Structural bases of IMiD selectivity that emerges by 5-hydroxythalidomide.

Abstract:

:Thalidomide and its derivatives exert not only therapeutic effects as immunomodulatory drugs (IMiDs) but also adverse effects such as teratogenicity, which are due in part to different C2H2 zinc-finger (ZF) transcription factors, IKZF1 (or IKZF3) and SALL4, respectively. Here, we report the structural bases for the SALL4-specific proteasomal degradation induced by 5-hydroxythalidomide, a primary thalidomide metabolite generated by the enzymatic activity of cytochrome P450 isozymes, through the interaction with cereblon (CRBN). The crystal structure of the metabolite-mediated human SALL4-CRBN complex and mutagenesis studies elucidate the complex formation enhanced by the interaction between CRBN and an additional hydroxy group of (S)-5-hydroxythalidomide and the variation in the second residue of β-hairpin structure that underlies the C2H2 ZF-type neo-morphic substrate (neosubstrate) selectivity of 5-hydroxythalidomide. These findings deepen our understanding of the pharmaceutical action of IMiDs and provide structural evidence that the glue-type E3 ligase modulators cause altered neosubstrate specificities through their metabolism.

journal_name

Nat Commun

journal_title

Nature communications

authors

Furihata H,Yamanaka S,Honda T,Miyauchi Y,Asano A,Shibata N,Tanokura M,Sawasaki T,Miyakawa T

doi

10.1038/s41467-020-18488-4

subject

Has Abstract

pub_date

2020-09-14 00:00:00

pages

4578

issue

1

issn

2041-1723

pii

10.1038/s41467-020-18488-4

journal_volume

11

pub_type

杂志文章
  • Citizen science provides a reliable and scalable tool to track disease-carrying mosquitoes.

    abstract::Recent outbreaks of Zika, chikungunya and dengue highlight the importance of better understanding the spread of disease-carrying mosquitoes across multiple spatio-temporal scales. Traditional surveillance tools are limited by jurisdictional boundaries and cost constraints. Here we show how a scalable citizen science s...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-017-00914-9

    authors: Palmer JRB,Oltra A,Collantes F,Delgado JA,Lucientes J,Delacour S,Bengoa M,Eritja R,Bartumeus F

    更新日期:2017-10-24 00:00:00

  • Ultra-high on-chip optical gain in erbium-based hybrid slot waveguides.

    abstract::Efficient and reliable on-chip optical amplifiers and light sources would enable versatile integration of various active functionalities on the silicon platform. Although lasing on silicon has been demonstrated with semiconductors by using methods such as wafer bonding or molecular beam epitaxy, cost-effective mass pr...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-019-08369-w

    authors: Rönn J,Zhang W,Autere A,Leroux X,Pakarinen L,Alonso-Ramos C,Säynätjoki A,Lipsanen H,Vivien L,Cassan E,Sun Z

    更新日期:2019-01-25 00:00:00

  • Publisher Correction: Online photochemical derivatization enables comprehensive mass spectrometric analysis of unsaturated phospholipid isomers.

    abstract::The original version of this Article contained an error in Fig. 2f, in which the phospholipid was incorrectly labelled 'PE' rather than the correct 'PC'. This has now been corrected in the PDF and HTML versions of the Article. ...

    journal_title:Nature communications

    pub_type: 杂志文章,已发布勘误

    doi:10.1038/s41467-019-08907-6

    authors: Zhang W,Zhang D,Chen Q,Wu J,Ouyang Z,Xia Y

    更新日期:2019-02-19 00:00:00

  • Observation of topological transport quantization by dissipation in fast Thouless pumps.

    abstract::Quantized dynamics is essential for natural processes and technological applications alike. The work of Thouless on quantized particle transport in slowly varying potentials (Thouless pumping) has played a key role in understanding that such quantization may be caused not only by discrete eigenvalues of a quantum syst...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-020-17510-z

    authors: Fedorova Z,Qiu H,Linden S,Kroha J

    更新日期:2020-07-27 00:00:00

  • NPM1 upregulates the transcription of PD-L1 and suppresses T cell activity in triple-negative breast cancer.

