Heme binding properties of glyceraldehyde-3-phosphate dehydrogenase.

Abstract:

:Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) is a glycolytic enzyme that also functions in transcriptional regulation, oxidative stress, vesicular trafficking, and apoptosis. Because GAPDH is required for the insertion of cellular heme into inducible nitric oxide synthase [Chakravarti, R., et al. (2010) Proc. Natl. Acad. Sci. U.S.A. 107, 18004-18009], we extensively characterized the heme binding properties of GAPDH. Substoichiometric amounts of ferric heme bound to GAPDH (one heme per GAPDH tetramer) to form a low-spin complex with UV-visible maxima at 362, 418, and 537 nm and when reduced to ferrous gave maxima at 424, 527, and 559 nm. Ferric heme association and dissociation rate constants at 10 °C were as follows: k(on) = 17800 M(-1) s(-1), k(off1) = 7.0 × 10(-3) s(-1), and k(off2) = 3.3 × 10(-4) s(-1) (giving approximate affinities of 19-390 nM). Ferrous heme bound more poorly to GAPDH and dissociated with a k(off) of 4.2 × 10(-3) s(-1). Magnetic circular dichroism, resonance Raman, and electron paramagnetic resonance spectroscopic data on the ferric, ferrous, and ferrous-CO complexes of GAPDH showed that the heme is bis-ligated with His as the proximal ligand. The distal ligand in the ferric complex was not displaced by CN(-) or N(3)(-) but in the ferrous complex could be displaced by CO at a rate of 1.75 s(-1) (for >0.2 mM CO). Studies with heme analogues revealed selectivity toward the coordinating metal and porphyrin ring structure. The GAPDH-heme complex was isolated from bacteria induced to express rabbit GAPDH in the presence of δ-aminolevulinic acid. Our finding of heme binding to GAPDH expands the protein's potential roles. The strength, selectivity, reversibility, and redox sensitivity of heme binding to GAPDH are consistent with it performing heme sensing or heme chaperone-like functions in cells.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Hannibal L,Collins D,Brassard J,Chakravarti R,Vempati R,Dorlet P,Santolini J,Dawson JH,Stuehr DJ

doi

10.1021/bi300863a

subject

Has Abstract

pub_date

2012-10-30 00:00:00

pages

8514-29

issue

43

eissn

0006-2960

issn

1520-4995

journal_volume

51

pub_type

杂志文章
  • Protection of satellite tobacco necrosis virus ribonucleic acid by wheat germ 40S and 80S ribosomes.

    abstract::Wheat germ ribosomes combine with the AUG codon at positions 30-32 from the 5' terminus of in vitro radioiodinated satellite tobacco necrosis virus (STNV) ribonucleic acid (RNA) to form initiation complexes that protect specific regions of the RNA from attack by ribonucleases. Wheat gern 80S ribosomes convey partial p...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00551a044

    authors: Browning KS,Leung DW,Clark JM Jr

    更新日期:1980-05-13 00:00:00

  • Comparisons of interfacial Phe, Tyr, and Trp residues as determinants of orientation and dynamics for GWALP transmembrane peptides.

    abstract::Aromatic amino acids often flank the transmembrane alpha helices of integral membrane proteins. By favoring locations within the membrane-water interface of the lipid bilayer, aromatic residues Trp, Tyr, and sometimes Phe may serve as anchors to help stabilize a transmembrane orientation. In this work, we compare the ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi500439x

    authors: Sparks KA,Gleason NJ,Gist R,Langston R,Greathouse DV,Koeppe RE 2nd

    更新日期:2014-06-10 00:00:00

  • Expression and purification of the extracellular ligand-binding domain of the atrial natriuretic peptide (ANP) receptor: monovalent binding with ANP induces 2:2 complexes.

