Organization of clusters and internal electron pathways in CO dehydrogenase from Clostridium thermoaceticum: relevance to the mechanism of catalysis and cyanide inhibition.

Abstract:

:Cyanide inhibits the CO oxidation activity of carbon monoxide dehydrogenase from Clostridium thermoaceticum by binding tightly to the form of the C-cluster yielding the gav = 1.82 signal (the C1.82 form). CN- dissociates and the enzyme reactivates upon addition of CO, CO2 plus dithionite, or CS2 plus dithionite. Dithionite slows the inhibition of the enzyme by CN-, but it cannot reactivate the enzyme. This behavior is explained by assuming that binding of CO, CO2, or CS2 at a modulator site accelerates the dissociation of CN- from the C-cluster. With CN- bound at the C-cluster, dithionite, but not CO, can reduce those Fe-S clusters in the enzyme whose redox status can be monitored at 420 nm. The electron pathway used for CO oxidation appears to be as follows: C-cluster-->Fe-S Clusters-->external electron acceptors. The electron used to reduce the NiFe complex originates predominantly from the C-cluster, and this reduction is inhibited when CN- is bound at the C-cluster. The NiFe complex is reduced more slowly (in the absence of CN-) than CO is catalytically oxidized, indicating that this reduction is not part of the catalytic mechanism for CO oxidation. The form of the C-cluster yielding the g(av) = 1.86 signal (C1.86) is proposed to be two electrons more reduced than C1.82 and able to bind and reduce CO2. CO is proposed to be oxidized by C1.82. Neither CO or CN- appears to bind C1.86.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Anderson ME,Lindahl PA

doi

10.1021/bi00195a011

subject

Has Abstract

pub_date

1994-07-26 00:00:00

pages

8702-11

issue

29

eissn

0006-2960

issn

1520-4995

journal_volume

33

pub_type

杂志文章
  • Role of lys100 in human dihydroorotate dehydrogenase: mutagenesis studies and chemical rescue by external amines.

    abstract::Chemical modification, mutagenesis, chemical rescue, and isotope effect studies are used to identify and probe the roles of several conserved amino acid groups in catalysis by human dihydroorotate dehydrogenase. Time- and pH-dependent inactivation of human dihydroorotate dehydrogenase by trinitrobenzenesulfonate impli...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi000630d

    authors: Jiang W,Locke G,Harpel MR,Copeland RA,Marcinkeviciene J

    更新日期:2000-07-11 00:00:00

  • Nanosecond fluorescence studies of noncovalent interaction of monomeric and dimeric intercalators with DNA.

    abstract::The noncovalent interaction of 2-aminodipyrido[1,2-a:3',2'-d]imidazole (Glu-P-2) and its derivatives, which are potent mutagens isolated from L-glutamic acid pyrolysate, with calf thymus DNA was studied by steady-state and nanosecond fluorescence spectroscopies. The fluorescence of these compounds exhibits static quen...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00344a013

    authors: Itoh M,Kurokawa H,Usui M,Ohno M,Shimoda E,Hashimoto Y,Shudo K

    更新日期:1985-11-05 00:00:00

  • Structural effect of the Asp345a insertion in penicillin-binding protein 2 from penicillin-resistant strains of Neisseria gonorrhoeae.

    abstract::A hallmark of penicillin-binding protein 2 (PBP2) from penicillin-resistant strains of Neisseria gonorrhoeae is insertion of an aspartate after position 345. The insertion resides on a loop near the active site and is immediately adjacent to an existing aspartate (Asp346) that forms a functionally important hydrogen b...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi5011317

    authors: Fedarovich A,Cook E,Tomberg J,Nicholas RA,Davies C

    更新日期:2014-12-09 00:00:00

  • Structure and dynamics of the alpha-lactalbumin molten globule: fluorescence studies using proteins containing a single tryptophan residue.