    abstract::Programmed cell death protein-1 (PD-1)/programmed cell death ligand-1 (PD-L1) interaction plays a crucial role in tumor-associated immune escape. Here, we verify that triple-negative breast cancer (TNBC) has higher PD-L1 expression than other subtypes. We then discover that nucleophosmin (NPM1) binds to PD-L1 promoter...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-020-15364-z

    authors: Qin G,Wang X,Ye S,Li Y,Chen M,Wang S,Qin T,Zhang C,Li Y,Long Q,Hu H,Shi D,Li J,Zhang K,Zhai Q,Tang Y,Kang T,Lan P,Xie F,Lu J,Deng W

    更新日期:2020-04-03 00:00:00

  • WT1 controls antagonistic FGF and BMP-pSMAD pathways in early renal progenitors.

    abstract::Kidney organogenesis requires the tight control of proliferation, differentiation and apoptosis of renal progenitor cells. How the balance between these cellular decisions is achieved remains elusive. The Wilms' tumour suppressor Wt1 is required for progenitor survival, but the molecular cause for renal agenesis in mu...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms5444

    authors: Motamedi FJ,Badro DA,Clarkson M,Lecca MR,Bradford ST,Buske FA,Saar K,Hübner N,Brändli AW,Schedl A

    更新日期:2014-07-17 00:00:00

  • Inhibition of IL-1R1/MyD88 signalling promotes mesenchymal stem cell-driven tissue regeneration.

    abstract::Tissue injury and the healing response lead to the release of endogenous danger signals including Toll-like receptor (TLR) and interleukin-1 receptor, type 1 (IL-1R1) ligands, which modulate the immune microenvironment. Because TLRs and IL-1R1 have been shown to influence the repair process of various tissues, we expl...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms11051

    authors: Martino MM,Maruyama K,Kuhn GA,Satoh T,Takeuchi O,Müller R,Akira S

    更新日期:2016-03-22 00:00:00

  • Complementation between polymerase- and exonuclease-deficient mitochondrial DNA polymerase mutants in genomically engineered flies.

    abstract::Replication errors are the main cause of mitochondrial DNA (mtDNA) mutations and a compelling approach to decrease mutation levels would therefore be to increase the fidelity of the catalytic subunit (POLγA) of the mtDNA polymerase. Here we genomically engineer the tamas locus, encoding fly POLγA, and introduce allele...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms9808

    authors: Bratic A,Kauppila TE,Macao B,Grönke S,Siibak T,Stewart JB,Baggio F,Dols J,Partridge L,Falkenberg M,Wredenberg A,Larsson NG

    更新日期:2015-11-10 00:00:00

  • Modeling early stage atherosclerosis in a primary human vascular microphysiological system.

    abstract::Novel atherosclerosis models are needed to guide clinical therapy. Here, we report an in vitro model of early atherosclerosis by fabricating and perfusing multi-layer arteriole-scale human tissue-engineered blood vessels (TEBVs) by plastic compression. TEBVs maintain mechanical strength, vasoactivity, and nitric oxide...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-020-19197-8

    authors: Zhang X,Bishawi M,Zhang G,Prasad V,Salmon E,Breithaupt JJ,Zhang Q,Truskey GA

    更新日期:2020-10-27 00:00:00

  • Spin-orbit quantum impurity in a topological magnet.

    abstract::Quantum states induced by single-atomic impurities are at the frontier of physics and material science. While such states have been reported in high-temperature superconductors and dilute magnetic semiconductors, they are unexplored in topological magnets which can feature spin-orbit tunability. Here we use spin-polar...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-020-18111-6

    authors: Yin JX,Shumiya N,Jiang Y,Zhou H,Macam G,Sura HOM,Zhang SS,Cheng ZJ,Guguchia Z,Li Y,Wang Q,Litskevich M,Belopolski I,Yang XP,Cochran TA,Chang G,Zhang Q,Huang ZQ,Chuang FC,Lin H,Lei H,Andersen BM,Wang Z,Jia S

    更新日期:2020-09-04 00:00:00

  • Reliable detection of subclonal single-nucleotide variants in tumour cell populations.

