The CD4 determinant for downregulation by HIV-1 Nef directly binds to Nef. Mapping of the Nef binding surface by NMR.

Abstract:

:Using heteronuclear NMR spectroscopy, we demonstrate that a 13-residue peptide (MS-QIKRLLSEKKT) from the cytoplasmic tail of CD4 binds to Nef protein. This part of CD4 is critical for downregulation of CD4 by HIV-1 Nef [Aiken et al. (1994) Cell 76, 853-864]. We show that a control peptide without the central dileucine does not bind to Nef. The dependence of Nef 1H and 15N amide chemical shifts on peptide concentration indicates that the binding is in the fast chemical exchange limit, with a dissociation constant Kd of approximately 1 mM. The peptide binding site has been mapped onto the previously determined solution structure of HIV-1 Nef [Grzesiek et al. (1996) Nat. Struct. Biol. 3, 340-345] on the basis of peptide-induced chemical shift changes. It comprises amino acids W57, L58, E59, G95, G96, L97, R106, and L110. When Nef is complexed to the SH3 domain of Hck tyrosine protein kinase, the peptide binds to the same site on Nef but with slightly higher affinity (Kd approximately 0.5 mM). This indicates that the binding of CD4 and Hck SH3 to Nef are two compatible and slightly cooperative events.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Grzesiek S,Stahl SJ,Wingfield PT,Bax A

doi

10.1021/bi9611164

subject

Has Abstract

pub_date

1996-08-13 00:00:00

pages

10256-61

issue

32

eissn

0006-2960

issn

1520-4995

pii

bi9611164

journal_volume

35

pub_type

杂志文章
  • Effects of 3 beta-[2-(diethylamino)ethoxy]androst-5-en-17-one on the synthesis of cholesterol and ubiquinone in rat intestinal epithelial cell cultures.

    abstract::The relationship between cholesterol and ubiquinone synthesis in rat intestinal epithelial cell cultures was examined by using 3 beta-[2-(diethylamino)ethoxy]androst-5-en-17-one hydrochloride (U18666A). Addition of U18666A to cells caused a greater than 90% inhibition of incorporation of [3H]acetate into cholesterol a...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00294a001

    authors: Sexton RC,Panini SR,Azran F,Rudney H

    更新日期:1983-12-06 00:00:00

  • Hypochlorous acid reacts with the N-terminal methionines of proteins to give dehydromethionine, a potential biomarker for neutrophil-induced oxidative stress.

    abstract::Electrophilic halogenating agents, including hypohalous acids and haloamines, oxidize free methionine and the N-terminal methionines of peptides and proteins (e.g., Met-1 of anti-inflammatory peptide 1 and ubiquitin) to produce dehydromethionine (a five-membered isothiazolidinium heterocycle). Amide derivatives of met...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi901343d

    authors: Beal JL,Foster SB,Ashby MT

    更新日期:2009-11-24 00:00:00

  • Equilibrium and kinetics of the reaction of Aplysia myoglobin with azide.

    abstract::The present paper reports a study on the equilibria and kinetics of the acid-alkaline transition and the azide binding reaction by ferric Aplysia myoglobin. A single completely reversible spectrophotometric titration curve is found over the pH range from similar to 5 to similar to 9, with an apparent pK equals to 7.5 ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00679a006

    authors: Giacometti GM,Da Ros A,Antonini E,Brunori M

    更新日期:1975-04-22 00:00:00

  • Functional interactions in cytochrome P450BM3. Evidence that NADP(H) binding controls redox potentials of the flavin cofactors.

    abstract::NADP(H) binding is essential for fast electron transfer through the flavoprotein domain of the fusion protein P450BM3. Here we characterize the interaction of NADP(H) with the oxidized and partially reduced enzyme and the effect of this interaction on the redox properties of flavin cofactors and electron transfer. Mea...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi001068u

    authors: Murataliev MB,Feyereisen R

    更新日期:2000-10-17 00:00:00

  • Intrinsic uncoupling in proton-pumping cytochrome c oxidase: pH dependence of cytochrome c oxidation in coupled and uncoupled phospholipid vesicles.

    abstract::The pH dependence of the transient aerobic kinetics of cytochromes c and a has been investigated with cytochrome oxidase reconstituted in phospholipid vesicles in the absence and presence of an uncoupler and an ionophore. The cytochrome a reduction level immediately after the burst phase was 60-80% and was not signifi...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00434a007

    authors: Maison-Peteri B,Malmström BG

    更新日期:1989-04-18 00:00:00

  • 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

  • Nucleoside diphosphate kinase from bovine retina: purification, subcellular localization, molecular cloning, and three-dimensional structure.

