Water structural changes in lumirhodopsin, metarhodopsin I, and metarhodopsin II upon photolysis of bovine rhodopsin: analysis by Fourier transform infrared spectroscopy.

Abstract:

:Difference Fourier transform infrared spectra of lumirhodopsin, metarhodopsin I, and metarhodopsin II versus rhodopsin were recorded with hydrated films of bovine rod outer segments at 200, 240, and 270 K. In the region between 3700 and 3450 cm-1, the O-H stretching vibrational bands of water were identified by H(2)18O and 2H2O shifts. Lumirhodopsin and metarhodopsin I exhibit almost identical spectral shape in this region. The O-H stretching vibration band of water was detected at 3533 cm-1 upon formation of lumirhodopsin and metarhodopsin I and at 3641 cm-1 upon formation of metarhodopsin II. The results suggest that hydrogen bonding of water molecules in the protein is stronger in lumirhodopsin and metarhodopsin I, intermediates with a protonated Schiff base, than in metarhodopsin II with an unprotonated Schiff base. This is similar to the case of photoreaction of bacteriorhodopsin, in which stronger hydrogen bonding of water is formed in the L intermediate than the M intermediate [Maeda, A., Sasaki, J., Shichida, Y., & Yoshizawa, T. (1992) Biochemistry 31, 462-467].

journal_name

Biochemistry

journal_title

Biochemistry

authors

Maeda A,Ohkita YJ,Sasaki J,Shichida Y,Yoshizawa T

doi

10.1021/bi00096a013

subject

Has Abstract

pub_date

1993-11-16 00:00:00

pages

12033-8

issue

45

eissn

0006-2960

issn

1520-4995

journal_volume

32

pub_type

杂志文章
  • Thermodynamic dissection of estrogen receptor-promoter interactions reveals that steroid receptors differentially partition their self-association and promoter binding energetics.

    abstract::Steroid receptors define a family of ligand-activated transcription factors. Recent work has demonstrated that the receptors regulate distinct but overlapping gene networks, yet the mechanisms by which they do so remain unclear. We previously determined the microscopic binding energetics for progesterone receptor (PR)...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi2017156

    authors: Moody AD,Miura MT,Connaghan KD,Bain DL

    更新日期:2012-01-24 00:00:00

  • Multiple equilibria binding treatment of lipid and detergent interactions with membrane proteins. Application to cytochrome c oxidase solubilized in cholate.

    abstract::A modified multiple binding equilibria treatment is presented that allows determination of thermodynamic parameters of the interaction of phospholipids with integral membrane proteins solubilized in excess detergent. Lipid binding is modeled as a series of exchange reactions between lipid molecules and detergent molec...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00376a019

    authors: Volwerk JJ,Mrsny RJ,Patapoff TW,Jost PC,Griffith OH

    更新日期:1987-01-27 00:00:00

  • Interaction of acetylene and cyanide with the resting state of nitrogenase alpha-96-substituted MoFe proteins.

    abstract::The nitrogenase MoFe protein contains the active site metallocluster called FeMo-cofactor [7Fe-9S-Mo-homocitrate] that exhibits an S = 3/2 EPR signal in the resting state. No interaction with FeMo-cofactor is detected when either substrates or inhibitors are incubated with MoFe protein in the resting state. Rather, th...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi011571m

    authors: Benton PM,Mayer SM,Shao J,Hoffman BM,Dean DR,Seefeldt LC

    更新日期:2001-11-20 00:00:00

  • Exploring the cellulose/xylan specificity of the beta-1,4-glycanase cex from Cellulomonas fimi through crystallography and mutation.

    abstract::The retaining beta-1,4-glycanase Cex from Cellulomonas fimi, a family 10 glycosyl hydrolase, hydrolyzes xylan 40-fold more efficiently than cellulose. To gain insight into the nature of its preference for xylan, we determined the crystal structure of the Cex catalytic domain (Cex-cd) trapped as its covalent 2-deoxy-2-...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9729211

    authors: Notenboom V,Birsan C,Warren RA,Withers SG,Rose DR

    更新日期:1998-04-07 00:00:00

  • Histidine residues at the N- and C-termini of alpha-helices: perturbed pKas and protein stability.

    abstract::A single histidine residue has been placed at either the N-terminus or the C-terminus of each of the two alpha-helices of barnase. The pKa of that histidine residue in each of the four mutants has been determined by 1H NMR. The pKas of the two residues at the C-terminus are, on average, 0.5 unit higher, and those of t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00123a006

    authors: Sancho J,Serrano L,Fersht AR

    更新日期:1992-03-03 00:00:00

  • Solution structure and dynamics of the plasminogen kringle 2-AMCHA complex: 3(1)-helix in homologous domains.

