Molecular recognition of histone H3 by the WD40 protein WDR5.

Abstract:

:The WD40-repeat protein WDR5 is a conserved subunit of Trithorax (TRX) histone methyltransferase complexes. WDR5 has been reported to selectively bind dimethylated Lys4 (K4me2) in histone H3 to promote K4 trimethylation by TRX. To elucidate the basis of this binding specificity, we have determined the crystal structure of WDR5 bound to a histone H3 peptide bearing K4me2. The structure reveals that the N terminus of histone H3 binds as a 3(10)-helix in the central depression formed by the WD40 repeats. R2 in histone H3 is bound in the acidic channel in the protein's core, whereas K4me2 is solvent exposed and does not engage in direct interactions with WDR5. Functional studies confirm that WDR5 recognizes A1, R2 and T3 in histone H3 but has virtually identical affinities for the unmodified and mono-, di- and trimethylated forms of K4, demonstrating that it does not discriminate among different degrees of methylation of this residue.

journal_name

Nat Struct Mol Biol

authors

Couture JF,Collazo E,Trievel RC

doi

10.1038/nsmb1116

subject

Has Abstract

pub_date

2006-08-01 00:00:00

pages

698-703

issue

8

eissn

1545-9993

issn

1545-9985

pii

nsmb1116

journal_volume

13

pub_type

杂志文章
  • Evidence for a group II intron-like catalytic triplex in the spliceosome.

    abstract::To catalyze pre-mRNA splicing, U6 small nuclear RNA positions two metals that interact directly with the scissile phosphates. U6 metal ligands correspond stereospecifically to metal ligands within the catalytic domain V of a group II self-splicing intron. Domain V ligands are organized by base-triple interactions, whi...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2815

    authors: Fica SM,Mefford MA,Piccirilli JA,Staley JP

    更新日期:2014-05-01 00:00:00

  • Multiple in vivo pathways for Escherichia coli small ribosomal subunit assembly occur on one pre-rRNA.

    abstract::Processing of transcribed precursor ribosomal RNA (pre-rRNA) to a mature state is a conserved aspect of ribosome biogenesis in vivo. We developed an affinity-purification system to isolate and analyze in vivo-formed pre-rRNA-containing ribonucleoprotein (RNP) particles (rRNPs) from wild-type E. coli. We observed that ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2887

    authors: Gupta N,Culver GM

    更新日期:2014-10-01 00:00:00

  • The SM protein Vps33 and the t-SNARE H(abc) domain promote fusion pore opening.

    abstract::Intracellular membrane fusion proceeds via distinct stages of membrane docking, hemifusion and fusion pore opening and depends on interacting families of Rab, SNARE and SM proteins. Trans-SNARE complexes dock the membranes in close apposition. Efficient fusion requires further SNARE-associated proteins. They might inc...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1809

    authors: Pieren M,Schmidt A,Mayer A

    更新日期:2010-06-01 00:00:00

  • Conformational restriction blocks glutamate receptor desensitization.

    abstract::Desensitization is a universal feature of ligand-gated ion channels. Using the crystal structure of the GluR2 L483Y mutant channel as a guide, we attempted to build non-desensitizing kainate-subtype glutamate receptors. Success was achieved for GluR5, GluR6 and GluR7 with intermolecular disulfide cross-links but not b...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb1178

    authors: Weston MC,Schuck P,Ghosal A,Rosenmund C,Mayer ML

    更新日期:2006-12-01 00:00:00

  • Molecular basis of histone H3K36me3 recognition by the PWWP domain of Brpf1.

    abstract::Trimethylation of Lys36 in histone H3 (H3K36me3) coordinates events associated with the elongation phase of transcription and is also emerging as an important epigenetic regulator of cell growth and differentiation. We have identified the PWWP domain of bromo and plant homeodomain (PHD) finger-containing protein 1 (BR...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1797

    authors: Vezzoli A,Bonadies N,Allen MD,Freund SM,Santiveri CM,Kvinlaug BT,Huntly BJ,Göttgens B,Bycroft M

    更新日期:2010-05-01 00:00:00

  • Misregulation of miR-1 processing is associated with heart defects in myotonic dystrophy.

    abstract::Myotonic dystrophy is an RNA gain-of-function disease caused by expanded CUG or CCUG repeats, which sequester the RNA binding protein MBNL1. Here we describe a newly discovered function for MBNL1 as a regulator of pre-miR-1 biogenesis and find that miR-1 processing is altered in heart samples from people with myotonic...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2067

    authors: Rau F,Freyermuth F,Fugier C,Villemin JP,Fischer MC,Jost B,Dembele D,Gourdon G,Nicole A,Duboc D,Wahbi K,Day JW,Fujimura H,Takahashi MP,Auboeuf D,Dreumont N,Furling D,Charlet-Berguerand N

