Structure and backbone dynamics of Apo-CBFbeta in solution.

Abstract:

:Runx proteins constitute a family of mammalian transcription factors that interact with DNA through their evolutionarily conserved Runt domain. CBFbeta, alternatively denoted PEBP2beta, is the non-DNA-binding heterodimer partner and acts to enhance the DNA binding affinity of Runx proteins. Runx proteins and CBFbeta are associated with a variety of biological functions and human diseases; they are, for example, together the most frequent targets for chromosomal rearrangements in acute human leukemias. We have determined the solution structure and characterized the backbone dynamics of C-terminally truncated fragments containing residues 1-141 of CBFbeta. The present apo-CBFbeta structure is very similar to that seen in a Runt-CBFbeta complex. An evaluation of backbone (15)N NMR relaxation parameters shows that CBFbeta is a rigid molecule with high order parameters throughout the backbone; the only regions displaying significant dynamics are a long loop and the C-terminal alpha-helix. A few residues display relaxation behavior indicating conformational exchange on microsecond to millisecond time scales, but only one of these is located at the Runt binding surface. Our structure and dynamics analysis of CBFbeta therefore suggests that the protein binds to Runt without large conformational changes or induced folding ("lock-and-key" interaction). The apo-CBFbeta structure presented here exhibits several significant differences with two other published NMR ensembles of very similar protein fragments. The differences are located in four regions outside of the central beta-barrel, whereas the beta-barrel itself is almost identical in the three NMR structures. The comparison illustrates that independently determined NMR structures may display rather large differences in backbone conformation in regions that appear to be well-defined in each of the calculated NMR ensembles.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Wolf-Watz M,Grundström T,Härd T

doi

10.1021/bi010713+

subject

Has Abstract

pub_date

2001-09-25 00:00:00

pages

11423-32

issue

38

eissn

0006-2960

issn

1520-4995

pii

bi010713+

journal_volume

40

pub_type

杂志文章
  • Morin inhibits the early stages of amyloid β-peptide aggregation by altering tertiary and quaternary interactions to produce "off-pathway" structures.

    abstract::Alzheimer's disease is a debilitating neurodegenerative disorder whose pathology has been linked to the aggregation and deposition of the amyloid β-peptide (Aβ) in neural tissue. A truly effective therapeutic agent remains elusive, and attention has recently turned to the use of natural products as effective antiaggre...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi300113x

    authors: Lemkul JA,Bevan DR

    更新日期:2012-07-31 00:00:00

  • Thermodynamic parameters of the binding of retinol to binding proteins and to membranes.

    abstract::Retinol (vitamin A alcohol) is a hydrophobic compound and distributes in vivo mainly between binding proteins and cellular membranes. To better clarify the nature of the interactions of retinol with these phases which have a high affinity for it, the thermodynamic parameters of these interactions were studied. The tem...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00468a014

    authors: Noy N,Xu ZJ

    更新日期:1990-04-24 00:00:00

  • Photosystem II of green plants: topology of core pigments and redox cofactors as inferred from electrochromic difference spectra.

    abstract::Three electrochromic difference spectra induced by the deposition of (1) a negative charge on the primary quinone acceptor, Q(A), (2) a positive charge on (or near) Tyr161 of the D1 subunit (Y(Z)), and (3) a positive charge on the manganese cluster were determined at room temperature in photosystem II (PSII) core part...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9513057

    authors: Mulkidjanian AY,Cherepanov DA,Haumann M,Junge W

    更新日期:1996-03-05 00:00:00

  • Mechanism of inhibition of the (Ca2(+)-Mg2+)-ATPase by nonylphenol.