    abstract::The kringle 2 (K2) module of human plasminogen (Pgn) binds L-lysine and analogous zwitterionic compounds, such as the antifibronolytic agent trans-(aminomethyl)cyclohexanecarboxylic acid (AMCHA). Far-UV CD and NMR spectra reveal little conformational change in K2 upon ligand binding. However, retarded (1)H-(2)H isotop...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9917378

    authors: Marti DN,Schaller J,Llinás M

    更新日期:1999-11-30 00:00:00

  • A closer look at the spectroscopic properties of possible reaction intermediates in wild-type and mutant (E)-4-hydroxy-3-methylbut-2-enyl diphosphate reductase.

    abstract::(E)-4-Hydroxy-3-methylbut-2-enyl diphosphate reductase (IspH or LytB) catalyzes the terminal step of the MEP/DOXP pathway where it converts (E)-4-hydroxy-3-methylbut-2-enyl diphosphate (HMBPP) into the two products, isopentenyl diphosphate and dimethylallyl diphosphate. The reaction involves the reductive elimination ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi3001215

    authors: Xu W,Lees NS,Hall D,Welideniya D,Hoffman BM,Duin EC

    更新日期:2012-06-19 00:00:00

  • Kinetics of long-chain (sphingoid) base biosynthesis in intact LM cells: effects of varying the extracellular concentrations of serine and fatty acid precursors of this pathway.

    abstract::Serine palmitoyltransferase (EC 2.3.1.50) catalyzes the condensation of L-serine and palmitoyl-CoA to yield 3-ketosphinganine in the first unique reaction of long-chain (sphingoid) base biosynthesis. The kinetic effects of changing the extracellular concentrations of the precursors for this pathway were studied with L...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00401a051

    authors: Merrill AH Jr,Wang E,Mullins RE

    更新日期:1988-01-12 00:00:00

  • Ionization equilibria for side-chain carboxyl groups in oxidized and reduced human thioredoxin and in the complex with its target peptide from the transcription factor NF kappa B.

    abstract::The pH dependence of the 13C chemical shifts of the side-chain carboxyl carbons of all Asp and Glu residues in the reduced and oxidized states of human thioredoxin and in a mixed disulfide complex of human thioredoxin with a target peptide from the transcription factor NF kappa B has been investigated by multidimensio...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi952299h

    authors: Qin J,Clore GM,Gronenborn AM

    更新日期:1996-01-09 00:00:00

  • H-Ras peptide and protein substrates bind protein farnesyltransferase as an ionized thiolate.

    abstract::The zinc metalloenzyme protein farnesyltransferase (FTase) catalyzes the alkylation of a cysteine residue of protein substrates with a 15 carbon farnesyl group. We have developed fluorescence assays to directly measure the affinity of the enzyme for peptide and protein (Ras) substrates. A peptide corresponding to the ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi981525v

    authors: Hightower KE,Huang CC,Casey PJ,Fierke CA

    更新日期:1998-11-03 00:00:00

  • 3 Beta-hydroxy-delta 5-steroid dehydrogenase/3-keto-delta 5-steroid isomerase from bovine adrenals: mechanism of inhibition by 3-oxo-4-aza steroids and kinetic mechanism of the dehydrogenase.

    abstract::Several 3-oxo-4-aza steroids (1) have been identified as inhibitors of the 3 beta-hydroxy-delta 5-steroid dehydrogenase/3-keto-delta 5-steroid isomerase catalyzed conversion of pregnenolone to progesterone. By kinetically decoupling the two enzyme activities isolated from bovine adrenal cortex, it has been demonstrate...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00427a021

    authors: Brandt M,Levy MA

    更新日期:1989-01-10 00:00:00

  • Allosteric activation of protein phosphatase 2C by D-chiro-inositol-galactosamine, a putative mediator mimetic of insulin action.

    abstract::Insulin-stimulated glucose disposal in skeletal muscle proceeds predominantly through a nonoxidative pathway with glycogen synthase as a rate-limiting enzyme, yet the mechanisms for insulin activation of glycogen synthase are not understood despite years of investigation. Isolation of putative insulin second messenger...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0508845

    authors: Brautigan DL,Brown M,Grindrod S,Chinigo G,Kruszewski A,Lukasik SM,Bushweller JH,Horal M,Keller S,Tamura S,Heimark DB,Price J,Larner AN,Larner J

    更新日期:2005-08-23 00:00:00

  • Deletion of the omega-loop in the active site of staphylococcal nuclease. 2. Effects on protein structure and dynamics.

