Abstract：
:Protein-lipid interactions regulate many membrane protein functions. Using a multiscale approach that combines coarse-grained and atomistic molecular dynamics simulations, we have predicted the binding site for the anionic phospholipid phosphatidylinositol 4,5-bisphosphate (PIP(2)) on the Kir2.2 inwardly rectifying (Kir) potassium channel. Comparison of the predicted binding site to that observed in the recent PIP(2)-bound crystal structure of Kir2.2 reveals good agreement between simulation and experiment. In addition to providing insight into the mechanism by which PIP(2) binds to Kir2.2, these results help to establish the validity of this multiscale simulation approach and its future application in the examination of novel membrane protein-lipid interactions in the increasing number of high-resolution membrane protein structures that are now available.
journal_name
Biochemistryjournal_title
Biochemistryauthors
Schmidt MR,Stansfeld PJ,Tucker SJ,Sansom MSdoi
10.1021/bi301350ssubject
Has Abstractpub_date
2013-01-15 00:00:00pages
279-81issue
2eissn
0006-2960issn
1520-4995journal_volume
52pub_type
杂志文章相关文献
BIOCHEMISTRY文献大全abstract：:Previously [Luz et al. (1994) Biochemistry 33, 7239-7249], we determined that Cl(-)- and -HCO3-dependent pHi homeostasis was perturbed in multidrug resistant (MDR) cells created by transfecting LR73 Chinese hamster ovary fibroblasts with wild-type mu (murine) MDR 1 (Gros et al., 1991). Via single-cell photometry exper...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00202a021
更新日期：1994-09-13 00:00:00
abstract：:Two peptides designed for drug delivery were generated by the combination of a signal peptide with a nuclear localization sequence and are shown to facilitate the cellular internalization of small molecules which are covalently linked to these peptides. In order to understand the mechanism of internalization, the conf...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi9708491
更新日期：1997-09-16 00:00:00
abstract：:Kinesin-5 proteins are essential for formation of a bipolar mitotic spindle in most and, perhaps all, eukaryotic cells. Several Kinesin-5 proteins, notably the human version, HsEg5, are targets of a constantly expanding group of small-molecule inhibitors, which hold promise both as tools for probing mechanochemical tr...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi801291q
更新日期：2009-03-03 00:00:00
abstract：:We studied the binding characteristics of a synthetic 20-residue peptide to supported single planar bilayers of phosphatidylcholine, and the orientation of the peptide by Fourier-transform infrared spectroscopy with an attenuated total reflection method. This peptide, designed to resemble a putative fusion peptide of ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi952547+
更新日期：1996-04-16 00:00:00
abstract：:Locusta migratoria apolipophorin III (apoLp-III) is a helix bundle exchangeable apolipoprotein that reversibly binds to lipoprotein surfaces. Structural reorganization of its five amphipathic alpha-helices enables the transition from the lipid-free to lipid-bound state. ApoLp-III-induced transformation of dimyristoylp...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi010410f
更新日期：2001-06-26 00:00:00
abstract：:Actin depolymerizing factor (ADF)/cofilin enhances turnover of actin filaments by severing and depolymerizing filaments. A number of proteins functionally interact with ADF/cofilin to modulate the dynamics of actin filaments. Actin-interacting protein 1 (AIP1) has emerged as a conserved WD-repeat protein that specific...
journal_title：Biochemistry
pub_type： 杂志文章,评审
doi：10.1021/bi034600x
更新日期：2003-11-25 00:00:00
abstract：:Oligodeoxynucleotides modified site-specifically with dG-(+)-trans- and dG-(+)-cis-anti-BPDE (7,8-dihydroxy-9,10-epoxy-7,8,9,10-tetrahydrobenzo[a]pyrene) or dG-(-)-trans- and dG-(-)-cis-anti-BPDE were used as templates in primer extension reactions catalyzed by the Klenow fragment of Escherichia coli DNA polymerase I....