    abstract::The biochemical and structural properties of bovine retinal nucleoside diphosphate kinase were investigated. The enzyme showed two polypeptides of approximately 17.5 and 18.5 kDa on SDS-PAGE, while isoelectric focusing revealed seven to eight proteins with a pI range of 7.4-8.2. Sedimentation equilibrium yielded a mol...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi980853s

    authors: Abdulaev NG,Karaschuk GN,Ladner JE,Kakuev DL,Yakhyaev AV,Tordova M,Gaidarov IO,Popov VI,Fujiwara JH,Chinchilla D,Eisenstein E,Gilliland GL,Ridge KD

    更新日期:1998-10-06 00:00:00

  • DNA photolyase repairs the trans-syn cyclobutane thymine dimer.

    abstract::DNA photolyases catalyze the splitting of the cyclobutane ring joining the two dihydropyrimidines of a pyrimidine dimer by a photoinduced electron-transfer reaction. Previous studies concluded that photolyase repairs only the cis-syn form of the eight stereoisomers of the cyclobutane pyrimidine dimer (Pyr[ ]Pyr). In t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00079a001

    authors: Kim ST,Malhotra K,Smith CA,Taylor JS,Sancar A

    更新日期:1993-07-20 00:00:00

  • Folding of the SAM aptamer is determined by the formation of a K-turn-dependent pseudoknot.

    abstract::The S-adenosylmethionine (SAM) riboswitch is one of the most recurrent riboswitches found in bacteria and has three known different natural aptamers. The Bacillus subtilis yitJ SAM riboswitch aptamer is organized around a four-way junction which is characterized by the presence of a pseudoknot and a K-turn motif. By r...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi701164y

    authors: Heppell B,Lafontaine DA

    更新日期:2008-02-12 00:00:00

  • Reactions of benzylamines with methylamine dehydrogenase. Evidence for a carbanionic reaction intermediate and reaction mechanism similar to eukaryotic quinoproteins.

    abstract::It had been previously reported that aromatic amines were not substrates for the bacterial quinoprotein methylamine dehydrogenase. In this study, benzylamine-dependent activity was also not observed in the steady-state assay of this enzyme with the artificial electron acceptor phenazine ethosulfate (PES). Benzylamines...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00128a012

    authors: Davidson VL,Jones LH,Graichen ME

    更新日期:1992-04-07 00:00:00

  • Domain characteristics of the carboxyl-terminal fragment 206-316 of thermolysin: immunochemical studies.

    abstract::The extent of nativeness of the stable conformation of the thermolysin fragment containing the carboxyl-terminal third of the protein (from residues 206 to 316, denoted fragment FII) was examined by its immunogenic and antigenic characteristics. Antisera elicited in rabbits by either intact thermolysin or fragment FII...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00538a007

    authors: Vita C,Fontana A,Chaiken IM

    更新日期:1982-04-27 00:00:00

  • Helix stability in prokaryotic promoter regions.

    abstract::Prokaryotic promoters have been extensively studied to relate sequence features to promoter function. Here we examine the relationship between double-helix stability and promoter activity. The double-helix stability is evaluated from sequence data by free energy computation, based on reported values of dinucleotide fr...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00414a035

    authors: Margalit H,Shapiro BA,Nussinov R,Owens J,Jernigan RL

    更新日期:1988-07-12 00:00:00

  • Characterization of synthetic human granulocyte chemotactic protein 2: usage of chemokine receptors CXCR1 and CXCR2 and in vivo inflammatory properties.

    abstract::Human granulocyte chemotactic protein 2 (GCP-2) has originally been isolated from cytokine-stimulated osteosarcoma cells as a chemokine coproduced in minute amounts together with interleukin 8. Human GCP-2 (75 residues) was synthesized on a 0.25-mmol scale using Fmoc chemistry. After disulfide bridge formation and pur...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi961999z

    authors: Wuyts A,Van Osselaer N,Haelens A,Samson I,Herdewijn P,Ben-Baruch A,Oppenheim JJ,Proost P,Van Damme J

    更新日期:1997-03-04 00:00:00

  • Ligand binding to heme proteins: the effect of light on ligand binding in myoglobin.

    abstract::Extended illumination slows the rebinding of CO to myoglobin after photodissociation at cryogenic temperatures. Two types of models have been put forward to explain the effect: motions of the CO within the heme pocket or conformational transitions of the protein. To resolve this ambiguity, we have studied the effect o...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00249a030

    authors: Nienhaus GU,Mourant JR,Chu K,Frauenfelder H

    更新日期:1994-11-15 00:00:00

  • Catalytic function and local proton structure at the type 2 copper of nitrite reductase: the correlation of enzymatic pH dependence, conserved residues, and proton hyperfine structure.