    更新日期:2011-06-19 00:00:00

  • Substrate-engaged 26S proteasome.

    abstract:: ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-018-0167-9

    authors: Marcinkiewicz KM

    更新日期:2018-12-01 00:00:00

  • Author Correction: H3K64 trimethylation marks heterochromatin and is dynamically remodeled during developmental reprogramming.

    abstract::In this article, the Ponceau staining presented in Fig. 1b (right, bottom) does not follow best practices for figure preparation since itinadvertently included duplications from the Ponceau staining presented in Supplementary Fig. 1b (for which the same preparation ofnucleosomes from HeLa cells had been used). A new F...

    journal_title:Nature structural & molecular biology

    pub_type: 已发布勘误

    doi:10.1038/s41594-018-0090-0

    authors: Daujat S,Weiss T,Mohn F,Lange UC,Ziegler-Birling C,Zeissler U,Lappe M,Schübeler D,Torres-Padilla ME,Schneider R

    更新日期:2018-08-01 00:00:00

  • A newly discovered function for RNase L in regulating translation termination.

    abstract::The antiviral and antiproliferative effects of interferons are mediated in part by the 2'-5' oligoadenylate-RNase L RNA decay pathway. RNase L is an endoribonuclease that requires 2'-5' oligoadenylates to cleave single-stranded RNA. In this report we present evidence demonstrating a role for RNase L in translation. We...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb944

    authors: Le Roy F,Salehzada T,Bisbal C,Dougherty JP,Peltz SW

    更新日期:2005-06-01 00:00:00

  • The opening of the two pores of the Hv1 voltage-gated proton channel is tuned by cooperativity.

    abstract::In voltage-gated sodium, potassium and calcium channels, the functions of ion conduction and voltage sensing are performed by two distinct structural units: the pore domain and the voltage-sensing domain (VSD). In the hydrogen voltage-gated channel 1 (Hv1), the VSD, unusually, performs both functions. Hv1 was recently...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1738

    authors: Tombola F,Ulbrich MH,Kohout SC,Isacoff EY

    更新日期:2010-01-01 00:00:00

  • Structure of the Dom34-Hbs1 complex and implications for no-go decay.

    abstract::No-go decay (NGD) targets mRNAs with stalls in translation elongation for endonucleolytic cleavage in a process involving the Dom34 and Hbs1 proteins. The crystal structure of a Schizosaccharomyces pombe Dom34-Hbs1 complex reveals an overall shape similar to that of eRF1-eRF3-GTP and EF-Tu-tRNA-GDPNP. Similarly to eRF...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1922

    authors: Chen L,Muhlrad D,Hauryliuk V,Cheng Z,Lim MK,Shyp V,Parker R,Song H

    更新日期:2010-10-01 00:00:00

  • Reply to 'Misreading chaperone-substrate complexes from random noise'.

    abstract:: ...

    journal_title:Nature structural & molecular biology

    pub_type: 评论,信件

    doi:10.1038/s41594-018-0145-2

    authors: Horowitz S,Salmon L,Koldewey P,Ahlstrom LS,Martin R,Quan S,Afonine PV,van den Bedem H,Wang L,Xu Q,Trievel RC,Brooks CL 3rd,Bardwell JCA

    更新日期:2018-11-01 00:00:00

  • Membrane-dependent conformational changes initiate cholesterol-dependent cytolysin oligomerization and intersubunit beta-strand alignment.

    abstract::Cholesterol-dependent cytolysins are bacterial protein toxins that bind to cholesterol-containing membranes, form oligomeric complexes and insert into the bilayer to create large aqueous pores. Membrane-dependent structural rearrangements required to initiate the oligomerization of perfringolysin O monomers have been ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb793

    authors: Ramachandran R,Tweten RK,Johnson AE

    更新日期:2004-08-01 00:00:00

  • Publisher Correction: Ancestral-sequence reconstruction unveils the structural basis of function in mammalian FMOs.

    abstract::An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...

    journal_title:Nature structural & molecular biology

    pub_type: 已发布勘误

    doi:10.1038/s41594-020-0378-8

    authors: Nicoll CR,Bailleul G,Fiorentini F,Mascotti ML,Fraaije MW,Mattevi A

    更新日期:2020-02-01 00:00:00

  • Defining the landscape of ATP-competitive inhibitor resistance residues in protein kinases.