    abstract::The receptor for atrial natriuretic peptide (ANP) is a type-I transmembrane protein containing an extracellular ligand-binding domain, a single transmembrane sequence, an intracellular kinase-homologous domain, and a guanylate cyclase (GCase) domain. Binding of ANP to the extracellular domain causes activation of the ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi982127v

    authors: Misono KS,Sivasubramanian N,Berkner K,Zhang X

    更新日期:1999-01-12 00:00:00

  • Deletion of the Mitochondrial Protein VWA8 Induces Oxidative Stress and an HNF4α Compensatory Response in Hepatocytes.

    abstract::von Willebrand A domain-containing protein 8 (VWA8) is a poorly characterized, mitochondrial matrix-targeted protein with an AAA ATPase domain and ATPase activity that increases in livers of mice fed a high-fat diet. This study was undertaken to use CRISPR/Cas9 to delete VWA8 in cultured mouse hepatocytes and gain ins...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.9b00863

    authors: Luo M,Willis WT,Coletta DK,Langlais PR,Mengos A,Ma W,Finlayson J,Wagner GR,Shi CX,Mandarino LJ

    更新日期:2019-12-10 00:00:00

  • Probes of hydrogen tunneling with horse liver alcohol dehydrogenase at subzero temperatures.

    abstract::The temperature dependence of steady-state kinetics has been studied with horse liver alcohol dehydrogenase (HLADH) using protonated and deuterated benzyl alcohol as substrates in methanol/water mixtures between +3 and -50 degrees C. Additionally, the competitive isotope effects, k(H)/k(T) and k(D)/k(T), were measured...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi002075l

    authors: Tsai S,Klinman JP

    更新日期:2001-02-20 00:00:00

  • Photoaffinity labeling of the primer binding domain in murine leukemia virus reverse transcriptase.

    abstract::We have labeled the primer binding domain of murine leukemia virus reverse transcriptase (MuLV RT) by covalently cross-linking 5' end labeled d(T)8 to MuLV RT, using ultraviolet light energy. The specificity and the functional significance of the primer cross-linking reaction were demonstrated by the fact that (i) oth...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00240a014

    authors: Tirumalai RS,Modak MJ

    更新日期:1991-07-02 00:00:00

  • Dissociation of the α-subunit Calf-2 domain and the β-subunit I-EGF4 domain in integrin activation and signaling.

    abstract::Integrin conformational changes mediate integrin activation and signaling triggered by intracellular molecules or extracellular ligands. Even though it is known that αβ transmembrane domain separation is required for integrin signaling, it is still not clear how this signal is transmitted from the transmembrane domain...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi101462h

    authors: Wang W,Fu G,Luo BH

    更新日期:2010-11-30 00:00:00

  • Effect of flap modifications on human FEN1 cleavage.

    abstract::The flap endonuclease, FEN1, plays a critical role in DNA replication and repair. Human FEN1 exhibits both a 5' to 3' exonucleolytic and a structure-specific endonucleolytic activity. On primer-template substrates containing an unannealed 5'-tail, or flap structure, FEN1 employs a unique mechanism to cleave at the poi...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi991321u

    authors: Bornarth CJ,Ranalli TA,Henricksen LA,Wahl AF,Bambara RA

    更新日期:1999-10-05 00:00:00

  • Role of a Water Network around the Mn4CaO5 Cluster in Photosynthetic Water Oxidation: A Fourier Transform Infrared Spectroscopy and Quantum Mechanics/Molecular Mechanics Calculation Study.

    abstract::Photosynthetic water oxidation takes place at the Mn4CaO5 cluster in photosystem II. Around the Mn4CaO5 cluster, a hydrogen bond network is formed by several water molecules, including four water ligands. To clarify the role of this water network in the mechanism of water oxidation, we investigated the effects of the ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.5b01120

    authors: Nakamura S,Ota K,Shibuya Y,Noguchi T

    更新日期:2016-01-26 00:00:00

  • Scaffold/matrix-attached regions act upon transcription in a context-dependent manner.

    abstract::Scaffold/matrix-attached regions (S/MARs) are cis-acting elements with a function outside transcribed regions and in introns. Although they usually augment transcriptional rates, their action is highly context-dependent. We cloned an 800 bp S/MAR element from the upstream border of the human interferon-beta domain at ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi960930o

    authors: Schübeler D,Mielke C,Maass K,Bode J

    更新日期:1996-08-27 00:00:00

  • Alteration of conformation and dynamics of bacteriorhodopsin induced by protonation of Asp 85 and deprotonation of Schiff base as studied by 13C NMR.

