Abstract：
:Classical strategies for structure analysis of proteins interacting with a lipid phase typically correlate ensemble secondary structure content measurements with changes in the spectroscopic responses of localized aromatic residues or reporter molecules to map regional solvent environments. Deep-UV resonance Raman (DUVRR) spectroscopy probes the vibrational modes of the peptide backbone itself, is very sensitive to the ensemble secondary structures of a protein, and has been shown to be sensitive to the extent of solvent interaction with the peptide backbone [ Wang , Y. , Purrello , R. , Georgiou , S. , and Spiro , T. G. ( 1991 ) J. Am. Chem. Soc. 113 , 6368 - 6377 ]. Here we show that a large detergent solubilized membrane protein, the Rhodobacter capsulatus cytochrome bc(1) complex, has a distinct DUVRR spectrum versus that of an aqueous soluble protein with similar overall secondary structure content. Cross-section calculations of the amide vibrational modes indicate that the peptide backbone carbonyl stretching modes differ dramatically between these two proteins. Deuterium exchange experiments probing solvent accessibility confirm that the contribution of the backbone vibrational mode differences are derived from the lipid solubilized or transmembrane α-helical portion of the protein complex. These findings indicate that DUVRR is sensitive to both the hydration status of a protein's peptide backbone, regardless of primary sequence, and its secondary structure content. Therefore, DUVRR may be capable of simultaneously measuring protein dynamics and relative water/lipid solvation of the protein.
journal_name
Biochemistryjournal_title
Biochemistryauthors
Halsey CM,Oshokoya OO,Jiji RD,Cooley JWdoi
10.1021/bi200596wsubject
Has Abstractpub_date
2011-08-02 00:00:00pages
6531-8issue
30eissn
0006-2960issn
1520-4995journal_volume
50pub_type
杂志文章相关文献
BIOCHEMISTRY文献大全abstract：:Although tryptophan synthase catalyzes a number of pyridoxal phosphate dependent beta-elimination and beta-replacement reactions that are also catalyzed by tryptophanase, a principal and puzzling difference between the two enzymes lies in the apparent inability of tryptophan synthase to catalyze beta-elimination of in...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00363a010
更新日期：1986-07-29 00:00:00
abstract：:Flavohemoglobins (flavoHbs) are enzymes that operate primarily as nitric oxide dioxygenases and shuttle thereby electrons among NAD(P)H, FAD, heme, and a ligated redox-active substrate such as O(2). They function in the bacterial defense against nitrosative stress and are therefore considered as targets for new antibi...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi101650q
更新日期：2011-02-22 00:00:00
abstract：:Three spin-labeled derivatives of the voltage-gated peptide alamethicin were prepared with nitroxides at the C-terminal phenyalaninol, and at positions 9 and 15 in the amino acid sequence. In addition, three spin-labeled derivatives of an analog of alamethicin where alpha-methylalanine residues are replaced by leucine...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi951985d
更新日期：1996-01-16 00:00:00
abstract：:The sequences and three-dimensional structures of the galactokinase, homoserine kinase, mevalonate kinase, and phosphomevalonate kinase (GHMP) family were compared to identify highly conserved surface residues. The functions of these solvent-accessible residues were assessed by determining the effects of their substit...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi048963o
更新日期：2004-11-23 00:00:00
abstract：:A quartz-crystal microbalance (QCM) technique was applied to analyze effects of site-directed mutagenesis of a glycosidase (isomalto-dextranase) on the hydrolysis mechanism of the substrate binding (k(on), k(off), and K(d)) and the catalytic process (k(cat)), separately, by using a dextran-immobilized QCM in buffer so...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi050079q
更新日期：2005-07-12 00:00:00
abstract：:A 15-residue fragment within the major continuous domain of gp120 from HIV-1 that can bind independently to the CD4 receptor has been shown to have the property of behaving as a solvent polarity-dependent conformational switch. The switch behavior (cooperative transition from beta-sheet to helical conformation as a fu...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi952045w
更新日期：1996-01-16 00:00:00
abstract：:Mutagenized dockerin domains of endoglucanase CelD (type I) and of the cellulosome-integrating protein CipA (type II) were constructed by swapping residues 10 and 11 of the first or the second duplicated segment between the two polypeptides. These residues have been proposed to determine the specificity of cohesin-doc...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi011853m
