Mapping psoralen cross-links at the nucleotide level in mammalian cells: suppression of cross-linking at transcription factor- or nucleosome-binding sites.

abstract：:Long-range intraprotein interactions give rise to many important protein behaviors. Understanding how energy is transduced through protein structures to either transmit a signal or elicit conformational changes is therefore a current challenge in structural biology. In an effort to understand such linkages, multiple V...

journal_title：Biochemistry

authors： Clarkson MW,Gilmore SA,Edgell MH,Lee AL

更新日期：2006-06-27 00:00:00

abstract：:Nonenzymatic deamidation of asparagine and glutamine in peptides and proteins is a frequent modification both in vivo and in vitro. The biological effect is not completely understood, but it is often associated with protein degradation and loss of biological function. Here we describe the deamidation of CsgA, the majo...

journal_title：Biochemistry

authors： Wang H,Shu Q,Frieden C,Gross ML

更新日期：2017-06-13 00:00:00

abstract：:The influence of DNA base sequence context on the removal of a bulky benzo[a]pyrene diol epoxide-guanine adduct, (+)-trans-B[a]P-N2-dG (G*), by UvrABC nuclease from the thermophilic organism Bacillus caldotenax was investigated. The lesion was flanked by either T or C in otherwise identical complementary 43-mer duplex...

journal_title：Biochemistry

authors： Ruan Q,Liu T,Kolbanovskiy A,Liu Y,Ren J,Skorvaga M,Zou Y,Lader J,Malkani B,Amin S,Van Houten B,Geacintov NE

更新日期：2007-06-12 00:00:00

abstract：:Prolyl oligopeptidase B from Galerina marginata (GmPOPB) has recently been discovered as a peptidase capable of breaking and forming peptide bonds to yield a cyclic peptide. Despite the relevance of prolyl oligopeptidases in human biology and disease, a kinetic analysis pinpointing rate-limiting steps for a member of ...

journal_title：Biochemistry

authors： Czekster CM,Naismith JH

更新日期：2017-04-18 00:00:00

abstract：:Gadolinium (III) binds competitively with calcium(II) to porcine pancreatic phospholipase A2 (EC 3.1.1.4) and its zymogen. The enzyme-Gd3+ complex exhibits 4% of the hydrolytic activity of the corresponding Ca2+ complex toward a dispersion of dioctanoyllecithin. Dissociation constants for the Gd3+ complex of enzyme an...

journal_title：Biochemistry

authors： Hershberg RD,Reed GH,Slotboom AJ,deHaas GH

更新日期：1976-06-01 00:00:00

abstract：:Protein-protein interactions such as those between small G proteins and their effector proteins control most cell signaling pathways and thereby govern many cellular processes in both normal and disease states. Each small G protein interacts with several effectors, some shared between similar G proteins and others uni...

journal_title：Biochemistry

authors： Elliot-Smith AE,Owen D,Mott HR,Lowe PN

更新日期：2007-12-11 00:00:00

abstract：:We have used resonance energy transfer to read out the interactions of the alpha subunit of transducin (alpha T) with the transducin beta gamma subunit complex (beta gamma T) and to compare the rate of aluminum fluoride-induced alpha T activation, as reflected by the enhancement of the alpha T tryptophan fluorescence,...

journal_title：Biochemistry

authors： Mittal R,Cerione RA,Erickson JW

更新日期：1994-08-23 00:00:00

abstract：:A pathogenic bacterium has its own mechanisms for not only pathogenic attack but also exogenous invasion defense, in which the bacterial cell wall is the front line of attack and defense. We developed a biochemical lanthanide-encoding approach to quantify the uncanonical d-amino acid (d-X) that was edited in a small p...

journal_title：Biochemistry

authors： Zhao W,Liang Y,Yan X,Yang L,Wang Q

更新日期：2020-09-29 00:00:00

abstract：:Specific intra- and intermolecular quadruplex conformations of model G-DNA oligonucleotides have been identified from their translational and rotational diffusion coefficients in aqueous solution. The transport properties were determined by polarized and depolarized dynamic light scattering. A comparison with hydrodyn...

journal_title：Biochemistry

authors： Bolten M,Niermann M,Eimer W

更新日期：1999-09-21 00:00:00

abstract：:The human transferrin receptor (TfR) has three N-linked oligosaccharides. A combination of site-directed mutagenesis and carbohydrate and protein chemistry was used to characterize the structures of the N-linked oligosaccharides and to map their locations. We find that the type of oligosaccharide at each position was ...