    abstract::The effects of nonylphenol and 3,5-dibutyl-4-hydroxytoluene (BHT) on the activity of the (Ca2(+)-Mg2+)-ATPase of skeletal muscle sarcoplasmic reticulum have been studied. At high concentrations, both inhibit the ATPase activity of the ATPase either in native lipid or in bilayers of dioleoylphosphatidylcholine but, at ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00464a028

    authors: Michelangeli F,Orlowski S,Champeil P,East JM,Lee AG

    更新日期:1990-03-27 00:00:00

  • Phenylalanine hydroxylase: absolute configuration and source of oxygen of the 4a-hydroxytetrahydropterin species.

    abstract::The formation of tyrosine from phenylalanine catalyzed by rat liver phenylalanine hydroxylase is coupled to the generation of a 4a-hydroxy adduct from the requisite tetrahydropterin cofactor. As indicated by its circular dichroism (CD) spectrum, the optical activity of the adduct generated from racemic 6-methyltetrahy...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00333a022

    authors: Dix TA,Bollag GE,Domanico PL,Benkovic SJ

    更新日期:1985-06-04 00:00:00

  • Protein engineering of subtilisin BPN': enhanced stabilization through the introduction of two cysteines to form a disulfide bond.

    abstract::Introduction of a disulfide bond by site-directed mutagenesis was found to enhance the stability of subtilisin BPN' (EC 3.4.21.14) under a variety of conditions. The location of the new disulfide bond was selected with the aid of a computer program, which scored various sites according to the amount of distortion that...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00382a002

    authors: Pantoliano MW,Ladner RC,Bryan PN,Rollence ML,Wood JF,Poulos TL

    更新日期:1987-04-21 00:00:00

  • Catalysis of phosphoryl group transfer. The role of divalent metal ions in the hydrolysis of lactic acid O-phenyl phosphate and salicylic acid O-aryl phosphates.

    abstract::The spontaneous hydrolyses of lactic acid O-phenyl phosphate (I) and, to a lesser extent, 3-hydroxybutyric acid O-phenyl phosphate (II) have been investigated and compared with similar intramolecular and bimolecular reactions. Compared to bimolecular nucleophilic reactions, the reactivity of II is similar to other sys...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00682a025

    authors: Steffens JJ,Siewers IJ,Benkovic SJ

    更新日期:1975-06-03 00:00:00

  • Local-access model for proton transfer in bacteriorhodopsin.

    abstract::The accessibility of the retinal Schiff base in bacteriorhodopsin was studied in the D85N/D96N mutant where the proton acceptor and donor are absent. Protonation and deprotonation of the Schiff base after pH jump without illumination and in the photocycle of the unprotonated Schiff base were measured in the visible an...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9728396

    authors: Brown LS,Dioumaev AK,Needleman R,Lanyi JK

    更新日期:1998-03-17 00:00:00

  • Antisera specific for the alpha 1, alpha 2, alpha 3, and beta subunits of the Na,K-ATPase: differential expression of alpha and beta subunits in rat tissue membranes.

    abstract::We have developed a panel of antibodies specific for the alpha 1, alpha 2, alpha 3, and beta subunits of the rat Na,K-ATPase. TrpE-alpha subunit isoform fusion proteins were used to generate three antisera, each of which reacted specifically with a distinct alpha subunit isotype. Western blot analysis of rat tissue mi...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00437a002

    authors: Shyjan AW,Levenson R

    更新日期:1989-05-30 00:00:00

  • Reconstitution of a defunct glycolytic pathway via recruitment of ambiguous sugar kinases.

    abstract::During a recent investigation of the persistence of substrate ambiguity in contemporary enzymes, we identified three distinct ambiguous sugar kinases embedded within the modern Escherichia coli genome [Miller, B. G., and Raines, R. T. (2004) Biochemistry 43, 6387-6392]. These catalysts are the YajF, YcfX, and NanK pol...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0506268

    authors: Miller BG,Raines RT

    更新日期:2005-08-16 00:00:00

  • Structure of bovine adrenal dopamine beta-monooxygenase, as deduced from cDNA and protein sequencing: evidence that the membrane-bound form of the enzyme is anchored by an uncleaved signal peptide.

    abstract::A full-length cDNA for dopamine beta-monooxygenase (D beta M) from bovine adrenal glands has been cloned and sequenced. The soluble and membrane-derived forms of D beta M have also been sequenced from their N-termini. While the observed sequences for the soluble protein correspond to those previously reported [Joh, T....