    abstract::It has been shown (Poole et al., 1991) that deletion of residues 44-49 from the sequence of staphylococcal nuclease (E43 SNase) results in an enzyme (E43 delta SNase) that is significantly more active than D43 SNase, an enzyme that differs from the wild-type enzyme by deletion of a single methylene group. In addition,...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00229a006

    authors: Baldisseri DM,Torchia DA,Poole LB,Gerlt JA

    更新日期:1991-04-16 00:00:00

  • Structure of the potassium form of CGCGAATTCGCG: DNA deformation by electrostatic collapse around inorganic cations.

    abstract::The potassium form of d(CGCGAATTCGCG) solved by X-ray diffraction to 1.75 A resolution indicates that monovalent cations penetrate the primary and secondary layers of the "spine of hydration". Both the sodium [Shui, X., McFail-Isom, L., Hu, G. G., and Williams, L. D. (1998) Biochemistry 37, 8341-8355] and the potassiu...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi982063o

    authors: Shui X,Sines CC,McFail-Isom L,VanDerveer D,Williams LD

    更新日期:1998-12-01 00:00:00

  • Constructing de novo biosynthetic pathways for chemical synthesis inside living cells.

    abstract::Living organisms have evolved a vast array of catalytic functions that make them ideally suited for the production of medicinally and industrially relevant small-molecule targets. Indeed, native metabolic pathways in microbial hosts have long been exploited and optimized for the scalable production of both fine and co...

    journal_title:Biochemistry

    pub_type: 杂志文章,评审

    doi:10.1021/bi200416g

    authors: Weeks AM,Chang MC

    更新日期:2011-06-21 00:00:00

  • The photobleaching sequence of a short-wavelength visual pigment.

    abstract::The photobleaching pathway of a short-wavelength cone opsin purified in delipidated form (lambda(max) = 425 nm) is reported. The batho intermediate of the violet cone opsin generated at 45 K has an absorption maximum at 450 nm. The batho intermediate thermally decays to the lumi intermediate (lambda(max) = 435 nm) at ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi010387y

    authors: Kusnetzow A,Dukkipati A,Babu KR,Singh D,Vought BW,Knox BE,Birge RR

    更新日期:2001-07-03 00:00:00

  • Purification and characterization of two unique forms of cytochrome P-450 from rabbit nasal microsomes.

    abstract::Two forms of cytochrome P-450, designated P-450NMa and P-450NMb, were purified to electrophoretic homogeneity from rabbit nasal microsomes. The purified cytochromes, which contained 14-16 nmol of P-450/mg of protein, exhibited apparent monomeric molecular weights of 49,500 and 51,000, respectively. As indicated by sev...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00422a007

    authors: Ding XX,Coon MJ

    更新日期:1988-11-01 00:00:00

  • Bleomycin-DNA interactions: fluorescence and proton magnetic resonance studies.

    abstract::The interaction of bleomycin A2 with DNA has been examined by fluorescence spectroscopy and proton magnetic resonance techniques. Fluorescence bands observed at 353 and 405 nm in the spectrum of bleomycin were assigned to the bithiazole and 4-aminopyrimidine rings, respectively. Quenching of bithiazole fluorescence by...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00635a021

    authors: Chien M,Grollman AP,Horwitz SB

    更新日期:1977-08-09 00:00:00

  • Solution structure of the second extracellular loop of human thromboxane A2 receptor.

    abstract::Thromboxane A(2) receptor (TP receptor), a prostanoid receptor, belongs to the G protein-coupled receptor family, composed of three intracellular loops and three extracellular loops connecting seven transmembrane helices. The highly conserved extracellular domains of the prostanoid receptors were found in the second e...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi001867c

    authors: Ruan KH,So SP,Wu J,Li D,Huang A,Kung J

    更新日期:2001-01-09 00:00:00

  • Role of the helical structure of the N-terminal region of Plasmodium falciparum merozoite surface protein 2 in fibril formation and membrane interaction.

    abstract::Merozoite surface protein 2 (MSP2), an abundant glycosylphosphatidylinositol-anchored protein on the surface of Plasmodium falciparum merozoites, is a promising malaria vaccine candidate. MSP2 is intrinsically disordered and forms amyloid-like fibrils in solution under physiological conditions. The 25 N-terminal resid...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi201880s

    authors: Zhang X,Adda CG,Low A,Zhang J,Zhang W,Sun H,Tu X,Anders RF,Norton RS

    更新日期:2012-02-21 00:00:00

  • Redox enzyme engineering: conversion of human glutathione reductase into a trypanothione reductase.

    abstract::The substrate specificity of the human enzyme glutathione reductase was changed from its natural substrate glutathione to trypanothione [N1,N8-bis(glutathionyl)spermidine] by site-directed mutagenesis of two residues. The glutathione analogue, trypanothione, is the natural substrate for trypanothione reductase, an enz...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00239a006

    authors: Bradley M,Bücheler US,Walsh CT

    更新日期:1991-06-25 00:00:00

  • Peptide cross-linking to calmodulin: attachment of [Tyr8]substance P.