    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

    authors: Chakraborty S,Ittah V,Bai P,Luo L,Haas E,Peng Z

    更新日期:2001-06-19 00:00:00

  • Conformationally restricted thrombin inhibitors resistant to proteolytic digestion.

    abstract::A new type of thrombin exo-site inhibitor has been designed with enhanced inhibitory potency and increased metabolic stability. With the aid of the model of the structure of the thrombin-hirudin fragment complex [Yue, S.-Y., DiMaio, J., Szewczuk, Z., Purisima, E. O., Ni, F., & Konishi, Y. (1992) Protein Eng. 5, 77-85]...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00153a004

    authors: Szewczuk Z,Gibbs BF,Yue SY,Purisima EO,Konishi Y

    更新日期:1992-09-29 00:00:00

  • Dual-wavelength ratiometric fluorescence measurements of membrane potential.

    abstract::This work shows that the voltage across membranes in two very different preparations, lipid vesicles in suspension and individual HeLa cells under a microscope, is linearly related to the ratio of fluorescence excited from the two wings of the absorption spectrum of a voltage-sensitive dye. The dye di-4-ANEPPS [1-(3-s...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00437a003

    authors: Montana V,Farkas DL,Loew LM

    更新日期:1989-05-30 00:00:00

  • Positions of sea urchin (Strongylocentrotus purpuratus) histone genes relative to restriction endonuclease sites on the chimeric plasmids pSp2 and pSp17.

    abstract::The positions of the several sea urchin histone genes on the eukaryotic fragments of the chimeric plasmids pSp2 and pSp17 have been mapped relative to the Eco RI and Hind III restriction endonuclease sites on the plasmids. Two principal mapping methods using the electron microscope have been used: (a) the R-loop proce...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00626a040

    authors: Holmes DS,Cohn RH,Kedes LH,Davidson N

    更新日期:1977-04-05 00:00:00

  • Elimination of the hydrolytic water molecule in a class A beta-lactamase mutant: crystal structure and kinetics.

    abstract::Two site-directed mutant enzymes of the class A beta-lactamase from Staphylococcus aureus PC1 were produced with the goal of blocking the site that in the native enzyme is occupied by the proposed hydrolytic water molecule. The crystal structures of these two mutant enzymes, N170Q and N170M, have been determined and r...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi962242a

    authors: Zawadzke LE,Chen CC,Banerjee S,Li Z,Wäsch S,Kapadia G,Moult J,Herzberg O

    更新日期:1996-12-24 00:00:00

  • Photooxidation pathway of chlorophyll Z in photosystem II as Studied by Fourier transform infrared spectroscopy.

    abstract::The oxidation pathway of chlorophyll Z (ChlZ) in photosystem II (PSII) at cryogenic temperatures was studied by means of light-induced Fourier transform infrared (FTIR) difference spectroscopy. To examine the involvement of redox-active beta-carotene (Car) in the pathway, two Car molecules in Mn-depleted PSII membrane...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi052346y

    authors: Kitajima Y,Noguchi T

    更新日期:2006-02-14 00:00:00

  • Phosphorylation of Ser111 in Rab8a Modulates Rabin8-Dependent Activation by Perturbation of Side Chain Interaction Networks.

    abstract::GTPases are key players during cellular signaling. Phosphorylation of Rab proteins, which belong to the Ras superfamily of small GTPases regulating intracellular transport, has been implicated in the pathogenesis of Parkinson's disease. For Rab8a, it was shown that serine 111 phosphorylation (pS111) is dependent on th...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.9b00516

    authors: Pourjafar-Dehkordi D,Vieweg S,Itzen A,Zacharias M

    更新日期:2019-08-20 00:00:00

  • Characterization of amyloid formation by glucagon-like peptides: role of basic residues in heparin-mediated aggregation.

    abstract::Glycosaminoglycans (GAGs) have been reported to play a significant role in amyloid formation of a wide range of proteins/peptides either associated with diseases or native biological functions. The exact mechanism by which GAGs influence amyloid formation is not clearly understood. Here, we studied two closely related...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi401398k

    authors: Jha NN,Anoop A,Ranganathan S,Mohite GM,Padinhateeri R,Maji SK

    更新日期:2013-12-10 00:00:00

  • Substrate connectivity effects in the transition state for cytidine deaminase.