    abstract::According to previous X-ray diffraction studies, the D85N mutant of bacteriorhodopsin (bR) with unprotonated Schiff base assumes a protein conformation similar to that in the M photointermediate. We recorded (13)C NMR spectra of [3-(13)C]Ala- and [1-(13)C]Val-labeled D85N and D85N/D96N mutants at ambient temperature t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0015820

    authors: Kawase Y,Tanio M,Kira A,Yamaguchi S,Tuzi S,Naito A,Kataoka M,Lanyi JK,Needleman R,Saitô H

    更新日期:2000-11-28 00:00:00

  • Double mutant cycle thermodynamic analysis of the hydrophobic Cdc42-ACK protein-protein interaction.

    abstract::Protein-protein interactions such as those between small G proteins and their effector proteins control most cell signaling pathways and thereby govern many cellular processes in both normal and disease states. Each small G protein interacts with several effectors, some shared between similar G proteins and others uni...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi701539x

    authors: Elliot-Smith AE,Owen D,Mott HR,Lowe PN

    更新日期:2007-12-11 00:00:00

  • Enthalpic destabilization of a mutant human lysozyme lacking a disulfide bridge between cysteine-77 and cysteine-95.

    abstract::To understand the role of disulfide bridges in protein stability, the thermodynamic changes in the denaturation of two mutant human lysozymes lacking a disulfide bridge between Cys-77 and Cys-95 (C77A and C77/95A) were analyzed using differential scanning calorimetry (DSC). At pH 3.0 and 57 degrees C, the stabilities ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00150a028

    authors: Kuroki R,Inaka K,Taniyama Y,Kidokoro S,Matsushima M,Kikuchi M,Yutani K

    更新日期:1992-09-08 00:00:00

  • A strategy for solubilizing delipidated apolipoprotein with lysophosphatidylcholine and reconstitution with phosphatidylcholine.

    abstract::The apolipoproteins of insect lipophorin were dissociated in guanidinium chloride and isolated by gel permeation chromatography. Over 98% of the total lipid in lipophorin was associated with apolipophorin I (apoLp-I), thus suggesting this apolipoprotein to be the lipid binding component of the particle. ApoLp-I was de...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00442a019

    authors: Kawooya JK,Wells MA,Law JH

    更新日期:1989-08-08 00:00:00

  • Structure of a Novel Phosphotriesterase from Sphingobium sp. TCM1: A Familiar Binuclear Metal Center Embedded in a Seven-Bladed β-Propeller Protein Fold.

    abstract::A novel phosphotriesterase was recently discovered and purified from Sphingobium sp. TCM1 (Sb-PTE) and shown to catalyze the hydrolysis of a broad spectrum of organophosphate esters with a catalytic efficiency that exceeds 10(6) M(-1) s(-1) for the hydrolysis of triphenyl phosphate. The enzyme was crystallized and the...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.6b00364

    authors: Mabanglo MF,Xiang DF,Bigley AN,Raushel FM

    更新日期:2016-07-19 00:00:00

  • The flavoprotein component of the Escherichia coli sulfite reductase: expression, purification, and spectral and catalytic properties of a monomeric form containing both the flavin adenine dinucleotide and the flavin mononucleotide cofactors.

    abstract::The flavoprotein component (SiR-FP) of the sulfite reductase from Escherichia coli is an octamer containing one FAD and one FMN per polypeptide chain. SiR-FP60, a SiR-FP fragment starting with alanine-52, was overexpressed in E. coli and purified as a monomer. The N-terminal part of the native protein contains thus al...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9728699

    authors: Zeghouf M,Fontecave M,Macherel D,Covès J

    更新日期:1998-04-28 00:00:00

  • Atomic force microscopy imaging reveals the domain structure of polycystin-1.