    abstract::Ultraviolet irradiation of calmodulin in the presence of calcium results in either the intramolecular cross-linking of Tyr99 and Tyr138 [Malencik, D.A., & Anderson, S.R. (1986) Biochemistry 25, 709] or, when [Tyr8]substance P is bound, the generation of peptide-calmodulin adducts. The latter consist of two chromatogra...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00403a016

    authors: Malencik DA,Anderson SR

    更新日期:1988-02-09 00:00:00

  • Resolution of oligomeric species during the aggregation of Aβ1-40 using (19)F NMR.

    abstract::In the commonly used nucleation-dependent model of protein aggregation, aggregation proceeds only after a lag phase in which the concentration of energetically unfavorable nuclei reaches a critical value. The formation of oligomeric species prior to aggregation can be difficult to detect by current spectroscopic techn...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi400027y

    authors: Suzuki Y,Brender JR,Soper MT,Krishnamoorthy J,Zhou Y,Ruotolo BT,Kotov NA,Ramamoorthy A,Marsh EN

    更新日期:2013-03-19 00:00:00

  • Iron-sulfur cluster biosynthesis: functional characterization of the N- and C-terminal domains of human NFU.

    abstract::Human NFU (also known as HIRIP5) has been implicated in cellular iron-sulfur cluster biosynthesis. Bacterial and yeast forms are smaller than the human protein and are homologous to the C-terminal domain of the latter. This C-terminal domain contains a pair of redox active cysteines and demonstrates thioredoxin-like a...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi801645z

    authors: Liu Y,Qi W,Cowan JA

    更新日期:2009-02-10 00:00:00

  • Energetics of internal GU mismatches in ribooligonucleotide helixes.

    abstract::Thermodynamic parameters of helix formation were measured spectroscopically for 16 oligoribonucleotides containing either internal GU mismatches or the corresponding AU pairs. Internal GU mismatches stabilize each helix, but not as much as the corresponding AU pairs. The differences in the enthalpy and entropy changes...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00367a061

    authors: Sugimoto N,Kierzek R,Freier SM,Turner DH

    更新日期:1986-09-23 00:00:00

  • Characterization of inward-rectifier K+ channel inhibition by antiarrhythmic piperazine.

    abstract::Strong inward-rectifier K(+) (Kir) channels play a significant role in shaping the cardiac action potential: they help produce its long plateau and accelerate its rate of repolarization. Consequently, genetic deletion of the gene encoding the strongly rectifying K(+) channel IRK1 (Kir2.1) prolongs the cardiac action p...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0483099

    authors: Xu Y,Lu Z

    更新日期:2004-12-14 00:00:00

  • tRNA 3' processing in plants: nuclear and mitochondrial activities differ.

    abstract::The nuclear tRNA 3' processing activity from wheat has been characterized and partially purified. Several characteristics of the wheat nuclear 3' processing enzyme now allow this activity to be distinguished from its mitochondrial counterpart. The nuclear enzyme is an endonuclease, which we termed nuclear RNase Z. The...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi992253e

    authors: Mayer M,Schiffer S,Marchfelder A

    更新日期:2000-02-29 00:00:00

  • Fluorescence polarization and intensity kinetic studies of antifluorescein antibody obtained at different stages of the immune response.

    abstract::Kinetic studies of reactions between fluorescein and antifluorescein antibody produced during early, intermediate, and late stages of the immune response have been carried out utilizing both fluorescence intensity and polarization measurements in the static (time constant similar to 5 sec) and in the stopped-flow mode...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00688a009

    authors: Levison SA,Hicks AN,Portmann AJ,Dandliker WB

    更新日期:1975-08-26 00:00:00

  • An allosteric intramolecular PDZ-PDZ interaction modulates PTP-BL PDZ2 binding specificity.

    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

    authors: van den Berk LC,Landi E,Walma T,Vuister GW,Dente L,Hendriks WJ

    更新日期:2007-11-27 00:00:00

  • Biosynthesis of GDP-d-glycero-α-d-manno-heptose for the Capsular Polysaccharide of Campylobacter jejuni.

    abstract::The capsular polysaccharide (CPS) structure of Campylobacter jejuni contributes to its robust fitness. Many strains contain heptose moieties in their CPS units. The precursor heptose is GDP-d-glycero-α-d-manno-heptose; modifications to the stereochemistry at C3-C6 as well as additions of methyl and phosphoramidate gro...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.9b00548

    authors: Huddleston JP,Raushel FM

    更新日期:2019-09-17 00:00:00