    abstract::The binding properties of substrates and competitive inhibitors of Escherichia coli cytidine deaminase are compared with those of the fragments obtained by cutting these ligands at several positions including the glycosidic bond. In contrast with the normal substrate cytidine (kcat/Km = 2.6 x 10(6) M-1 s-1), cytosine ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi980959n

    authors: Carlow D,Wolfenden R

    更新日期:1998-08-25 00:00:00

  • The 2.15 A crystal structure of Mycobacterium tuberculosis chorismate mutase reveals an unexpected gene duplication and suggests a role in host-pathogen interactions.

    abstract::Chorismate mutase catalyzes the first committed step toward the biosynthesis of the aromatic amino acids, phenylalanine and tyrosine. While this biosynthetic pathway exists exclusively in the cell cytoplasm, the Mycobacterium tuberculosis enzyme has been shown to be secreted into the extracellular medium. The secretor...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0606445

    authors: Qamra R,Prakash P,Aruna B,Hasnain SE,Mande SC

    更新日期:2006-06-13 00:00:00

  • Rudimentary phosvitin domain in a minor chicken vitellogenin gene.

    abstract::We have determined the nucleotide sequence and the derived amino acid sequence of the phosphoprotein-encoding region of the chicken vitellogenin III gene. The sequence of this minor vitellogenin could be aligned with exon 22 up to exon 27 of the previously sequenced major vitellogenin II gene (van het Schip et al., 19...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00432a034

    authors: Byrne BM,de Jong H,Fouchier RA,Williams DL,Gruber M,Ab G

    更新日期:1989-03-21 00:00:00

  • The stability, structural organization, and denaturation of pectate lyase C, a parallel beta-helix protein.

    abstract::Pectate lyase C (pelC) was the first protein in which the parallel beta-helix structure was recognized. The unique features of parallel beta-helix-containing proteins-a relatively simple topology and unusual interactions among side chains-make pelC an interesting protein to study with respect to protein folding. In th...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi001900v

    authors: Kamen DE,Griko Y,Woody RW

    更新日期:2000-12-26 00:00:00

  • Subgel phases of n-saturated diacylphosphatidylcholines: a Fourier-transform infrared spectroscopic study.

    abstract::The subgel phases of a homologous series of saturated straight-chain diacylphosphatidylcholines with hydrocarbon chains consisting of 10-18 carbon atoms were studied by Fourier-transform infrared spectroscopy. All of these lipids initially form a subgel phase which is spectroscopically similar to that obtained when fu...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00486a024

    authors: Lewis RN,McElhaney RN

    更新日期:1990-08-28 00:00:00

  • Electrostatic Repulsion during Ferritin Assembly and Its Screening by Ions.

    abstract::Escherichia coli non-heme-binding ferritin A (EcFtnA) is a spherical cagelike protein that is composed of 24 identical subunits. EcFtnA dissociates into 2-mers under acidic conditions and can reassemble into the native structure when the pH is increased. To understand how electrostatic interactions influence the assem...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.5b01197

    authors: Sato D,Takebe S,Kurobe A,Ohtomo H,Fujiwara K,Ikeguchi M

    更新日期:2016-01-26 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

  • Ability of tetrahydrobiopterin analogues to support catalysis by inducible nitric oxide synthase: formation of a pterin radical is required for enzyme activity.

    abstract::Pterin-free inducible nitric oxide synthase (iNOS) was reconstituted with tetrahydrobiopterin (H(4)B) or tetrahydrobiopterin analogues (5-methyl-H(4)B and 4-amino-H(4)B), and the ability of bound 5-methyl-H(4)B and 4-amino-H(4)B to support catalysis by either full-length iNOS (FLiNOS) or the isolated heme domain (HDiN...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi035491p

    authors: Hurshman AR,Krebs C,Edmondson DE,Marletta MA

    更新日期:2003-11-18 00:00:00

  • Duplicated dockerin subdomains of Clostridium thermocellum endoglucanase CelD bind to a cohesin domain of the scaffolding protein CipA with distinct thermodynamic parameters and a negative cooperativity.