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00452a026

    authors: Taljanidisz J,Stewart L,Smith AJ,Klinman JP

    更新日期:1989-12-26 00:00:00

  • Inhibitors can activate proteases to catalyze the synthesis and hydrolysis of peptides.

    abstract::Competitive inhibitors can activate proteases (papain, trypsin, and cathepsin S) to catalyze the synthesis of peptide bonds and accelerate the hydrolysis of poor substrates (from 1 to 99%). Reaction mixtures contained intermediate molecules that were formed by the coupling of the inhibitor with the poor substrate. Thi...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi061910h

    authors: Schechter I,Ziv E

    更新日期:2006-12-12 00:00:00

  • In vitro interaction between ceruloplasmin and human serum transferrin.

    abstract::The thermodynamics of the interactions of serum apotransferrin (T) and holotransferrin (TFe(2)) with ceruloplasmin (Cp), as well as those of human lactoferrin (Lf), were assessed by fluorescence emission spectroscopy. Cp interacts with two Lf molecules. The first interaction depends on pH and μ, whereas the second doe...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi1014503

    authors: Ha-Duong NT,Eid C,Hémadi M,El Hage Chahine JM

    更新日期:2010-12-07 00:00:00

  • Antenna organization in green photosynthetic bacteria. 2. Excitation transfer in detached and membrane-bound chlorosomes from Chloroflexus aurantiacus.

    abstract::The photosynthetic antenna of Chloroflexus aurantiacus includes bacteriochlorophyll (BChl) C740 and BChl a792, both of which occur in chlorosomes, and B808-866 (containing BChl a808 and BChl a866), which is membrane-located (subscripts refer to near-infrared absorption maxima in vivo). BChl a792 is thought to mediate ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00400a024

    authors: Brune DC,King GH,Infosino A,Steiner T,Thewalt ML,Blankenship RE

    更新日期:1987-12-29 00:00:00

  • Rational engineering of mannosyl binding in the distal glycone subsites of Cellulomonas fimi endo-beta-1,4-mannanase: mannosyl binding promoted at subsite -2 and demoted at subsite -3.

    abstract::To date, rational redesign of glycosidase active-site clefts has been mainly limited to the removal of essential functionalities rather than their introduction. The glycoside hydrolase family 26 endo-beta-1,4-mannanase from the soil bacterium Cellulomonas fimi depolymerizes various abundant plant mannans. On the basis...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi100097f

    authors: Hekmat O,Lo Leggio L,Rosengren A,Kamarauskaite J,Kolenova K,Stålbrand H

    更新日期:2010-06-15 00:00:00

  • The SIV tilted peptide induces cylindrical reverse micelles in supported lipid bilayers.

    abstract::Elucidation of the molecular mechanism leading to biomembrane fusion is a challenging issue in current biomedical research in view of its involvement in controlling cellular functions and in mediating various important diseases. According to the generally admitted stalk mechanism described for membrane fusion, negativ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi060317x

    authors: El Kirat K,Dufrêne YF,Lins L,Brasseur R

    更新日期:2006-08-01 00:00:00

  • Dimers to doughnuts: redox-sensitive oligomerization of 2-cysteine peroxiredoxins.

    abstract::2-Cys peroxiredoxins (Prxs) are a large and diverse family of peroxidases which, in addition to their antioxidant functions, regulate cell signaling pathways, apoptosis, and differentiation. These enzymes are obligate homodimers (alpha(2)), utilizing a unique intermolecular redox-active disulfide center for the reduct...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi012173m

    authors: Wood ZA,Poole LB,Hantgan RR,Karplus PA

    更新日期:2002-04-30 00:00:00

  • Kinetics and mechanism of transitions involving the lamellar, cubic, inverted hexagonal, and fluid isotropic phases of hydrated monoacylglycerides monitored by time-resolved X-ray diffraction.

