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5m2f

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Current revision

Crystal structure of human AKR1B10 complexed with NADP+ and the synthetic retinoid UVI2008

Structural highlights

5m2f is a 1 chain structure with sequence from Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.503Å
Ligands:	, , , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

AK1BA_HUMAN Acts as all-trans-retinaldehyde reductase. Can efficiently reduce aliphatic and aromatic aldehydes, and is less active on hexoses (in vitro). May be responsible for detoxification of reactive aldehydes in the digested food before the nutrients are passed on to other organs.^[1]

Publication Abstract from PubMed

UVI2008, a retinoic acid receptor (RAR) beta/gamma agonist originated from C3 bromine addition to the parent RAR pan-agonist 4-[(E)-2-(5,6,7,8-tetrahydro-5,5,8,8-tetramethyl-2-naphthalenyl)-1-propenyl]benzo ic acid (TTNPB), is also a selective inhibitor of aldo-keto reductase family member 1B10 (AKR1B10). Thus, it might become a lead drug for the design of compounds targeting both activities, as an AKR1B10 inhibitor and RAR agonist, which could constitute a novel therapeutic approach against cancer and skin-related diseases. Herein, the X-ray structure of the methylated Lys125Arg/Val301Leu AKR1B10 (i.e. AKME2MU) holoenzyme in complex with UVI2008 was determined at 1.5 A resolution, providing an explanation for UVI2008 selectivity against AKR1B10 (IC50 = 6.1 muM) over the closely related aldose reductase (AR, IC50 = 70 muM). The carboxylic acid group of UVI2008 is located in the anion-binding pocket, at hydrogen-bond distance of catalytically important residues Tyr49 and His111. The inhibitor bromine atom can only fit in the wider active site of AKR1B10, mainly because of the native Trp112 side-chain orientation, not possible in AR. In AKR1B10, Trp112 native conformation, and thus UVI2008 binding, is facilitated through interaction with Gln114. IC50 analysis of the corresponding Thr113Gln mutant in AR confirmed this hypothesis. The elucidation of the binding mode of UVI2008 to AKR1B10, along with the previous studies on the retinoid specificity of AKR1B10 and on the stilbene retinoid scaffold conforming UVI2008, could indeed be used to foster the drug design of bifunctional antiproliferative compounds.

Structural basis for the inhibition of AKR1B10 by the C3 brominated TTNPB derivative UVI2008.,Ruiz FX, Crespo I, Alvarez S, Porte S, Gimenez-Dejoz J, Cousido-Siah A, Mitschler A, de Lera AR, Pares X, Podjarny A, Farres J Chem Biol Interact. 2017 Feb 1. pii: S0009-2797(17)30109-6. doi:, 10.1016/j.cbi.2017.01.026. PMID:28161411^[2]

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

References

↑ Gallego O, Ruiz FX, Ardevol A, Dominguez M, Alvarez R, de Lera AR, Rovira C, Farres J, Fita I, Pares X. Structural basis for the high all-trans-retinaldehyde reductase activity of the tumor marker AKR1B10. Proc Natl Acad Sci U S A. 2007 Dec 26;104(52):20764-9. Epub 2007 Dec 17. PMID:18087047
↑ Ruiz FX, Crespo I, Alvarez S, Porte S, Gimenez-Dejoz J, Cousido-Siah A, Mitschler A, de Lera AR, Pares X, Podjarny A, Farres J. Structural basis for the inhibition of AKR1B10 by the C3 brominated TTNPB derivative UVI2008. Chem Biol Interact. 2017 Feb 1. pii: S0009-2797(17)30109-6. doi:, 10.1016/j.cbi.2017.01.026. PMID:28161411 doi:http://dx.doi.org/10.1016/j.cbi.2017.01.026

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5m2f"

@@ Line 1: / Line 1: @@
 ==Crystal structure of human AKR1B10 complexed with NADP+ and the synthetic retinoid UVI2008==
-<StructureSection load='5m2f' size='340' side='right' caption='[[5m2f]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
+<StructureSection load='5m2f' size='340' side='right'caption='[[5m2f]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5m2f]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M2F OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5M2F FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5m2f]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M2F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5M2F FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=UV8:3-BROMO-4-[(1E)-2-(5,5,8,8-TETRAMETHYL-5,6,7,8-TETRAHYDRONAPHTHALEN-2-YL)PROP-1-EN-1-YL]BENZOIC+ACID'>UV8</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.503&#8491;</td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MLY:N-DIMETHYL-LYSINE'>MLY</scene>, <scene name='pdbligand=MLZ:N-METHYL-LYSINE'>MLZ</scene></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MLY:N-DIMETHYL-LYSINE'>MLY</scene>, <scene name='pdbligand=MLZ:N-METHYL-LYSINE'>MLZ</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=UV8:3-BROMO-4-[(1E)-2-(5,5,8,8-TETRAMETHYL-5,6,7,8-TETRAHYDRONAPHTHALEN-2-YL)PROP-1-EN-1-YL]BENZOIC+ACID'>UV8</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1zua|1zua]]</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=5m2f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m2f OCA], [https://pdbe.org/5m2f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5m2f RCSB], [https://www.ebi.ac.uk/pdbsum/5m2f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5m2f ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">AKR1B10, AKR1B11 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=5m2f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m2f OCA], [http://pdbe.org/5m2f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5m2f RCSB], [http://www.ebi.ac.uk/pdbsum/5m2f PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5m2f ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/AK1BA_HUMAN AK1BA_HUMAN]] Acts as all-trans-retinaldehyde reductase. Can efficiently reduce aliphatic and aromatic aldehydes, and is less active on hexoses (in vitro). May be responsible for detoxification of reactive aldehydes in the digested food before the nutrients are passed on to other organs.<ref>PMID:18087047</ref>
+[https://www.uniprot.org/uniprot/AK1BA_HUMAN AK1BA_HUMAN] Acts as all-trans-retinaldehyde reductase. Can efficiently reduce aliphatic and aromatic aldehydes, and is less active on hexoses (in vitro). May be responsible for detoxification of reactive aldehydes in the digested food before the nutrients are passed on to other organs.<ref>PMID:18087047</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 19: @@
 </div>
 <div class="pdbe-citations 5m2f" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Aldo-keto reductase 3D structures|Aldo-keto reductase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
-[[Category: Alvarez, R]]
+[[Category: Large Structures]]
-[[Category: Alvarez, S]]
+[[Category: Alvarez R]]
-[[Category: Cousido-Siah, A]]
+[[Category: Alvarez S]]
-[[Category: Dominguez, M]]
+[[Category: Cousido-Siah A]]
-[[Category: Farres, J]]
+[[Category: Dominguez M]]
-[[Category: Lera, A R.de]]
+[[Category: Farres J]]
-[[Category: Mitschler, A]]
+[[Category: Mitschler A]]
-[[Category: Pares, X]]
+[[Category: Pares X]]
-[[Category: Podjarny, A]]
+[[Category: Podjarny A]]
-[[Category: Porte, S]]
+[[Category: Porte S]]
-[[Category: Ruiz, F X]]
+[[Category: Ruiz FX]]
-[[Category: Aldo-keto reductase]]
+[[Category: De Lera AR]]
-[[Category: Cytosolic]]
-[[Category: Oxidoreductase]]
-[[Category: Synthetic retinoid]]
-[[Category: Tim barrel]]

5m2f

From Proteopedia

Current revision

Crystal structure of human AKR1B10 complexed with NADP+ and the synthetic retinoid UVI2008

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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