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4gkh

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==Crystal structure of the aminoglycoside phosphotransferase APH(3')-Ia, with substrate kanamycin and small molecule inhibitor 1-NA-PP1==
==Crystal structure of the aminoglycoside phosphotransferase APH(3')-Ia, with substrate kanamycin and small molecule inhibitor 1-NA-PP1==
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<StructureSection load='4gkh' size='340' side='right' caption='[[4gkh]], [[Resolution|resolution]] 1.86&Aring;' scene=''>
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<StructureSection load='4gkh' size='340' side='right'caption='[[4gkh]], [[Resolution|resolution]] 1.86&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4gkh]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Aciby Aciby]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4GKH FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4gkh]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Acinetobacter_baumannii_AYE Acinetobacter baumannii AYE]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4GKH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4GKH FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0J9:1-TERT-BUTYL-3-(NAPHTHALEN-1-YL)-1H-PYRAZOLO[3,4-D]PYRIMIDIN-4-AMINE'>0J9</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=KAN:KANAMYCIN+A'>KAN</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.863&#8491;</td></tr>
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0J9:1-TERT-BUTYL-3-(NAPHTHALEN-1-YL)-1H-PYRAZOLO[3,4-D]PYRIMIDIN-4-AMINE'>0J9</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=KAN:KANAMYCIN+A'>KAN</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4ej7|4ej7]], [[4feu|4feu]], [[4fev|4fev]], [[4few|4few]], [[4fex|4fex]], [[4gki|4gki]]</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4gkh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gkh OCA], [https://pdbe.org/4gkh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4gkh RCSB], [https://www.ebi.ac.uk/pdbsum/4gkh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4gkh ProSAT]</span></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ABAYE3578, APHA1-IAB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=509173 ACIBY])</td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Kanamycin_kinase Kanamycin kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.95 2.7.1.95] </span></td></tr>
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<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=4gkh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4gkh OCA], [http://pdbe.org/4gkh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4gkh RCSB], [http://www.ebi.ac.uk/pdbsum/4gkh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4gkh ProSAT]</span></td></tr>
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</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/B0VD92_ACIBY B0VD92_ACIBY]
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Activity of the aminoglycoside phosphotransferase APH(3')-Ia leads to resistance to aminoglycoside antibiotics in pathogenic Gram-negative bacteria, and contributes to the clinical obsolescence of this class of antibiotics. One strategy to rescuing compromised antibiotics such as aminoglycosides is targeting the enzymes conferring resistance with small molecules. Previously we demonstrated that eukaryotic protein kinase (ePK) inhibitors could inhibit APH enzymes, due to the structural similarity between these two enzyme families. However, limited structural information of enzyme-inhibitor complexes hindered interpretation of the results. As well, cross-reactivity of compounds between APHs and ePKs represents an obstacle to their use as aminoglycoside adjuvants to rescue aminoglycoside antibiotic activity. Here, we structurally and functionally characterize inhibition of APH(3')-Ia by three diverse chemical scaffolds - anthrapyrazolone, 4-anilinoquinazoline and pyrazolopyrimidine (PP) - and reveal distinctions in the binding mode of anthrapyrazolone and PP compounds to APH(3')-Ia versus ePKs. Using this observation, we identify PP-derivatives that select against ePKs, attenuate APH(3')-Ia activity and rescue aminoglycoside antibiotic activity against a resistant E. coli strain. The structures presented here and these inhibition studies provide an important opportunity for structure-based design of compounds to target aminoglycoside phosphotransferases for inhibition, potentially overcoming this form of antibiotic resistance.
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Structure-guided optimization of protein kinase inhibitors reverses aminoglycoside antibiotic resistance.,Stogios PJ, Spanogiannopoulos P, Evdokimova E, Egorova O, Shakya T, Todorovic N, Capretta A, Wright GD, Savchenko A Biochem J. 2013 Jun 12. PMID:23758273<ref>PMID:23758273</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 4gkh" style="background-color:#fffaf0;"></div>
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==See Also==
==See Also==
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*[[Phosphotransferase|Phosphotransferase]]
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*[[Phosphotransferase 3D structures|Phosphotransferase 3D structures]]
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Aciby]]
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[[Category: Acinetobacter baumannii AYE]]
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[[Category: Kanamycin kinase]]
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[[Category: Large Structures]]
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[[Category: Anderson, W F]]
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[[Category: Anderson WF]]
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[[Category: Structural genomic]]
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[[Category: Capretta A]]
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[[Category: Capretta, A]]
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[[Category: Di Leo R]]
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[[Category: Egorova, O]]
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[[Category: Egorova O]]
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[[Category: Evdokimova, E]]
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[[Category: Evdokimova E]]
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[[Category: Leo, R Di]]
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[[Category: Minasov G]]
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[[Category: Minasov, G]]
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[[Category: Savchenko A]]
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[[Category: Savchenko, A]]
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[[Category: Shakya T]]
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[[Category: Shakya, T]]
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[[Category: Spanogiannopoulos P]]
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[[Category: Spanogiannopoulos, P]]
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[[Category: Stogios PJ]]
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[[Category: Stogios, P J]]
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[[Category: Todorovic N]]
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[[Category: Todorovic, N]]
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[[Category: Wawrzak Z]]
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[[Category: Wawrzak, Z]]
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[[Category: Wright GD]]
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[[Category: Wright, G D]]
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[[Category: 1-na-pp1]]
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[[Category: Alpha/beta protein]]
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[[Category: Aminoglycoside phosphotransferase]]
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[[Category: Aminoglycoside]]
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[[Category: Antibiotic resistance]]
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[[Category: Bki]]
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[[Category: Bumped kinase inhibitor]]
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[[Category: Csgid]]
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[[Category: Eukaryotic protein kinase-like fold]]
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[[Category: Gtp]]
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[[Category: Intracellular]]
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[[Category: Kanamycin]]
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[[Category: National institute of allergy and infectious disease]]
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[[Category: Niaid]]
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[[Category: Phosphotransferase]]
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[[Category: Protein kinase inhibitor]]
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[[Category: Pyrazolopyrimidine]]
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[[Category: Transferase]]
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[[Category: Transferase-transferase inhibitor complex]]
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Current revision

Crystal structure of the aminoglycoside phosphotransferase APH(3')-Ia, with substrate kanamycin and small molecule inhibitor 1-NA-PP1

PDB ID 4gkh

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