    abstract::Mutation of polycystin-1 (PC1) is the major cause of autosomal dominant polycystic kidney disease. PC1 has a predicted molecular mass of ~460 kDa comprising a long multidomain extracellular N-terminal region, 11 transmembrane regions, and a short C-terminal region. Because of its size, PC1 has proven difficult to hand...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi300134b

    authors: Oatley P,Stewart AP,Sandford R,Edwardson JM

    更新日期:2012-04-03 00:00:00

  • Secondary structure of human interleukin 2 from 3D heteronuclear NMR experiments.

    abstract::Recombinant 15N-labeled human interleukin 2 (IL-2) has been studied by 2D and 3D NMR using uniformly 15N-labeled protein. Assignment of the backbone resonances has enabled the secondary structure of the protein to be defined. The secondary structure was found to consist of four alpha-helical regions and a short sectio...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00148a040

    authors: Mott HR,Driscoll PC,Boyd J,Cooke RM,Weir MP,Campbell ID

    更新日期:1992-08-25 00:00:00

  • Mechanism of human alpha-1,3-fucosyltransferase V: glycosidic cleavage occurs prior to nucleophilic attack.

    abstract::alpha-1,3-Fucosyltransferase V (FucT V) catalyzes the transfer of 1-fucose from the donor sugar guanosine 5'-diphospho-beta-1-fucose (GDP-Fuc) to an acceptor sugar. A secondary isotope effect on the fucosyltransfer reaction with guanosine 5'-diphospho-[1-2H]-beta-1-fucose (GDP-[1-2H]-Fuc) as the substrate was observed...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi962284z

    authors: Murray BW,Wittmann V,Burkart MD,Hung SC,Wong CH

    更新日期:1997-01-28 00:00:00

  • Demonstration of the GC-rich common arm in yeast ribosomal 5.8S RNA via 500-MHz proton nuclear magnetic resonance and Overhauser enhancements.

    abstract::In this paper we report the first 1H NMR study of the base-paired secondary structure of yeast 5.8S RNA. On the basis of a combination of homonuclear Overhauser enhancements and temperature dependence of the proton 500-MHz NMR spectrum, we are able to identify and assign eight of the nine base pairs in the most therma...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00373a018

    authors: Lee KM,Marshall AG

    更新日期:1986-12-16 00:00:00

  • Interactions between sarcoplasmic reticulum calcium adenosintriphosphatase and nonionic detergents.

    abstract::The interaction of Triton X-100 and other nonionic detergents with a delipidated preparation of the Ca2+ ATPase from sarcoplasmic reticulum has been studied. Binding of radiolabeled Triton X-100 was determined by column chromatography at 6 degrees C, and two classes of binding sites were observed. Below the critical m...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00510a006

    authors: Dean WL,Suárez CP

    更新日期:1981-03-31 00:00:00

  • Sodium-dependent steps in the redox reactions of the Na+-motive NADH:quinone oxidoreductase from Vibrio harveyi.

    abstract::The Na+-translocating NADH:ubiquinone oxidoreductase (Na+-NQR) from Vibrio harveyi was purified and studied by EPR and visible spectroscopy. Two EPR signals in the NADH-reduced enzyme were detected: one, a radical signal, and the other a line around g = 1.94, which is typical for a [2Fe-2S] cluster. An E(m) of -267 mV...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi002545b

    authors: Bogachev AV,Bertsova YV,Barquera B,Verkhovsky MI

    更新日期:2001-06-19 00:00:00

  • Kinetic, spectroscopic, and X-ray crystallographic characterization of the functional E151H aminopeptidase from Aeromonas proteolytica.

    abstract::Glutamate151 (E151) has been shown to be catalytically essential for the aminopeptidase from Vibrio proteolyticus (AAP). E151 acts as the general acid/base during the catalytic mechanism of peptide hydrolysis. However, a glutamate residue is not the only residue capable of functioning as a general acid/base during cat...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0505823

    authors: Bzymek KP,Moulin A,Swierczek SI,Ringe D,Petsko GA,Bennett B,Holz RC

    更新日期:2005-09-13 00:00:00

  • Combining thermostable mutations increases the stability of lambda repressor.

