1jip: Difference between revisions

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New page: left|200px<br /><applet load="1jip" size="450" color="white" frame="true" align="right" spinBox="true" caption="1jip, resolution 2.Å" /> '''P450eryF(A245S)/ketoco...
 
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[[Image:1jip.jpg|left|200px]]<br /><applet load="1jip" size="450" color="white" frame="true" align="right" spinBox="true"
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'''P450eryF(A245S)/ketoconazole'''<br />


==Overview==
==P450eryF(A245S)/ketoconazole==
The azole-based P450 inhibitor ketoconazole is used to treat fungal, infections and functions by blocking ergosterol biosynthesis in yeast., Ketoconazole binds to mammalian P450 enzymes and this can result in, drug-drug interactions and lead to liver damage. To identify protein-drug, interactions that contribute to binding specificity and affinity, we, determined the crystal structure of ketoconazole complexed with P450eryF., In the P450eryF/ketoconazole structure, the azole moiety and nearby rings, of ketoconzole are positioned in the active site similar to the substrate, 6-deoxyerythronolide B, with the azole nitrogen atom coordinated to the, heme iron atom. The remainder of the ketoconazole molecule extends into, the active-site pocket, which is occupied by water in the substrate, complex. Binding of ketoconazole led to unexpected conformational changes, in the I-helix. The I-helix cleft near the active site has collapsed with, a helical pitch of 5.4 A compared to 6.6 A in the substrate complex., P450eryF/ketoconazole crystals soaked in 6-deoxyerythronolide B to, exchange ligands exhibit a structure identical with that of the original, P450eryF/substrate complex, with the I-helix cleft restored to a pitch of, 6.6 A. These findings indicate that the I-helix region of P450eryF is, flexible and can adopt multiple conformations. An improved understanding, of the flexibility of the active-site region of cytochrome P450 enzymes is, important to gain insight into determinants of ligand binding/specificity, as well as to evaluate models for catalytic mechanism based on static, crystal structures.
<StructureSection load='1jip' size='340' side='right'caption='[[1jip]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1jip]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharopolyspora_erythraea Saccharopolyspora erythraea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JIP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JIP 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&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=KTN:CIS-1-ACETYL-4-(4-((2-(2,4-DICHLOROPHENYL)-2-(1H-IMIDAZOL-1-YLMETHYL)-1,3-DIOXOLAN-4-YL)METHOXY)PHENYL)PIPERAZINE'>KTN</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=1jip FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jip OCA], [https://pdbe.org/1jip PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jip RCSB], [https://www.ebi.ac.uk/pdbsum/1jip PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jip ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/CPXJ_SACEN CPXJ_SACEN] Catalyzes the NADPH-dependent conversion of 6-deoxyerythronolide B (6-DEB) to erythronolide B (EB) by the insertion of an oxygen at the 6S position of 6-DEB. Requires the participation of a ferredoxin and a ferredoxin reductase for the transfer of electrons from NADPH to the monooxygenase.<ref>PMID:1732208</ref> <ref>PMID:2011746</ref>
== 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/ji/1jip_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=1jip ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1JIP is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Saccharopolyspora_erythraea Saccharopolyspora erythraea] with HEM and KTN as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1JIP OCA].
*[[Cytochrome P450 3D structures|Cytochrome P450 3D structures]]
 
== References ==
==Reference==
<references/>
Ketoconazole-induced conformational changes in the active site of cytochrome P450eryF., Cupp-Vickery JR, Garcia C, Hofacre A, McGee-Estrada K, J Mol Biol. 2001 Aug 3;311(1):101-10. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11469860 11469860]
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Saccharopolyspora erythraea]]
[[Category: Saccharopolyspora erythraea]]
[[Category: Single protein]]
[[Category: Cupp-Vickery JR]]
[[Category: Cupp-Vickery, J.R.]]
[[Category: Garcia C]]
[[Category: Garcia, C.]]
[[Category: Hofacre A]]
[[Category: Hofacre, A.]]
[[Category: McGee-Estrada K]]
[[Category: McGee-Estrada, K.]]
[[Category: HEM]]
[[Category: KTN]]
[[Category: azole drug]]
[[Category: cytochrome p450]]
[[Category: ketoconazole]]
[[Category: p450eryf]]
[[Category: p450eryf(a245s)]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 18:17:52 2007''

Latest revision as of 10:39, 7 February 2024

P450eryF(A245S)/ketoconazoleP450eryF(A245S)/ketoconazole

Structural highlights

1jip is a 1 chain structure with sequence from Saccharopolyspora erythraea. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CPXJ_SACEN Catalyzes the NADPH-dependent conversion of 6-deoxyerythronolide B (6-DEB) to erythronolide B (EB) by the insertion of an oxygen at the 6S position of 6-DEB. Requires the participation of a ferredoxin and a ferredoxin reductase for the transfer of electrons from NADPH to the monooxygenase.[1] [2]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

References

  1. ↑ Andersen JF, Hutchinson CR. Characterization of Saccharopolyspora erythraea cytochrome P-450 genes and enzymes, including 6-deoxyerythronolide B hydroxylase. J Bacteriol. 1992 Feb;174(3):725-35. PMID:1732208
  2. ↑ Weber JM, Leung JO, Swanson SJ, Idler KB, McAlpine JB. An erythromycin derivative produced by targeted gene disruption in Saccharopolyspora erythraea. Science. 1991 Apr 5;252(5002):114-7. PMID:2011746

1jip, resolution 2.00Å

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