journal_title：Biochemistry

authors： Hayes GR,Williams AM,Lucas JJ,Enns CA

更新日期：1997-04-29 00:00:00

abstract：:G proteins play an important role in transmitting hormonal signals, and fluorescence techniques would be useful to study their cellular distribution and mechanisms. To prepare active fluorescent G protein Go/Gi or beta gamma subunits were reacted with fluorescein isothiocyanate (FITC) to label the alpha (F-alpha) and ...

journal_title：Biochemistry

authors： Kwon G,Remmers AE,Datta S,Neubig RR

更新日期：1993-03-09 00:00:00

abstract：:Specific interactions of human melanocortin-4 receptor (hMC4R) with its nonpeptide and peptide agonists were studied using alanine-scanning mutagenesis. The binding affinities and potencies of two synthetic, small-molecule agonists (THIQ, MB243) were strongly affected by substitutions in transmembrane alpha-helices (T...

journal_title：Biochemistry

authors： Pogozheva ID,Chai BX,Lomize AL,Fong TM,Weinberg DH,Nargund RP,Mulholland MW,Gantz I,Mosberg HI

更新日期：2005-08-30 00:00:00

abstract：:The present study focuses on ligand-protein interactions in a rhodopsin analogue generated from bovine opsin and the 10-methyl homologue of 11-cis-retinal. The analogue pigment displays a reduced alpha-band at 506 +/- 2 and a stronger beta-band at 325 nm. Remarkably, the rotational strength of these bands observed in ...

journal_title：Biochemistry

authors： DeLange F,Bovee-Geurts PH,VanOostrum J,Portier MD,Verdegem PJ,Lugtenburg J,DeGrip WJ

更新日期：1998-02-03 00:00:00

abstract：:The polysaccharide-rich cell walls (CWs) of plants perform essential functions such as maintaining tensile strength and allowing plant growth. Using two- and three-dimensional magic-angle-spinning (MAS) solid-state NMR and uniformly (13)C-labeled Arabidopsis thaliana, we have assigned the resonances of the major polys...

journal_title：Biochemistry

authors： Dick-Pérez M,Zhang Y,Hayes J,Salazar A,Zabotina OA,Hong M

更新日期：2011-02-15 00:00:00

abstract：:Oxindolealanine-62 lysozyme, formed by reaction with N-bromosuccinimide and purified by using affinity chromatography, was examined in its binding of homologous oligosaccharides of N-acetylglucosamine and in its catalysis of hydrolysis and of transglycosylation of the hexasaccharide of N-acetylglucosamine. Equilibrium...

journal_title：Biochemistry

authors： Shrake A,Rupley JA

更新日期：1980-08-19 00:00:00

abstract：:Neuroligins 1-4 are postsynaptic transmembrane proteins capable of initiating presynaptic maturation via interactions with beta-neurexin. Both neuroligins and beta-neurexins have alternatively spliced inserts in their extracellular domains. Using analytical ultracentrifugation, we determined that the extracellular dom...

journal_title：Biochemistry

authors： Comoletti D,Flynn RE,Boucard AA,Demeler B,Schirf V,Shi J,Jennings LL,Newlin HR,Südhof TC,Taylor P

更新日期：2006-10-24 00:00:00

abstract：:We have separately expressed the Dictyosteliumdiscoideum myosin II nonhydrolyzer point mutations E459V and E476K [Ruppel, K. M., and Spudich, J. A. (1996) Mol. Biol. Cell 7, 1123-1136] in the soluble myosin head fragment M761-1R [Anson et al. (1996) EMBO J. 15, 6069-6074] and performed transient kinetic analyses to ch...

journal_title：Biochemistry

authors： Friedman AL,Geeves MA,Manstein DJ,Spudich JA

更新日期：1998-07-07 00:00:00

abstract：:Antisera were raised in rabbits against the 40-kDa alpha subunit of bovine lung GTP-binding protein, which were identified as the alpha subunit of Gi2 (Gi2 alpha) by the analysis of the partial amino acid sequence. Antibodies were purified with a Gi2 alpha-coupled Sepharose column and then were passed through a Gi1 al...

journal_title：Biochemistry

authors： Asano T,Morishita R,Semba R,Itoh H,Kaziro Y,Kato K

更新日期：1989-05-30 00:00:00

abstract：:Sequential 1H NMR assignments of a metallothionein from Neurospora crassa have been accomplished by the combined use of COSY, 2QF-COSY, HOHAHA, and rotating-frame NOE experiments. All potentially observable resonances were assigned except for the epsilon-NH3 group of the C-terminal lysine. 1H NOEs, when observed in th...

journal_title：Biochemistry

authors： Malikayil JA,Lerch K,Armitage IM

更新日期：1989-04-04 00:00:00

abstract：:The human antioxidant protein, HAH1, is an important participant in a Cu(I) transport chain, delivering one Cu(I) ion to the Wilson's (WND) or Menkes disease protein (MNK). Full geometry optimizations and second-derivative calculations were performed on several binding site models using the B3LYP functional to derive ...

