N5N is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1N5N OCA].
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
 
+
<text>to colour the structure by Evolutionary Conservation</text>
-
==Reference==
+
</jmolCheckbox>
-
Structure analysis of peptide deformylases from Streptococcus pneumoniae, Staphylococcus aureus, Thermotoga maritima and Pseudomonas aeruginosa: snapshots of the oxygen sensitivity of peptide deformylase., Kreusch A, Spraggon G, Lee CC, Klock H, McMullan D, Ng K, Shin T, Vincent J, Warner I, Ericson C, Lesley SA, J Mol Biol. 2003 Jul 4;330(2):309-21. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12823970 12823970]
+
</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=1n5n ConSurf].
-
[[Category: Peptide deformylase]]
+
<div style="clear:both"></div>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Pseudomonas aeruginosa]]
[[Category: Pseudomonas aeruginosa]]
-
[[Category: Single protein]]
+
[[Category: Ericson C]]
-
[[Category: Ericson, C.]]
+
[[Category: Klock H]]
-
[[Category: Klock, H.]]
+
[[Category: Kreusch A]]
-
[[Category: Kreusch, A.]]
+
[[Category: Lee CC]]
-
[[Category: Lee, C C.]]
+
[[Category: Lesley SA]]
-
[[Category: Lesley, S A.]]
+
[[Category: McMullan D]]
-
[[Category: McMullan, D.]]
+
[[Category: Ng K]]
-
[[Category: Ng, K.]]
+
[[Category: Shin T]]
-
[[Category: Shin, T.]]
+
[[Category: Spraggon G]]
-
[[Category: Spraggon, G.]]
+
[[Category: Vincent J]]
-
[[Category: Vincent, J.]]
+
[[Category: Warner I]]
-
[[Category: Warner, I.]]
+
-
[[Category: Deformylation]]
+
-
[[Category: Drug design]]
+
-
[[Category: Metalloenzyme]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 02:07:26 2008''
+

Current revision

Crystal Structure of Peptide Deformylase from Pseudomonas aeruginosa

PDB ID 1n5n

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1n5n"
Personal tools