更新日期：2002-02-19 00:00:00
abstract：:PDZ (acronym of the synapse-associated protein PSD-95/SAP90, the septate junction protein Discs-large, and the tight junction protein ZO-1) domains are abundant small globular protein interaction domains that mainly recognize the carboxyl termini of their target proteins. Detailed knowledge on PDZ domain binding speci...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi700954e
更新日期：2007-11-27 00:00:00
abstract：:The phosphoramidate of CCdAp and puromycin (CCdApPuro) is a potent inhibitor of ribosomal peptidyl transferase, as assayed by the fragment reaction. Inhibition is competitive at the ribosomal A-site. CCdApPuro protects P-site-associated bases in the peptidyl transferase loop region of 23S rRNA from carbodiimide modifi...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00002a001
更新日期：1995-01-17 00:00:00
abstract：:We have examined proteins containing the DNA-binding domain of c-Myb with biophysical methods. This DNA-binding domain consists of three imperfect repeats (R1, R2, and R3) conserved among many species. Our results indicate that the DNA-binding domain forms unspecific and specific complexes with oligodeoxynucleotides. ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00252a026
更新日期：1994-12-06 00:00:00
abstract：:The structural and motional properties of membrane lipids in various physical states and macroscopic organizations are elucidated by 1H NMR dipolar echo decay spectroscopy (DECODE). Multilamellar lipid dispersions in the gel (L beta') and liquid-crystalline (L alpha) states and a nonbilayer, hexagonal (HII) phase are ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00488a027
更新日期：1990-09-11 00:00:00
abstract：:A chromatin-bound protease, active in 2 M NaCl-5 M urea or 5 M urea alone, was demonstrated in rat liver, kidney, testes, brain, rabbit bone marrow, chicken reticulocyte, and Ehrlich ascites chromatin. Chicken erythrocyte chromatin did not possess any detectable proteolytic activity in salt and urea. The proteolytic a...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00646a028
更新日期：1976-01-13 00:00:00
abstract：:Cumene hydroperoxide-mediated (CuOOH-mediated) inactivation of cytochromes P450 (CYPs) results in destruction of their prosthetic heme to reactive fragments that irreversibly bind to the protein. We have attempted to characterize this process structurally, using purified, 14C-heme labeled, recombinant human liver P450...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi9808464
更新日期：1998-12-15 00:00:00
abstract：:The signaling apparatus that controls bacterial chemotaxis is composed of a core complex containing chemoreceptors, the histidine autokinase CheA, and the coupling protein CheW. Site-specific spin labeling and pulsed dipolar ESR spectroscopy (PDS) have been applied to investigate the structure of a soluble ternary com...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi100055m
更新日期：2010-05-11 00:00:00
abstract：:Islet-activating protein (IAP), pertussis toxin, is a hexameric protein composed of an A protomer and a B oligomer, the residual pentamer having such a subunit assembly that two different dimers, dimer 1 and dimer 2, are connected with each other by means of the smallest C subunit. Incubation of IAP with formaldehyde ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00354a025
更新日期：1986-03-25 00:00:00
abstract：:The essential active site Fe3+ of protocatechuate 3,4-dioxygenase [3, 4-PCD, subunit structure (alphabetaFe3+)12] is bound by axial ligands, Tyr447 (147beta) and His462 (162beta), and equatorial ligands, Tyr408 (108beta), His460 (160beta), and a solvent OH- (Wat827). Recent X-ray crystallographic studies have shown th...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi972047b
更新日期：1998-02-24 00:00:00
abstract：:NADH:ubiquinone oxidoreductase (complex I) from bovine heart mitochondria is a highly complicated, energy transducing, membrane-bound enzyme. It contains 46 different subunits and nine redox cofactors: a noncovalently bound flavin mononucleotide and eight iron-sulfur clusters. The mechanism of complex I is not known. ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi051809x
更新日期：2006-01-10 00:00:00
abstract：:Rhodopsin is the photoreceptor in vertebrate rod cells responsible for vision at low light intensities. The photoreactive chromophore in rhodopsin is 11-cis-retinal bound to the protein via a protonated Schiff base with Glu113 as the counterion. We have used the observed 13C NMR chemical shifts of the conjugated retin...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00004a037
更新日期：1995-01-31 00:00:00
abstract：:We have used a photochemical method to map covalent binding sites of the carcinogen benzo[a]pyrenediol epoxide (BPDE) within DNA from the transcriptional control region of the chicken adult beta-globin gene. Our preliminary low-resolution mapping has demonstrated that this region contains highly preferred BPDE binding...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00358a045