    abstract::We have combined three mutations previously shown to stabilize lambda repressor against thermal denaturation. Two of these mutations are in helix 3, where Gly-46 and Gly-48 have been replaced by alanines [Hecht, M. H., et al. (1986) Proteins: Struct., Funct., Genet. 1, 43-46]. The other mutation, which replaces Tyr-88...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00419a059

    authors: Stearman RS,Frankel AD,Freire E,Liu BS,Pabo CO

    更新日期:1988-09-20 00:00:00

  • Methyl-accepting chemotaxis proteins of Escherichia coli: methylated at three sites in a single tryptic fragment.

    abstract::The location of the sites of methylation of the methyl-accepting chemotaxis proteins (MCP) of Escherichia coli has been investigated by trypsin digestion and mapping of the peptides. The two principal MCPs, MCP I and MCP II, were found to have very similar methyl-labeled peptide patterns. Each produced three major spe...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00507a051

    authors: Chelsky D,Dahlquist FW

    更新日期:1981-02-17 00:00:00

  • Substitutions of coenzyme-binding, nonpolar residues improve the low-temperature activity of thermophilic dehydrogenases.

    abstract::Although enzymes of thermophilic organisms are often very resistant to thermal denaturation, they are usually less active than their mesophilic or psychrophilic homologues at moderate or low temperatures. To explore the structural features that would improve the activity of a thermophilic enzyme at less than optimal t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi200925f

    authors: Hayashi S,Akanuma S,Onuki W,Tokunaga C,Yamagishi A

    更新日期:2011-10-11 00:00:00

  • Identification of Asp-130 as the catalytic nucleophile in the main alpha-galactosidase from Phanerochaete chrysosporium, a family 27 glycosyl hydrolase.

    abstract::Characterization of the complete gene sequence encoding the alpha-galactosidase from Phanerochaete chrysosporium confirms that this enzyme is a member of glycosyl hydrolase family 27 [Henrissat, B., and Bairoch, A. (1996) Biochem. J. 316, 695-696]. This family, together with the family 36 alpha-galactosidases, forms g...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0008074

    authors: Hart DO,He S,Chany CJ 2nd,Withers SG,Sims PF,Sinnott ML,Brumer H 3rd

    更新日期:2000-08-15 00:00:00

  • Treponema denticola PurE Is a bacterial AIR carboxylase.

    abstract::De novo purine biosynthesis proceeds by two divergent paths. In bacteria, yeasts, and plants, 5-aminoimidazole ribonucleotide (AIR) is converted to 4-carboxy-AIR (CAIR) by two enzymes: N(5)-carboxy-AIR (N(5)-CAIR) synthetase (PurK) and N(5)-CAIR mutase (class I PurE). In animals, the conversion of AIR to CAIR requires...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi102033a

    authors: Tranchimand S,Starks CM,Mathews II,Hockings SC,Kappock TJ

    更新日期:2011-05-31 00:00:00

  • Electrophoretic analysis of substrate-attached proteins from normal and virus-transformed cells.

    abstract::The proteins which have been left tightly bound to the tissue culture substrate after ethylenebis (oxyethyl-enenitrilo) tetraacetic acid (EGTA)-mediated removal of normal, virus-transformed, and revertant mouse cells and which have been implicated in the substrate adhesion process have been analyzed by slab sodium dod...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00663a028

    authors: Culp LA

    更新日期:1976-09-07 00:00:00

  • Importance of protein dynamics during enzymatic C-H bond cleavage catalysis.

    abstract::Quantum tunneling and protein dynamics have emerged as important components of enzyme function. This review focuses on soybean lipoxygenase-1, to illustrate how the properties of enzymatic C-H bond activation link protein motions to the fundamental bond making-breaking processes. ...

    journal_title:Biochemistry

    pub_type: 杂志文章,评审

    doi:10.1021/bi301504m

    authors: Klinman JP

    更新日期:2013-03-26 00:00:00