    abstract::Kinases are involved in disease development and modulation of their activity can be therapeutically beneficial. Drug-resistant mutant kinases are valuable tools in drug discovery efforts, but the prediction of mutants across the kinome is challenging. Here, we generate deep mutational scanning data to identify mutant ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-019-0358-z

    authors: Persky NS,Hernandez D,Do Carmo M,Brenan L,Cohen O,Kitajima S,Nayar U,Walker A,Pantel S,Lee Y,Cordova J,Sathappa M,Zhu C,Hayes TK,Ram P,Pancholi P,Mikkelsen TS,Barbie DA,Yang X,Haq R,Piccioni F,Root DE,Johannes

    更新日期:2020-01-01 00:00:00

  • A conserved Mediator-CDK8 kinase module association regulates Mediator-RNA polymerase II interaction.

    abstract::The CDK8 kinase module (CKM) is a conserved, dissociable Mediator subcomplex whose component subunits were genetically linked to the RNA polymerase II (RNAPII) C-terminal domain (CTD) and individually recognized as transcriptional repressors before Mediator was identified as a pre-eminent complex in eukaryotic transcr...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2549

    authors: Tsai KL,Sato S,Tomomori-Sato C,Conaway RC,Conaway JW,Asturias FJ

    更新日期:2013-05-01 00:00:00

  • The stalk region of dynamin drives the constriction of dynamin tubes.

    abstract::The GTPase dynamin is essential for numerous vesiculation events including clathrin-mediated endocytosis. Upon GTP hydrolysis, dynamin constricts a lipid bilayer. Previously, a three-dimensional structure of mutant dynamin in the constricted state was determined by helical reconstruction methods. We solved the noncons...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb762

    authors: Chen YJ,Zhang P,Egelman EH,Hinshaw JE

    更新日期:2004-06-01 00:00:00

  • Structure of full-length human anti-PD1 therapeutic IgG4 antibody pembrolizumab.

    abstract::Immunoglobulin G4 antibodies exhibit unusual properties with important biological consequences. We report the structure of the human full-length IgG4 S228P anti-PD1 antibody pembrolizumab, solved to 2.3-Å resolution. Pembrolizumab is a compact molecule, consistent with the presence of a short hinge region. The Fc doma...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.3129

    authors: Scapin G,Yang X,Prosise WW,McCoy M,Reichert P,Johnston JM,Kashi RS,Strickland C

    更新日期:2015-12-01 00:00:00

  • A molecular mechanism for calcium-mediated synaptotagmin-triggered exocytosis.

    abstract::The regulated exocytotic release of neurotransmitter and hormones is accomplished by a complex protein machinery whose core consists of SNARE proteins and the calcium sensor synaptotagmin-1. We propose a mechanism in which the lipid membrane is intimately involved in coupling calcium sensing to release. We found that ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-018-0130-9

    authors: Kiessling V,Kreutzberger AJB,Liang B,Nyenhuis SB,Seelheim P,Castle JD,Cafiso DS,Tamm LK

    更新日期:2018-10-01 00:00:00

  • The SINE-encoded mouse B2 RNA represses mRNA transcription in response to heat shock.

    abstract::Cells respond to changes in environmental conditions via orchestrated modifications in gene expression. For example, in response to heat shock, cells execute a program of gene-specific transcriptional activation and repression. Although the activation of genes upon heat shock has been widely studied, the mechanism of ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb813

    authors: Allen TA,Von Kaenel S,Goodrich JA,Kugel JF

    更新日期:2004-09-01 00:00:00

  • Author Correction: A gel phase promotes condensation of liquid P granules in Caenorhabditis elegans embryos.

    abstract::An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...

    journal_title:Nature structural & molecular biology

    pub_type: 已发布勘误

    doi:10.1038/s41594-019-0367-y

    authors: Putnam A,Cassani M,Smith J,Seydoux G

    更新日期:2020-02-01 00:00:00

  • Structural evidence for consecutive Hel308-like modules in the spliceosomal ATPase Brr2.

    abstract::Brr2 is a DExD/H-box helicase responsible for U4/U6 unwinding during spliceosomal activation. Brr2 contains two helicase-like domains, each of which is followed by a Sec63 domain with unknown function. We determined the crystal structure of the second Sec63 domain, which unexpectedly resembles domains 4 and 5 of DNA h...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1625

    authors: Zhang L,Xu T,Maeder C,Bud LO,Shanks J,Nix J,Guthrie C,Pleiss JA,Zhao R

    更新日期:2009-07-01 00:00:00

  • Structure-function analyses of the human SIX1-EYA2 complex reveal insights into metastasis and BOR syndrome.