    abstract::Electron nuclear double resonance (ENDOR) of protons at Type 2 and Type 1 cupric active sites correlates with the enzymatic pH dependence, the mutation of nearby conserved, nonligating residues, and electron transfer in heterologously expressed Rhodobacter sphaeroides nitrite reductase. Wild-type enzyme showed a pH 6 ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0256274

    authors: Zhao Y,Lukoyanov DA,Toropov YV,Wu K,Shapleigh JP,Scholes CP

    更新日期:2002-06-11 00:00:00

  • Photochemical cross-linking of tRNA1Arg to the 30S ribosomal subunit using aryl azide reagents attached to the anticodon loop.

    abstract::The 2-thiocytidine residue at position 32 of tRNA1Arg from Escherichia coli was modified specifically with three photoaffinity reagents of different lengths, and the corresponding N-acetylarginyl-tRNA1Arg derivatives were cross-linked to the P site of E. coli 70S ribosomes by irradiation. Covalent attachment was depen...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00339a011

    authors: Chen JK,Franke LA,Hixson SS,Zimmermann RA

    更新日期:1985-08-27 00:00:00

  • Large-scale purification and characterization of a highly active four-subunit cytochrome bc1 complex from Rhodobacter sphaeroides.

    abstract::A highly active, large-scale preparation of ubiquinol:cytochrome c2 oxidoreductase (EC 1.10.2.2; cytochrome bc1 complex) has been obtained from Rhodobacter sphaeroides. The enzyme was solubilized from chromatophores by using dodecyl maltoside in the presence of glycerol and was purified by anion-exchange and gel filtr...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00463a004

    authors: Andrews KM,Crofts AR,Gennis RB

    更新日期:1990-03-20 00:00:00

  • FTIR spectroscopic characterization of the cytochrome aa3 from Acidianus ambivalens: evidence for the involvement of acidic residues in redox coupled proton translocation.

    abstract::The aa(3)-type quinol oxidase from Acidianus ambivalens is a divergent member of the heme-copper oxidases superfamily, namely, concerning the putative channels for intraprotein proton conduction. In this study, we used electrochemically induced FTIR difference spectroscopy to identify residues involved in redox-couple...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0205348

    authors: Hellwig P,Gomes CM,Teixeira M

    更新日期:2003-05-27 00:00:00

  • Intramolecular disulfide loop formation in a peptide containing two cysteines.

    abstract::The cyanogen bromide fragment comprising residues 115-181 of Kunitz soybean trypsin inhibitor is a soluble random-coil peptide at pH 7 containing two cysteines separated by eight other amino acids in the primary sequence. Four of the six rate constants have been determined for the three disulfide exchange reactions be...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00377a005

    authors: Snyder GH

    更新日期:1987-02-10 00:00:00

  • Hydrophobic core of the steroidogenic acute regulatory protein for cholesterol transport.

    abstract::The steroidogenic acute regulatory protein (StAR), the first family member of START (StAR-related lipid transport) proteins, plays an essential role by facilitating the movement of cholesterol from the outer to inner mitochondrial membrane. Wild-type and mutant StAR binds cholesterol with similar intensity, but only w...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi801514e

    authors: Bose HS,Whittal RM,Bose M,Debnath D

    更新日期:2009-02-17 00:00:00

  • Formation of radiation-induced cross-links between thymine and tyrosine: possible model for cross-linking of DNA and proteins by ionizing radiation.

    abstract::A model for radiation-induced cross-linking of DNA and proteins has been developed. It is based on initial formation of free radicals on a DNA base, i.e., thymine, and on an amino acid, i.e., tyrosine. It was demonstrated that interaction of these radicals is highly favored as measured by their kinetics and the cross-...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00322a034

    authors: Simic MG,Dizdaroglu M

    更新日期:1985-01-01 00:00:00

  • Behavior of fragmented calcium (II) adenosine triphosphatase from sarcoplasmic reticulum in detergent solution.

    abstract::The behavior of Ca2+-ATPase from sarcoplasmic reticulum in detergent solution was compared with that of Ca2+-ATPase which had been cleaved in half by limited trypsin digestion. Attempts to dissociate the fragments (I and II) with an excess of detergent micelles demonstrated that fragments I and II are structurally dep...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00612a028

    authors: Rizzolo LJ,Tanford C

    更新日期:1978-09-19 00:00:00

  • Plant Translation Initiation Complex eIFiso4F Directs Pokeweed Antiviral Protein to Selectively Depurinate Uncapped Tobacco Etch Virus RNA.