journal_title：Biochemistry

authors： Op't Holt BT,Merz KM Jr

更新日期：2007-07-31 00:00:00

abstract：:Tetraheme cytochromes involved in photosynthetic electron transport have previously been described associated with the reaction centers of purple photosynthetic bacteria; however, similar heme proteins have not until now been characterized in the phylogenetically distinct green sulfur bacteria. In this paper we descri...

journal_title：Biochemistry

authors： Albouy D,Sturgis JN,Feiler U,Nitschke W,Robert B

更新日期：1997-02-18 00:00:00

abstract：:Comparative primary structural analyses have begun to elucidate polymorphic residues and segments of the class I antigens of the major histocompatibility complex, at least some of which presumably contribute to determinants important in immune recognition events. HLA-A2 structural variants have been described which ar...

journal_title：Biochemistry

authors： Krangel MS,Taketani S,Biddison WE,Strong DM,Strominger JL

更新日期：1982-11-23 00:00:00

abstract：:Past evidence has indicated that Mycobacterium gordonae, as isolated from soil and as an occasional opportunistic pathogen, exists as a serocomplex. We now demonstrate that the basis of seroreactivity and diversity is a novel series of alkali-labile, trehalose-containing lipooligosaccharides (LOS). The structures from...

journal_title：Biochemistry

authors： Besra GS,McNeil MR,Khoo KH,Dell A,Morris HR,Brennan PJ

更新日期：1993-11-30 00:00:00

abstract：:Tandem calponin-homology (CH) domains are the most common actin-binding domains in proteins. However, structural principles underlying their function are poorly understood. These tandem domains exist in multiple conformations with varying degrees of inter-CH-domain interactions. Dystrophin and utrophin tandem CH domai...

journal_title：Biochemistry

authors： Bandi S,Singh SM,Mallela KM

更新日期：2015-09-08 00:00:00

abstract：:Integrins are one of the major mediators of cellular adherence. Structurally the component alpha and beta chains are characterized by extensive intrachain disulfide bonding. The assignment of these bonds is currently based on homology with the chains of the integrin alphaIIbbeta3. However, recent crystallographic anal...

journal_title：Biochemistry

authors： Krokhin OV,Cheng K,Sousa SL,Ens W,Standing KG,Wilkins JA

更新日期：2003-11-11 00:00:00

abstract：:Exposure of mammalian cells (transformed mouse fibroblasts or rat hepatoma cells) to S-adenosyl-1,8-diamino-3-thiooctane produced profound changes in the intracellular polyamine content. Putrescine was increased and spermidine was decreased, consistent with the inhibition of spermidine synthase by this compound, which...

journal_title：Biochemistry

authors： Pegg AE,Tang KC,Coward JK

更新日期：1982-09-28 00:00:00

abstract：:Site-directed mutagenesis of the aspartate receptor of Salmonella typhimurium (Tars) at serine 68, a residue located within the aspartate binding pocket and at the subunit interface, identified this residue as an allosteric switch in this receptor. Substitutions at this position can affect both the type and degree of ...

journal_title：Biochemistry

authors： Kolodziej AF,Tan T,Koshland DE Jr

更新日期：1996-11-26 00:00:00

abstract：:The side chains of the interacting pair Asp237(helix VII)-Lys358(helix XI) or Asp240(helix VII)-Lys319(helix X) in the lactose permease of Escherichia coli were extended by replacement with Glu and/or Arg or by site-specific derivatization of single-Cys replacement mutants. Iodoacetic acid was used to carboxymethylate...

journal_title：Biochemistry

authors： Sahin-Tóth M,Kaback HR

更新日期：1993-09-28 00:00:00

abstract：:Hemocyanin (Hc) is a dinuclear copper protein that binds oxygen reversibly. The structure of the Cu(II) site in a derivative of hemocyanin known as green half-met (GHM) has been analyzed using the pulsed EPR technique of electron spin-echo envelope modulation (ESEEM) spectroscopy. The derivative, prepared by treating ...

journal_title：Biochemistry

authors： Magliozzo RS,Bubacco L,McCracken J,Jiang F,Beltramini M,Salvato B,Peisach J

更新日期：1995-02-07 00:00:00

abstract：:Frequency-resolved fluorescence measurements have been performed to quantitate the lateral stress of the lipid layer containing nonbilayer phase preferring dioleoylphosphatidylethanolamine (DOPE). On the basis of a new rotational diffusion model, the wobbling diffusion constant (Dw), the curvature-related hopping diff...

journal_title：Biochemistry

authors： Chen SY,Cheng KH,Van der Meer BW

更新日期：1992-04-21 00:00:00