    abstract::SIX1 interacts with EYA to form a bipartite transcription factor essential for mammalian development. Loss of function of this complex causes branchio-oto-renal (BOR) syndrome, whereas re-expression of SIX1 or EYA promotes metastasis. Here we describe the 2.0-Å structure of SIX1 bound to EYA2, which suggests a new DNA...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.2505

    authors: Patrick AN,Cabrera JH,Smith AL,Chen XS,Ford HL,Zhao R

    更新日期:2013-04-01 00:00:00

  • Crystal structure of Staphylococcus aureus tRNA adenosine deaminase TadA in complex with RNA.

    abstract::Bacterial tRNA adenosine deaminases (TadAs) catalyze the hydrolytic deamination of adenosine to inosine at the wobble position of tRNA(Arg2), a process that enables this single tRNA to recognize three different arginine codons in mRNA. In addition, inosine is also introduced at the wobble position of multiple eukaryot...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb1047

    authors: Losey HC,Ruthenburg AJ,Verdine GL

    更新日期:2006-02-01 00:00:00

  • Incision-dependent and error-free repair of (CAG)(n)/(CTG)(n) hairpins in human cell extracts.

    abstract::Expansion of CAG/CTG trinucleotide repeats is associated with certain familial neurological disorders, including Huntington's disease. Increasing evidence suggests that formation of a stable DNA hairpin within CAG/CTG repeats during DNA metabolism contributes to their expansion. However, the molecular mechanism(s) by ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1638

    authors: Hou C,Chan NL,Gu L,Li GM

    更新日期:2009-08-01 00:00:00

  • Multiple functions of MRN in end-joining pathways during isotype class switching.

    abstract::The Mre11-Rad50-NBS1 (MRN) complex has many roles in response to DNA double-strand breaks, but its functions in repair by nonhomologous end joining (NHEJ) pathways are poorly understood. We have investigated requirements for MRN in class switch recombination (CSR), a programmed DNA rearrangement in B lymphocytes that ...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1639

    authors: Dinkelmann M,Spehalski E,Stoneham T,Buis J,Wu Y,Sekiguchi JM,Ferguson DO

    更新日期:2009-08-01 00:00:00

  • Aggregation of mutant cysteine string protein-α via Fe-S cluster binding is mitigated by iron chelators.

    abstract::Point mutations in cysteine string protein-α (CSPα) cause dominantly inherited adult-onset neuronal ceroid lipofuscinosis (ANCL), a rapidly progressing and lethal neurodegenerative disease with no treatment. ANCL mutations are proposed to trigger CSPα aggregation/oligomerization, but the mechanism of oligomer formatio...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-020-0375-y

    authors: Naseri NN,Ergel B,Kharel P,Na Y,Huang Q,Huang R,Dolzhanskaya N,Burré J,Velinov MT,Sharma M

    更新日期:2020-02-01 00:00:00

  • Ancestral-sequence reconstruction unveils the structural basis of function in mammalian FMOs.

    abstract::Flavin-containing monooxygenases (FMOs) are ubiquitous in all domains of life and metabolize a myriad of xenobiotics, including toxins, pesticides and drugs. However, despite their pharmacological importance, structural information remains bereft. To further our understanding behind their biochemistry and diversity, w...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-019-0347-2

    authors: Nicoll CR,Bailleul G,Fiorentini F,Mascotti ML,Fraaije MW,Mattevi A

    更新日期:2020-01-01 00:00:00

  • Cryo-EM structures of holo condensin reveal a subunit flip-flop mechanism.

    abstract::Complexes containing a pair of structural maintenance of chromosomes (SMC) family proteins are fundamental for the three-dimensional (3D) organization of genomes in all domains of life. The eukaryotic SMC complexes cohesin and condensin are thought to fold interphase and mitotic chromosomes, respectively, into large l...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/s41594-020-0457-x

    authors: Lee BG,Merkel F,Allegretti M,Hassler M,Cawood C,Lecomte L,O'Reilly FJ,Sinn LR,Gutierrez-Escribano P,Kschonsak M,Bravo S,Nakane T,Rappsilber J,Aragon L,Beck M,Löwe J,Haering CH

    更新日期:2020-08-01 00:00:00

  • Structural changes in a marine podovirus associated with release of its genome into Prochlorococcus.

    abstract::Podovirus P-SSP7 infects Prochlorococcus marinus, the most abundant oceanic photosynthetic microorganism. Single-particle cryo-electron microscopy yields icosahedral and asymmetrical structures of infectious P-SSP7 with 4.6-A and 9-A resolution, respectively. The asymmetric reconstruction reveals how symmetry mismatch...

    journal_title:Nature structural & molecular biology

    pub_type: 杂志文章

    doi:10.1038/nsmb.1823

    authors: Liu X,Zhang Q,Murata K,Baker ML,Sullivan MB,Fu C,Dougherty MT,Schmid MF,Osburne MS,Chisholm SW,Chiu W

    更新日期:2010-07-01 00:00:00