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00080a027
更新日期：1993-07-27 00:00:00
abstract：:The S100 proteins comprise a group of EF-hand proteins that undergo a calcium-induced conformational change allowing them to interact with other proteins and produce a biological response. A unique feature of these proteins is the fact that they can form both homo- and heterodimers independent of calcium binding. The ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi802086a
更新日期：2009-03-10 00:00:00
abstract：:Phosphatidylserine (PS) in the plasma membrane of nonactivated human platelets is almost entirely located on the cytoplasmic side. Stimulation of platelets with the Ca2+ ionophore A23187 or combined action of collagen plus thrombin results in a rapid loss of the asymmetric distribution of PS. Also, treatment with the ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00432a007
更新日期：1989-03-21 00:00:00
abstract：:The fluorescence properties of three variants of alpha-lactalbumin (alpha-LA) containing a single tryptophan residue were investigated under native, molten globule, and unfolded conditions. These proteins have levels of secondary structure and stability similar to those of the wild type. The fluorescence signal in the...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi010004w
更新日期：2001-06-19 00:00:00
abstract：:Protein methylation is a common post-translational modification with diverse biological functions. Methyllysine reader proteins are increasingly a focus of epigenetics research and play important roles in regulating many cellular processes. These reader proteins are vital players in development, cell cycle regulation,...
journal_title：Biochemistry
pub_type： 杂志文章,评审
doi：10.1021/acs.biochem.5b01073
更新日期：2016-03-22 00:00:00
abstract：:β-Lactam antibiotics have faced obsolescence with the emergence of methicillin-resistant Staphylococcus aureus (MRSA). A complex set of events ensues upon exposure of MRSA to these antibiotics, which culminates in proteolysis of BlaI or MecI, two gene repressors, and results in the induction of resistance. We report s...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi500074w
更新日期：2014-03-18 00:00:00
abstract：:Thermococcus litoralis 4-alpha-glucanotransferase (TLGT) belongs to family 57 of glycoside hydrolases and catalyzes the disproportionation and cycloamylose synthesis reactions. Family 57 glycoside hydrolases have not been well investigated, and even the catalytic mechanism involving the active site residues has not be...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi011017c
更新日期：2001-10-16 00:00:00
abstract：:Cyclopentenone prostanoids (cyP) arise as important modulators of inflammation and cell proliferation. Although their physiological significance has not been fully elucidated, their potent biological effects have spurred their study as leads for the development of therapeutic agents. A key determinant of cyP action is...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi602389p
更新日期：2007-06-05 00:00:00
abstract：:Z-Ala-Ala-Phe-glyoxal (where Z is benzyloxycarbonyl) has been shown to be a competitive inhibitor of pepsin with a Ki = 89 +/- 24 nM at pH 2.0 and 25 degrees C. Both the ketone carbon (R13COCHO) and the aldehyde carbon (RCO13CHO) of the glyoxal group of Z-Ala-Ala-Phe-glyoxal have been 13C-enriched. Using 13C NMR, it h...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi701000k
更新日期：2007-10-02 00:00:00
abstract：:Intermolecular triplex DNA is stabilized by metal cations and polyamines which reduce repulsion between the negatively charged phosphates of the three nucleic acid strands. We use a quantitative chemical-probing assay involving protection of duplex guanines in a homopyrimidine.homopurine (Py.Pu) sequence from dimethyl...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00045a033
更新日期：1995-11-14 00:00:00
abstract：:Recently, a new clathrin assembly protein (AP180) has been purified from coated vesicles of bovine brain (Ahle & Ungewickell, 1986). This protein has been shown to promote polymerization of clathrin into a homogeneous population of baskets under conditions where pure clathrin does not polymerize by itself. We have pur...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00416a040
更新日期：1988-08-09 00:00:00
abstract：:Chemical modification of mitochondrial F1-ATPase from Schizosaccharomyces pombe by the tryptophan-specific reagent N-bromosuccinimide (NBS) at pH 5.0 in the presence of 20% glycerol produced a characteristic lowering in both enzyme absorbance at 280 nm and intrinsic fluorescence at 332 nm that varied with NBS/F1 molar...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00055a004
更新日期：1993-02-02 00:00:00