    abstract::A study of the dynamics and mechanism of the various thermotropic phase transitions undergone by the hydrated monoacylglycerides monoolein and monoelaidin, in the temperature range of 20-120 degrees C and from 0 to 5 M NaCl, has been undertaken. Measurements were made by using time-resolved X-ray diffraction at the Co...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00394a008

    authors: Caffrey M

    更新日期:1987-10-06 00:00:00

  • The family 1 beta-glucosidases from Pyrococcus furiosus and Agrobacterium faecalis share a common catalytic mechanism.

    abstract::Comparisons of catalytic mechanisms have not previously been performed for homologous enzymes from hyperthermophilic and mesophilic sources. Here, the beta-glucosidase from the hyperthermophilic archaeon Pyrococcus furiosus was recombinantly produced in Escherichia coli and shown to have biophyscial and biochemical pr...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9814944

    authors: Bauer MW,Kelly RM

    更新日期:1998-12-08 00:00:00

  • Cobalt-cytochrome c. I. Preparation, properties, and enzymic activity.

    abstract::An improved procedure for the preparation of cobalt-cytochrome c has been developed. Various factors influencing the cobalt insertion process are discussed. The optical spectra of cobalt-cytochrome c suggest a six-coordinated species. The spectral shifts occurring with oxidation-reduction are compared with those obser...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00687a003

    authors: Dickinson LC,Chien JC

    更新日期:1975-08-12 00:00:00

  • Quantitative understanding of the energy transfer between fluorescent proteins connected via flexible peptide linkers.

    abstract::The fusion of different protein domains via peptide linkers is a powerful, modular approach to obtain proteins with new functions. A detailed understanding of the conformational behavior of peptide linkers is important for applications such as fluorescence resonance energy transfer (FRET)-based sensor proteins and mul...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi061288t

    authors: Evers TH,van Dongen EM,Faesen AC,Meijer EW,Merkx M

    更新日期:2006-11-07 00:00:00

  • Control of mucin synthesis: the peptide portion of synthetic O-glycopeptide substrates influences the activity of O-glycan core 1 UDPgalactose:N-acetyl-alpha-galactosaminyl-R beta 3-galactosyltransferase.

    abstract::Synthetic O-glycopeptides containing one or two GalNAc residues attached to Ser or Thr were used as substrates to investigate the effect of peptide structure on the activity of crude preparations of UDP-Gal:GalNAc alpha-R beta 3-Gal-transferase from pig stomach and pig and rat colonic mucosa and of a partially purifie...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00496a008

    authors: Brockhausen I,Möller G,Merz G,Adermann K,Paulsen H

    更新日期:1990-11-06 00:00:00

  • Macrophage oxidation of L-arginine to nitrite and nitrate: nitric oxide is an intermediate.

    abstract::Previous studies have shown that murine macrophages immunostimulated with interferon gamma and Escherichia coli lipopolysaccharide synthesize NO2-, NO3-, and citrulline from L-arginine by oxidation of one of the two chemically equivalent guanido nitrogens. The enzymatic activity for this very unusual reaction was foun...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00424a003

    authors: Marletta MA,Yoon PS,Iyengar R,Leaf CD,Wishnok JS

    更新日期:1988-11-29 00:00:00

  • Solution-state structure of the Dewar pyrimidinone photoproduct of thymidylyl-(3'----5')-thymidine.

