6ow2

From Proteopedia

(Difference between revisions)

Revision as of 06:41, 21 August 2019

X-ray Structure of Polypeptide Deformylase

Structural highlights

6ow2 is a 1 chain structure with sequence from "diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	,
Gene:	defB, def, def_1, def_2, def_3, A5N45_09745, ERS019420_01538, ERS019688_00954, ERS020178_05158, ERS020534_01685, ERS020726_00048, ERS021057_00383, ERS021733_04069, ERS050646_01998, ERS367886_01588, ERS409327_03241, ERS409593_03947, KK0981_34260, NCTC12140_00964 ("Diplococcus pneumoniae" (Klein 1884) Weichselbaum 1886)
Activity:	Peptide deformylase, with EC number 3.5.1.88
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[Q939R9_STREE] 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).[HAMAP-Rule:MF_00163]

Publication Abstract from PubMed

The discovery of a novel series of peptide deformylase inhibitors incorporating a piperazic acid amino acid found in nature is described. These compounds demonstrated potent in vitro enzymatic potency and antimicrobial activity. Crystal structure analysis revealed the piperazic acid optimized a key contact with the PDF protein that accounted for the increased enzymatic potency of these compounds. We describe lead optimization of the P3' region of the series that resulted in a compound with good potency against three target organisms. One molecule showed in vivo efficacy in a rat respiratory infection model but ultimately did not meet candidate progression criteria.

Discovery of piperazic acid peptide deformylase inhibitors with in vivo activity for respiratory tract and skin infections.,Spletstoser JT, Dreabit J, Knox AN, Benowitz A, Campobasso N, Ward P, Cui G, Lewandowski T, McCloskey L, Aubart KM Bioorg Med Chem Lett. 2019 May 16. pii: S0960-894X(19)30325-7. doi:, 10.1016/j.bmcl.2019.05.028. PMID:31160176^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Spletstoser JT, Dreabit J, Knox AN, Benowitz A, Campobasso N, Ward P, Cui G, Lewandowski T, McCloskey L, Aubart KM. Discovery of piperazic acid peptide deformylase inhibitors with in vivo activity for respiratory tract and skin infections. Bioorg Med Chem Lett. 2019 May 16. pii: S0960-894X(19)30325-7. doi:, 10.1016/j.bmcl.2019.05.028. PMID:31160176 doi:http://dx.doi.org/10.1016/j.bmcl.2019.05.028

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6ow2"

@@ Line 3: / Line 3: @@
 <StructureSection load='6ow2' size='340' side='right'caption='[[6ow2]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6ow2]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OW2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OW2 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6ow2]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OW2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6OW2 FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NB4:(2R)-2-(cyclopentylmethyl)-N-{5-fluoro-6-[(9aS)-hexahydropyrazino[2,1-c][1,4]oxazin-8(1H)-yl]-2-methylpyrimidin-4-yl}-3-[hydroxy(hydroxymethyl)amino]propanehydrazide'>NB4</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">defB, def, def_1, def_2, def_3, A5N45_09745, ERS019420_01538, ERS019688_00954, ERS020178_05158, ERS020534_01685, ERS020726_00048, ERS021057_00383, ERS021733_04069, ERS050646_01998, ERS367886_01588, ERS409327_03241, ERS409593_03947, KK0981_34260, NCTC12140_00964 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1313 "Diplococcus pneumoniae" (Klein 1884) Weichselbaum 1886])</td></tr>
 <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptide_deformylase Peptide deformylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.88 3.5.1.88] </span></td></tr>
 <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ow2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ow2 OCA], [http://pdbe.org/6ow2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ow2 RCSB], [http://www.ebi.ac.uk/pdbsum/6ow2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ow2 ProSAT]</span></td></tr>

6ow2

From Proteopedia

Revision as of 06:41, 21 August 2019

X-ray Structure of Polypeptide Deformylase

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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