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Aarti D Rohira et al.
The Journal of biological chemistry, 288(26), 19288-19295 (2013-05-16)
RNA polymerase (pol) III transcribes genes that determine biosynthetic capacity. Induction of these genes is required for oncogenic transformation. The transcriptional repressor, Maf1, plays a central role in the repression of these and other genes that promote oncogenesis. Our studies
Binuraj R K Menon et al.
The Journal of biological chemistry, 289(49), 34161-34174 (2014-09-13)
Cobalamin-dependent enzymes enhance the rate of C-Co bond cleavage by up to ∼10(12)-fold to generate cob(II)alamin and a transient adenosyl radical. In the case of the pyridoxal 5'-phosphate (PLP) and cobalamin-dependent enzymes lysine 5,6-aminomutase and ornithine 4,5 aminomutase (OAM), it
Timin Hadi et al.
Biochemistry, 52(51), 9358-9366 (2013-11-21)
The breakdown and recycling of peptidoglycan, an essential polymeric cell structure, occur in a number of bacterial species. A key enzyme in the recycling pathway of one of the components of the peptidoglycan layer, N-acetylmuramic acid (MurNAc), is MurNAc 6-phosphate
Julien Fournier et al.
The Journal of neuroscience : the official journal of the Society for Neuroscience, 34(16), 5515-5528 (2014-04-18)
In the primary visual cortex (V1), Simple and Complex receptive fields (RFs) are usually characterized on the basis of the linearity of the cell spiking response to stimuli of opposite contrast. Whether or not this classification reflects a functional dichotomy
Stefanie Wurm et al.
Genes & development, 29(2), 144-156 (2014-12-31)
Altered epidermal differentiation characterizes numerous skin diseases affecting >25% of the human population. Here we identified Fra-2/AP-1 as a key regulator of terminal epidermal differentiation. Epithelial-restricted, ectopic expression of Fra-2 induced expression of epidermal differentiation genes located within the epidermal
Federica Sinibaldi et al.
Biochemistry, 52(26), 4578-4588 (2013-06-07)
Cytochrome c undergoes structural variations during the apoptotic process; such changes have been related to modifications occurring in the protein when it forms a complex with cardiolipin, one of the phospholipids constituting the mitochondrial membrane. Although several studies have been
Hsiou-Ting Kuo et al.
Biochemistry, 52(51), 9212-9222 (2013-12-18)
β-Sheets are one of the fundamental three-dimensional building blocks for protein structures. Oppositely charged amino acids are frequently observed directly across one another in antiparallel sheet structures, suggesting the importance of cross-strand ion pairing interactions. Despite the apparent electrostatic nature
Synthetic biology: Two-for-one designer labels.
E James Petersson et al.
Nature chemistry, 6(5), 379-381 (2014-04-24)
Mohammad S Eram et al.
The Journal of biological chemistry, 289(17), 12177-12188 (2014-03-19)
PRDM9 (PR domain-containing protein 9) is a meiosis-specific protein that trimethylates H3K4 and controls the activation of recombination hot spots. It is an essential enzyme in the progression of early meiotic prophase. Disruption of the PRDM9 gene results in sterility
Sun-Shin Cha et al.
Biochemical and biophysical research communications, 450(2), 1045-1050 (2014-07-01)
MurF adds d-Ala-d-Ala dipeptide to UDP-N-acetylmuramyl-l-Ala-γ-d-Glu-m-DAP (or l-Lys) in an ATP-dependent manner, which is the last step in the biosynthesis of monomeric precursor of peptidoglycan. Here we report crystal structures of two MurF-ATP complexes: the MurF-ATP complex and the MurF-ATP-UDP
Jingjie Yi et al.
The Journal of biological chemistry, 289(49), 33878-33886 (2014-10-11)
The key member of the MOZ (monocyticleukaemia zinc finger protein), Ybf2/Sas3, Sas2, and TIP60 acetyltransferases family, Tat-interactive protein, 60 kD (TIP60), tightly modulates a wide array of cellular processes, including chromatin remodeling, gene transcription, apoptosis, DNA repair, and cell cycle
Christopher E Berndsen et al.
Nature structural & molecular biology, 21(4), 301-307 (2014-04-05)
E3 ligases carry out the final step in the ubiquitination cascade, catalyzing transfer of ubiquitin from an E2 enzyme to form a covalent bond with a substrate lysine. Three distinct classes of E3 ligases have been identified that stimulate transfer
Katrin Bagola et al.
Molecular cell, 50(4), 528-539 (2013-05-15)
Ubiquitin-binding domains (UBDs) differentially recognize ubiquitin (ub) modifications. Some of them specifically bind mono-ub, as has been shown for the CUE domain. Interestingly, so far no significant ubiquitin binding has been observed for the CUE domain of yeast Cue1p. Cue1p
Elizabeth Cox et al.
Biochimica et biophysica acta, 1838(9), 2198-2204 (2014-05-02)
Aminoacylated phosphatidylglycerols are common lipids in bacterial cytoplasmic membranes. Their presence in Staphylococcus aureus has been linked to increased resistance to a number of antibacterial agents, including antimicrobial peptides. Most commonly, the phosphatidylglycerol headgroup is esterified to lysine, which converts
Chunaram Choudhary et al.
Nature reviews. Molecular cell biology, 15(8), 536-550 (2014-07-24)
Lysine acetylation is a conserved protein post-translational modification that links acetyl-coenzyme A metabolism and cellular signalling. Recent advances in the identification and quantification of lysine acetylation by mass spectrometry have increased our understanding of lysine acetylation, implicating it in many
Hong Wen et al.