    abstract::According to the clonal evolution model, tumour growth is driven by competing subclones in somatically evolving cancer cell populations, which gives rise to genetically heterogeneous tumours. Here we present a comparative targeted deep-sequencing approach combined with a customised statistical algorithm, called deepSN...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms1814

    authors: Gerstung M,Beisel C,Rechsteiner M,Wild P,Schraml P,Moch H,Beerenwinkel N

    更新日期:2012-05-01 00:00:00

  • Small RNA zippers lock miRNA molecules and block miRNA function in mammalian cells.

    abstract::MicroRNAs (miRNAs) loss-of-function phenotypes are mainly induced by chemically modified antisense oligonucleotides. Here we develop an alternative inhibitor for miRNAs, termed 'small RNA zipper'. It is designed to connect miRNA molecules end to end, forming a DNA-RNA duplex through a complementary interaction with hi...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms13964

    authors: Meng L,Liu C,Lü J,Zhao Q,Deng S,Wang G,Qiao J,Zhang C,Zhen L,Lu Y,Li W,Zhang Y,Pestell RG,Fan H,Chen YH,Liu Z,Yu Z

    更新日期:2017-01-03 00:00:00

  • A polysaccharide bioprotonic field-effect transistor.

    abstract::In nature, electrical signalling occurs with ions and protons, rather than electrons. Artificial devices that can control and monitor ionic and protonic currents are thus an ideal means for interfacing with biological systems. Here we report the first demonstration of a biopolymer protonic field-effect transistor with...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms1489

    authors: Zhong C,Deng Y,Roudsari AF,Kapetanovic A,Anantram MP,Rolandi M

    更新日期:2011-09-20 00:00:00

  • Mobility transition from ballistic to diffusive transport in non-Hermitian lattices.

    abstract::Within all physical disciplines, it is accepted that wave transport is predetermined by the existence of disorder. In this vein, it is known that ballistic transport is possible only when a structure is ordered, and that disorder is crucial for diffusion or (Anderson-)localization to occur. As this commonly accepted p...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms3533

    authors: Eichelkraut T,Heilmann R,Weimann S,Stützer S,Dreisow F,Christodoulides DN,Nolte S,Szameit A

    更新日期:2013-01-01 00:00:00

  • Spiracular air breathing in polypterid fishes and its implications for aerial respiration in stem tetrapods.

    abstract::The polypterids (bichirs and ropefish) are extant basal actinopterygian (ray-finned) fishes that breathe air and share similarities with extant lobe-finned sarcopterygians (lungfishes and tetrapods) in lung structure. They are also similar to some fossil sarcopterygians, including stem tetrapods, in having large paire...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms4022

    authors: Graham JB,Wegner NC,Miller LA,Jew CJ,Lai NC,Berquist RM,Frank LR,Long JA

    更新日期:2014-01-01 00:00:00

  • Spatially inhomogeneous competition between superconductivity and the charge density wave in YBa2Cu3O6.67.

    abstract::The charge density wave in the high-temperature superconductor YBa2Cu3O7-x (YBCO) has two different ordering tendencies differentiated by their c-axis correlations. These correspond to ferro- (F-CDW) and antiferro- (AF-CDW) couplings between CDWs in neighbouring CuO2 bilayers. This discovery has prompted several funda...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-020-14536-1

    authors: Choi J,Ivashko O,Blackburn E,Liang R,Bonn DA,Hardy WN,Holmes AT,Christensen NB,Hücker M,Gerber S,Gutowski O,Rütt U,Zimmermann MV,Forgan EM,Hayden SM,Chang J

    更新日期:2020-02-20 00:00:00

  • Imaging local electronic corrugations and doped regions in graphene.

    abstract::Electronic structure heterogeneities are ubiquitous in two-dimensional graphene and profoundly impact the transport properties of this material. Here we show the mapping of discrete electronic domains within a single graphene sheet using scanning transmission X-ray microscopy in conjunction with ab initio density func...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms1376

    authors: Schultz BJ,Patridge CJ,Lee V,Jaye C,Lysaght PS,Smith C,Barnett J,Fischer DA,Prendergast D,Banerjee S