更新日期：1986-05-20 00:00:00
abstract：:Oxygen binding by Octopus dofleini hemocyanin was examined under very nearly physiological conditions. The effects of pH, ionic composition, temperature, and aggregation were controlled so that the role each plays in modulating oxygen binding can be isolated. There is a very large effect of pH on affinity, the Bohr ef...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00338a015
更新日期：1985-08-13 00:00:00
abstract：:The enzyme 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) catalyzes the reaction between shikimate 3-phosphate and phosphoenolpyruvate to form 5-enolpyruvylshikimate 3-phosphate, an intermediate in the shikimate pathway, which leads to the biosynthesis of aromatic amino acids. EPSPS exists in an open conformation...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi800134y
更新日期：2008-07-15 00:00:00
abstract：:A synthetic analogue of the tripeptide hemiasterlin, designated HTI-286, depolymerizes microtubules, is a poor substrate for P-glycoprotein, and inhibits the growth of paclitaxel-resistant tumors in xenograft models. Two radiolabeled photoaffinity analogues of HTI-286, designated 4-benzoyl-N,beta,beta-trimethyl-l-phen...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi0474766
更新日期：2005-05-10 00:00:00
abstract：:The misfolding of amyloid beta (Aβ) is one of the predominant hallmarks in the pathology of Alzheimer's disease (AD). In this study, we showed that the formation of the Aβ ion channel on the membrane depended on the cholesterol concentration. From a mechanical aspect, we found that cholesterol levels affected the stab...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.9b00968
更新日期：2020-03-03 00:00:00
abstract：:Post-translational phosphorylation and the related conformational changes in signaling proteins are responsible for regulating a wide range of subcellular processes. Human Pin1 is central to many of these cell signaling pathways in normal and aberrant subcellular processes, catalyzing cis-trans isomerization of the pe...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi2009954
更新日期：2011-11-08 00:00:00
abstract：:Aqueous suspensions of dark-adapted bacteriorhodopsin (bR560) in the purple membrane of Halobacterium halobium are exposed to rapid jumps to high pH. Optical and resonance Raman measurements are carried out by using flow and stationary methods. Above pH congruent to 11.5 bR560 starts to be reversibly converted to a sp...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00263a019
更新日期：1982-09-28 00:00:00
abstract：:Blood coagulation is initiated by Ca(2+)-dependent binding of coagulation factor VIIa (FVIIa) to its cofactor, tissue factor (TF). The TF:FVIIa complex activates factors IX and X, ultimately leading to the formation of thrombin and the coagulation of blood. FVII consists of an N-terminal gamma-carboxyglutamic-acid-con...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi980522f
更新日期：1998-07-28 00:00:00
abstract：:In order to understand translocation in transcription, it is important to develop a continuous functional assay for RNA polymerase (RNAP) activity in vitro. Fluorescent derivatives of ATP, UTP, UpA, and CpA with aminonaphthalene-5-sulfonic acid (AmNS) attached to the nucleotide triphosphates via a gamma-phosphoramidat...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00143a013
更新日期：1992-07-21 00:00:00
abstract：:DNA polymerase (pol) β is a small eukaryotic DNA polymerase composed of two domains. Each domain contributes an enzymatic activity (DNA synthesis and deoxyribose phosphate lyase) during the repair of simple base lesions. These domains are termed the polymerase and lyase domains, respectively. Pol β has been an excelle...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi500139h
更新日期：2014-05-06 00:00:00
abstract：:Anticoagulation factor II (ACF II) isolated from the venom of Agkistrodon acutus is an activated coagulation factor X-binding protein in a Ca(2+)-dependent fashion with marked anticoagulant activity. The equilibrium unfolding/refolding of apo-ACF II, holo-ACF II, and Tb(3+)-reconstituted ACF II in guanidine hydrochlor...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi015819j
更新日期：2002-03-19 00:00:00
abstract：:The backbone dynamics of the liganded (holo) and unliganded (apo) forms of Escherichia coli-derived rat intestinal fatty acid-binding protein (I-FABP) have been characterized and compared using amide 15N relaxation and 1H exchange NMR measurements. The amide 1H/15N resonances for apo and holo I-FABP were assigned at 2...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi962018l
更新日期：1997-02-25 00:00:00