Nature, 508(7495), 263-268 (2014-03-05)
Recognition of modified histones by 'reader' proteins plays a critical role in the regulation of chromatin. H3K36 trimethylation (H3K36me3) is deposited onto the nucleosomes in the transcribed regions after RNA polymerase II elongation. In yeast, this mark in turn recruits
Marek Fol et al.
Acta microbiologica et immunologica Hungarica, 60(2), 127-144 (2013-07-06)
The lysine connection with phosphatidylglycerol (PG) alters the M. tuberculosis(Mtb) surface charge, and consequently it may decrease the bacterial vulnerability to antimicrobial action of the immune cells. The aim of the study was to assess the significance of PG lysinylation
Cuylar J T Conly et al.
Biochemistry, 53(47), 7396-7406 (2014-11-05)
Dihydrodipicolinate synthase (DHDPS), an enzyme found in most bacteria and plants, controls a critical step in the biosynthesis of l-lysine and meso-diaminopimelate, necessary components for bacterial cell wall biosynthesis. DHDPS catalyzes the condensation of pyruvate and (S)-aspartate-β-semialdehyde, forming an unstable
Liang Feng et al.
Die Pharmazie, 68(4), 251-256 (2013-05-25)
N-Epsilon-carboxymethyllysine (CML), one of the main compounds in advanced glycation end products (AGEs), has been thought to be a high bioaffinity ligand of the receptor for AGEs (RAGE), and is involved in the pathogenesis in endothelial dysfunction in diabetic vascular
Timothy J Stasevich et al.
Nature, 516(7530), 272-275 (2014-09-26)
In eukaryotic cells, post-translational histone modifications have an important role in gene regulation. Starting with early work on histone acetylation, a variety of residue-specific modifications have now been linked to RNA polymerase II (RNAP2) activity, but it remains unclear if
Haig A Eskandarian et al.
Science (New York, N.Y.), 341(6145), 1238858-1238858 (2013-08-03)
Pathogens dramatically affect host cell transcription programs for their own profit during infection, but in most cases, the underlying mechanisms remain elusive. We found that during infection with the bacterium Listeria monocytogenes, the host deacetylase sirtuin 2 (SIRT2) translocates to
C Derek Ma et al.
Nature, 517(7534), 347-350 (2015-01-17)
The structure of water near non-polar molecular fragments or surfaces mediates the hydrophobic interactions that underlie a broad range of interfacial, colloidal and biophysical phenomena. Substantial progress over the past decade has improved our understanding of hydrophobic interactions in simple
Guo-Min Li
Cancer research, 73(21), 6379-6383 (2013-10-23)
DNA mismatch repair (MMR) maintains genome stability primarily by correcting replication-associated mismatches. Defects in MMR lead to several human cancers characterized by frequent alterations in simple repetitive DNA sequences, a phenomenon called microsatellite instability (MSI). In most MSI-positive cancers, genetic
Huadong Liu et al.
Molecular cell, 50(5), 723-735 (2013-05-28)
Lysine methylation occurs on both histone and nonhistone proteins. However, our knowledge on the prevalence and function of nonhistone protein methylation is poor. We describe an approach that combines peptide array, bioinformatics, and mass spectrometry to systematically identify lysine methylation
Weixiao Liu et al.
The EMBO journal, 33(1), 46-61 (2013-12-25)
Cellular adaptation to proteotoxic stress at the endoplasmic reticulum (ER) depends on Lys48-linked polyubiquitination by ER-associated ubiquitin ligases (E3s) and subsequent elimination of ubiquitinated retrotranslocation products by the proteasome. The ER-associated E3 gp78 ubiquitinates misfolded proteins by transferring preformed Lys48-linked
Jean-Sébastien Jouhanneau et al.
Neuron, 84(5), 1065-1078 (2014-12-03)
Neighboring cortical excitatory neurons show considerable heterogeneity in their responses to sensory stimulation. We hypothesized that a subset of layer 2 excitatory neurons in the juvenile (P18 to 27) mouse whisker somatosensory cortex, distinguished by expression of the activity-dependent fosGFP
Catherine A Musselman et al.
Biochimica et biophysica acta, 1839(8), 686-693 (2014-04-15)
Lysine methylation is the most versatile covalent posttranslational modification (PTM) found in histones and non-histone proteins. Over the past decade a number of methyllysine-specific readers have been discovered and their interactions with histone tails have been structurally and biochemically characterized.
Panagiotis Ntziachristos et al.
Nature, 514(7523), 513-517 (2014-08-19)
T-cell acute lymphoblastic leukaemia (T-ALL) is a haematological malignancy with a dismal overall prognosis, including a relapse rate of up to 25%, mainly because of the lack of non-cytotoxic targeted therapy options. Drugs that target the function of key epigenetic
Francesca Mattiroli et al.
Nature structural & molecular biology, 21(4), 308-316 (2014-04-05)
Ubiquitin and ubiquitin-like modifications are central to virtually all cellular signaling pathways. They occur primarily on lysine residues of target proteins and stimulate a large number of downstream signals. The diversity of these signals depends on the type, location and
Audrey Letourneau et al.
Nature, 508(7496), 345-350 (2014-04-18)
Trisomy 21 is the most frequent genetic cause of cognitive impairment. To assess the perturbations of gene expression in trisomy 21, and to eliminate the noise of genomic variability, we studied the transcriptome of fetal fibroblasts from a pair of
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