abstract：:The complete amino acid sequence of human liver cytosolic alanine aminotransferase (GPT) (EC 2.6.1.2) is presented. Two primary sets of overlapping fragments were obtained by cleavage of the pyridylethylated protein at methionyl and lysyl bonds with cyanogen bromide and Achromobacter protease I, respectively. Isolated...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00107a013
更新日期：1991-10-29 00:00:00
abstract：:Urea lesions are formed in DNA because of free radical damage of the thymine base, and their occurrence in DNA blocks DNA polymerases, which has deleterious consequences. Recently, it has been shown that urea is capable of forming hydrogen bonding and stacking interactions with nucleobases, which are responsible for t...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.6b00309
更新日期：2016-10-11 00:00:00
abstract：:We recently showed that ligand-mediated cross-linking of FcepsilonRI, the high-affinity receptor for immunoglobulin E, on RBL-2H3 mast cells results in its co-isolation with detergent-resistant membranes (DRM) and its consequent tyrosine phosphorylation by the co-localized tyrosine kinase Lyn that is a critical early ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi9828324
更新日期：1999-06-22 00:00:00
abstract：:P-Selectin, expressed on activated endothelial cells and platelets, is a high kinetic adhesion receptor involved in leukocyte rolling of the inflammatory response, or in tumor cell binding in the course of metastasis. Thus, P-selectin inhibition is a promising therapeutic target. The anti-inflammatory and anti-metasta...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi602347g
更新日期：2007-05-22 00:00:00
abstract：:In this study, we have investigated the influence of regions outside the DNA-binding domain of the human glucocorticoid receptor on high-affinity DNA binding. We find that the DNA-binding domain shows a 10-fold lower affinity for a palindromic DNA-binding site than the intact receptor. The N-terminal part of the recep...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00152a047
更新日期：1992-09-22 00:00:00
abstract：:While calcium binding to troponin C (TnC) triggers the contraction of both skeletal and cardiac muscle, there is clear evidence that different mechanisms may be involved. For example, activation of heart myofilaments occurs with binding to a single regulatory site on TnC, whereas activation of fast skeletal myofilamen...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi971223d
更新日期：1997-10-07 00:00:00
abstract：:Stopped-flow fluorescence experiments have been carried out to study the steady-state kinetics of hydrolysis of Leu-Gly-NHNH-Dns [Dns = 5-(dimethylamino)naphthalene-1-sulfonyl] by porcine kidney cytosol leucine aminopeptidase (LAP) in 50% v/v methanol/buffer solution at ambient temperature and the pre-steady-state kin...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00414a018
更新日期：1988-07-12 00:00:00
abstract：:Soybean lipoxygenase 1 was studied using limited proteolysis and active-site labeling to begin the structural characterization of the enzyme in solution. The serine proteases trypsin and chymotrypsin cleaved the large monomeric protein (95 kDa) into two large polypeptides, a C-terminal fragment of about 30 kDa and an ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00148a034
更新日期：1992-08-25 00:00:00
abstract：:2H NMR spectroscopy was used to consider correspondence between existing single-crystal X-ray data for glycosphingolipids and their ceramide backbone conformation in fluid phospholipid membranes. A monoglycosylated sphingolipid, glucosylceramide (GlcCer), which represents the core structure of many important glycosphi...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00066a024
更新日期：1993-04-20 00:00:00
abstract：:The thermodynamic binding parameters and crystal structure for streptavidin-peptide complexes where the peptide sequences were obtained by random screening methods are reported. The affinities between streptavidin and two heptapeptides were determined by titrating calorimetric methods [Phe-Ser-His-Pro-Gln-Asn-Thr, Ka ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00154a004
更新日期：1992-10-06 00:00:00
abstract：:The X-ray crystal structure of the At5g18200.1 protein has been determined to a nominal resolution of 2.30 A. The structure has a histidine triad (HIT)-like fold containing two distinct HIT-like motifs. The sequence of At5g18200.1 indicates a distant family relationship to the Escherichia coli galactose-1-P uridylyltr...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi052232m
更新日期：2006-03-14 00:00:00
abstract：:Sonication of lysophosphatidylcholine (lysoPC; 20 mumol/mL) and cholesterol (chol) in aqueous medium produces lamellar structures over a wide range of concentrations. From 25 to 47 mol % cholesterol, electron microscopy (EM) after negative staining showed extended stacklike lamellae about 40 A thick. From 50 to 60 mol...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00401a059
更新日期：1988-01-12 00:00:00