    更新日期:2011-06-28 00:00:00

  • Corrigendum: Superfast assembly and synthesis of gold nanostructures using nanosecond low-temperature compression via magnetic pulsed power.

    abstract::This corrects the article DOI: 10.1038/ncomms14778. ...

    journal_title:Nature communications

    pub_type: 杂志文章,已发布勘误

    doi:10.1038/ncomms15574

    authors: Li B,Bian K,Lane JMD,Salerno KM,Grest GS,Ao T,Hickman R,Wise J,Wang Z,Fan H

    更新日期:2017-05-24 00:00:00

  • Complex virome in feces from Amerindian children in isolated Amazonian villages.

    abstract::The number of viruses circulating in small isolated human populations may be reduced by viral extinctions and rare introductions. Here we used viral metagenomics to characterize the eukaryotic virome in feces from healthy children from a large urban center and from three Amerindian villages with minimal outside contac...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-018-06502-9

    authors: Siqueira JD,Dominguez-Bello MG,Contreras M,Lander O,Caballero-Arias H,Xutao D,Noya-Alarcon O,Delwart E

    更新日期:2018-10-15 00:00:00

  • Lipidic cubic phase injector facilitates membrane protein serial femtosecond crystallography.

    abstract::Lipidic cubic phase (LCP) crystallization has proven successful for high-resolution structure determination of challenging membrane proteins. Here we present a technique for extruding gel-like LCP with embedded membrane protein microcrystals, providing a continuously renewed source of material for serial femtosecond c...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms4309

    authors: Weierstall U,James D,Wang C,White TA,Wang D,Liu W,Spence JC,Bruce Doak R,Nelson G,Fromme P,Fromme R,Grotjohann I,Kupitz C,Zatsepin NA,Liu H,Basu S,Wacker D,Han GW,Katritch V,Boutet S,Messerschmidt M,Williams GJ

    更新日期:2014-01-01 00:00:00

  • Corrigendum: The genetic landscape of benign thyroid nodules revealed by whole exome and transcriptome sequencing.

    abstract::This corrects the article DOI: 10.1038/ncomms15533. ...

    journal_title:Nature communications

    pub_type: 杂志文章,已发布勘误

    doi:10.1038/ncomms16129

    authors: Ye L,Zhou X,Huang F,Wang W,Qi Y,Xu H,Shu Y,Shen L,Fei X,Xie J,Cao M,Zhou Y,Zhu W,Wang S,Ning G,Wang W

    更新日期:2017-07-04 00:00:00

  • Reliable quantum certification of photonic state preparations.

    abstract::Quantum technologies promise a variety of exciting applications. Even though impressive progress has been achieved recently, a major bottleneck currently is the lack of practical certification techniques. The challenge consists of ensuring that classically intractable quantum devices perform as expected. Here we prese...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms9498

    authors: Aolita L,Gogolin C,Kliesch M,Eisert J

    更新日期:2015-11-18 00:00:00

  • Cell-permeable succinate prodrugs bypass mitochondrial complex I deficiency.

    abstract::Mitochondrial complex I (CI) deficiency is the most prevalent defect in the respiratory chain in paediatric mitochondrial disease. This heterogeneous group of diseases includes serious or fatal neurological presentations such as Leigh syndrome and there are very limited evidence-based treatment options available. Here...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms12317

    authors: Ehinger JK,Piel S,Ford R,Karlsson M,Sjövall F,Frostner EÅ,Morota S,Taylor RW,Turnbull DM,Cornell C,Moss SJ,Metzsch C,Hansson MJ,Fliri H,Elmér E

    更新日期:2016-08-09 00:00:00

  • Structural heterogeneity of α-synuclein fibrils amplified from patient brain extracts.

    abstract::Parkinson's disease (PD) and Multiple System Atrophy (MSA) are clinically distinctive diseases that feature a common neuropathological hallmark of aggregated α-synuclein. Little is known about how differences in α-synuclein aggregate structure affect disease phenotype. Here, we amplified α-synuclein aggregates from PD...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-019-13564-w

    authors: Strohäker T,Jung BC,Liou SH,Fernandez CO,Riedel D,Becker S,Halliday GM,Bennati M,Kim WS,Lee SJ,Zweckstetter M