    abstract::Pokeweed antiviral protein (PAP) is a ribosome inactivating protein (RIP) that depurinates the sarcin/ricin loop (SRL) of rRNA, inhibiting protein synthesis. PAP depurinates viral RNA, and in doing so, lowers the infectivity of many plant viruses. The mechanism by which PAP accesses uncapped viral RNA is not known, im...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.7b00598

    authors: Domashevskiy AV,Williams S,Kluge C,Cheng SY

    更新日期:2017-11-14 00:00:00

  • Replication of antibiotic resistance plasmid R6K DNA in vitro.

    abstract::A soluble extract prepared from cells of an Escherichia coli strain carrying the antibiotic resistance plasmid R6K is capable of carrying out the complete process of R6K DNA replication. DNA synthesis in vitro is dependent on the four deoxyribo- and ribonucleotide triphosphates and is sensitive to rifampin and strepto...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00606a017

    authors: Inuzuka M,Helinski DR

    更新日期:1978-06-27 00:00:00

  • Circadian genomics reveal a role for post-transcriptional regulation in mammals.

    abstract::To maintain daily cycles, the circadian clock must tightly regulate the rhythms of thousands of mRNAs and proteins with the correct period, phase, and amplitude to ultimately drive the wide range of rhythmic biological processes. Recent genomic approaches have revolutionized our view of circadian gene expression and h...

    journal_title:Biochemistry

    pub_type: 杂志文章,评审

    doi:10.1021/bi500707c

    authors: Kojima S,Green CB

    更新日期:2015-01-20 00:00:00

  • The Ebola Viral Protein 35 N-Terminus Is a Parallel Tetramer.

    abstract::Members of Mononegavirales, the order that includes nonsegmented negative sense RNA viruses (NNSVs), encode a small number of multifunctional proteins. In members of the Filoviridae family, virus protein 35 (VP35) facilitates immune evasion and functions as an obligatory cofactor for viral RNA synthesis. VP35 function...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.8b01154

    authors: Chanthamontri CK,Jordan DS,Wang W,Wu C,Lin Y,Brett TJ,Gross ML,Leung DW

    更新日期:2019-02-12 00:00:00

  • Basic proline-rich proteins from human parotid saliva: complete covalent structures of proteins IB-1 and IB-6.

    abstract::The complete amino acid sequences of two basic proline-rich proteins, IB-1 and IB-6, from human parotid saliva have been determined. Fragments for sequence analysis were obtained by enzymatic digestions. The proteins have molecular weights of 9571 (IB-1) and 11,530 (IB-6) and contain 34 and 39 mol % proline, respectiv...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00357a013

    authors: Kauffman D,Hofmann T,Bennick A,Keller P

    更新日期:1986-05-06 00:00:00

  • A reexamination of the nucleotide incorporation fidelity of DNA polymerases.

    abstract::Intensive study has been devoted to understanding the kinetic and structural bases underlying the exceptionally high fidelity (low error frequencies) of the typical DNA polymerase. Commonly proposed explanations have included (i) the concept of fidelity check points, in which the correctness of a nascent base pair mat...

    journal_title:Biochemistry

    pub_type: 杂志文章,评审

    doi:10.1021/bi026021i

    authors: Showalter AK,Tsai MD

    更新日期:2002-08-27 00:00:00

  • Simple method for selecting catalytic monoclonal antibodies that exhibit turnover and specificity.

    abstract::Monoclonal antibodies were raised against a mono-p-nitrophenyl phosphonate ester to elicit catalytic antibodies capable of hydrolyzing the analogous p-nitrophenyl ester or carbonate. Potential catalytic antibody producing clones were selected, by use of a competitive inhibition assay, on the basis of their affinity fo...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00494a023

    authors: Tawfik DS,Zemel RR,Arad-Yellin R,Green BS,Eshhar Z

    更新日期:1990-10-23 00:00:00

  • Thermodynamics of reversible monomer-dimer association of tubulin.

    abstract::The equilibrium between the rat brain tubulin alpha beta dimer and the dissociated alpha and beta monomers has been studied by analytical ultracentrifugation with use of a new method employing short solution columns, allowing rapid equilibration and hence short runs, minimizing tubulin decay. Simultaneous analysis of ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00228a023

    authors: Sackett DL,Lippoldt RE

    更新日期:1991-04-09 00:00:00