    abstract::The preparation, spectroscopic investigation, structure determination, conformational analysis, and modeling of the Dewar pyrimidinone photoproduct of thymidylyl-(3'----5')-thymidine, previously referred to as TpT3 [Johns, H. E., Pearson, M. L., LeBlanc, J. C., & Heilleiner, C. W. (1964) J. Mol. Biol. 9, 503-524], is ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00419a007

    authors: Taylor JS,Garrett DS,Cohrs MP

    更新日期:1988-09-20 00:00:00

  • Cyclopiazonic acid biosynthesis in Aspergillus sp.: characterization of a reductase-like R* domain in cyclopiazonate synthetase that forms and releases cyclo-acetoacetyl-L-tryptophan.

    abstract::The fungal neurotoxin alpha-cyclopiazonic acid (CPA), a nanomolar inhibitor of Ca2+-ATPase, has a pentacyclic indole tetramic acid scaffold that arises from one molecule of tryptophan, acetyl-CoA, malonyl-CoA, and dimethylallyl pyrophosphate by consecutive action of three enzymes, CpaS, CpaD, and CpaO. CpaS is a hybri...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi901123r

    authors: Liu X,Walsh CT

    更新日期:2009-09-15 00:00:00

  • Membrane Docking of the Synaptotagmin 7 C2A Domain: Computation Reveals Interplay between Electrostatic and Hydrophobic Contributions.

    abstract::The C2A domain of synaptotagmin 7 (Syt7) is a Ca(2+) and membrane binding module that docks and inserts into cellular membranes in response to elevated intracellular Ca(2+) concentrations. Like other C2 domains, Syt7 C2A binds Ca(2+) and membranes primarily through three loop regions; however, it docks at Ca(2+) conce...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.5b00422

    authors: Chon NL,Osterberg JR,Henderson J,Khan HM,Reuter N,Knight JD,Lin H

    更新日期:2015-09-22 00:00:00

  • Studies on the irreversible step of pepsinogen activation.

    abstract::The bond cleavage step of pepsinogen activation has been investigated in a kinetic study in which the denatured products of short-term acidifications were separated on SDS-polyacrylamide gels and the peptide products were quantitated by densitometry. Although several peptide products were observed, under the condition...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00432a040

    authors: Glick DM,Shalitin Y,Hilt CR

    更新日期:1989-03-21 00:00:00

  • Structure-activity analysis of a Conus peptide blocker of N-type neuronal calcium channels.

    abstract::The synthetic peptide SNX-111 corresponding to the sequence of the omega-conopeptide MVIIA from the venom of the marine snail Conus magus is a highly potent and selective antagonist of N-type calcium channels. We have synthesized and characterized a large number of analogs of SNX-111 in order to elucidate the structur...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00025a013

    authors: Nadasdi L,Yamashiro D,Chung D,Tarczy-Hornoch K,Adriaenssens P,Ramachandran J

    更新日期:1995-06-27 00:00:00

  • Picosecond infrared study of the photodynamics of carbonmonoxy-cytochrome c oxidase.

    abstract::Time-resolved infrared (TRIR) techniques have been employed to study the reactions of carbon monoxide with the cytochrome alpha 3-Cu(B) site of cytochrome c oxidase (CcO). The ligation dynamics immediately following photodissociation have been investigated using picosecond TRIR spectroscopy and linear dichroism. The r...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00168a015

    authors: Dyer RB,Peterson KA,Stoutland PO,Woodruff WH

    更新日期:1994-01-18 00:00:00

  • Gel to liquid-crystalline transition temperatures of water dispersions of two pairs of positional isomers of unsaturated mixed-acid phosphatidylcholines.

    abstract::The gel to liquid-crystalline phase transition temperatures of dispersions of mixed-acid sn-1,2-lecithins which contain one unsaturated and one saturated fatty acid have been studied by differential scanning calorimetry. The temperature for 1-oleoyl-2-palmitoyl-sn-glycero-3-phosphocholine (containing no reversed isome...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00515a051

    authors: Davis PJ,Fleming BD,Coolbear KP,Keough KM

    更新日期:1981-06-09 00:00:00