    更新日期:2019-12-04 00:00:00

  • Tailoring nanoscopic confines to maximize catalytic activity of hydronium ions.

    abstract::Acid catalysis by hydronium ions is ubiquitous in aqueous-phase organic reactions. Here we show that hydronium ion catalysis, exemplified by intramolecular dehydration of cyclohexanol, is markedly influenced by steric constraints, yielding turnover rates that increase by up to two orders of magnitude in tight confines...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms15442

    authors: Shi H,Eckstein S,Vjunov A,Camaioni DM,Lercher JA

    更新日期:2017-05-25 00:00:00

  • Comprehensive genomic and immunological characterization of Chinese non-small cell lung cancer patients.

    abstract::Deep understanding of the genomic and immunological differences between Chinese and Western lung cancer patients is of great importance for target therapy selection and development for Chinese patients. Here we report an extensive molecular and immune profiling study of 245 Chinese patients with non-small cell lung ca...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-019-09762-1

    authors: Zhang XC,Wang J,Shao GG,Wang Q,Qu X,Wang B,Moy C,Fan Y,Albertyn Z,Huang X,Zhang J,Qiu Y,Platero S,Lorenzi MV,Zudaire E,Yang J,Cheng Y,Xu L,Wu YL

    更新日期:2019-04-16 00:00:00

  • Unconventional slowing down of electronic recovery in photoexcited charge-ordered La1/3Sr2/3FeO3.

    abstract::The coupling of ordered electronic phases with lattice, spin, and orbital degrees of freedom are of central interest in strongly correlated systems. Their interplay has been intensively studied from femtosecond to picosecond time scales, while their dynamics beyond nanoseconds are usually assumed to follow lattice coo...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-018-04199-4

    authors: Zhu Y,Hoffman J,Rowland CE,Park H,Walko DA,Freeland JW,Ryan PJ,Schaller RD,Bhattacharya A,Wen H

    更新日期:2018-05-04 00:00:00

  • The fecal resistome of dairy cattle is associated with diet during nursing.

    abstract::Antimicrobial resistance is a global public health concern, and livestock play a significant role in selecting for resistance and maintaining such reservoirs. Here we study the succession of dairy cattle resistome during early life using metagenomic sequencing, as well as the relationship between resistome, gut microb...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/s41467-019-12111-x

    authors: Liu J,Taft DH,Maldonado-Gomez MX,Johnson D,Treiber ML,Lemay DG,DePeters EJ,Mills DA

    更新日期:2019-09-27 00:00:00

  • Thymosin β4-sulfoxide attenuates inflammatory cell infiltration and promotes cardiac wound healing.

    abstract::The downstream consequences of inflammation in the adult mammalian heart are formation of a non-functional scar, pathological remodelling and heart failure. In zebrafish, hydrogen peroxide released from a wound is the initial instructive chemotactic cue for the infiltration of inflammatory cells, however, the identity...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms3081

    authors: Evans MA,Smart N,Dubé KN,Bollini S,Clark JE,Evans HG,Taams LS,Richardson R,Lévesque M,Martin P,Mills K,Riegler J,Price AN,Lythgoe MF,Riley PR

    更新日期:2013-01-01 00:00:00

  • Printable enzyme-embedded materials for methane to methanol conversion.

    abstract::An industrial process for the selective activation of methane under mild conditions would be highly valuable for controlling emissions to the environment and for utilizing vast new sources of natural gas. The only selective catalysts for methane activation and conversion to methanol under mild conditions are methane m...

    journal_title:Nature communications

    pub_type: 杂志文章

    doi:10.1038/ncomms11900

    authors: Blanchette CD,Knipe JM,Stolaroff JK,DeOtte JR,Oakdale JS,Maiti A,Lenhardt JM,Sirajuddin S,Rosenzweig AC,Baker SE

    更新日期:2016-06-15 00:00:00