    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

    authors: Schaeffer F,Matuschek M,Guglielmi G,Miras I,Alzari PM,Béguin P

    更新日期:2002-02-19 00:00:00

  • The quorum-quenching metallo-gamma-lactonase from Bacillus thuringiensis exhibits a leaving group thio effect.

    abstract::Lactone-hydrolyzing enzymes derived from some Bacillus species are capable of disrupting quorum sensing in bacteria that use N-acyl-l-homoserine lactones (AHLs) as intercellular signaling molecules. Despite the promise of these quorum-quenching enzymes as therapeutic and anti-biofouling agents, the ring opening mechan...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi061238o

    authors: Momb J,Thomas PW,Breece RM,Tierney DL,Fast W

    更新日期:2006-11-07 00:00:00

  • Room temperature trapping of rhodopsin photointermediates.

    abstract::By suspending bovine rhodopsin in trehalose-water glass films, it is possible to trap photostates in the light-activation process. Because of the unusually high vitrification temperature of trehalose-water mixtures, this trapping can be accomplished at room temperature. This allows for a facile investigation of the sp...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00181a004

    authors: Sikora S,Little AS,Dewey TG

    更新日期:1994-04-19 00:00:00

  • Thermodynamics and NMR of internal G.T mismatches in DNA.

    abstract::Thermodynamics of 39 oligonucleotides with internal G.T mismatches dissolved in 1 M NaCl were determined from UV absorbance versus temperature profiles. These data were combined with literature values of six sequences to derive parameters for 10 linearly independent trimer and tetramer sequences with G.T mismatches an...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi962590c

    authors: Allawi HT,SantaLucia J Jr

    更新日期:1997-08-26 00:00:00

  • The ribotoxin restrictocin recognizes its RNA substrate by selective engagement of active site residues.

    abstract::Restrictocin and related fungal endoribonucleases from the α-sarcin family site-specifically cleave the sarcin/ricin loop (SRL) on the ribosome to inhibit translation and ultimately trigger cell death. Previous studies showed that the SRL folds into a bulged-G motif and tetraloop, with restrictocin achieving a specifi...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi1018336

    authors: Plantinga MJ,Korennykh AV,Piccirilli JA,Correll CC

    更新日期:2011-04-12 00:00:00

  • Chromatin structure of the chicken lysozyme gene domain as determined by chromatin fractionation and micrococcal nuclease digestion.

    abstract::The chromatin structure encompassing the lysozyme gene domain in hen oviduct nuclei was studied by measuring the partitioning of coding and flanking sequences during chromatin fractionation and by analyzing the nucleosome repeat in response to micrococcal nuclease digestion. Following micrococcal nuclease digestion, n...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00350a033

    authors: Strätling WH,Dölle A,Sippel AE

    更新日期:1986-01-28 00:00:00

  • Binding of adenosine diphosphoribosyltransferase to the termini and internal regions of linear DNAs.

    abstract::Binding mechanisms of ADPR-transferase to restricted double-stranded DNA fragments of SV40 and pBR322 DNA were determined by nuclease protection techniques. Top and bottom strands of double-stranded DNA were identified by specific labeling with 32P. Protection against specific exonucleases identified binding of ADPR-t...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00439a050

    authors: Sastry SS,Buki KG,Kun E

    更新日期:1989-06-27 00:00:00

  • Methylselenocysteine treatment leads to diselenide formation in human cancer cells: evidence from X-ray absorption spectroscopy studies.

    abstract::The selenoamino acids methylselenocysteine (MeSeCys) and selenomethionine (SeMet) have disparate efficacies as anticancer agents. Herein, we use X-ray absorption spectroscopy to determine the chemical form of selenium in human neuroblastoma cells. Cells treated with MeSeCys contain a significant diselenide component, ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi201462u

    authors: Weekley CM,Aitken JB,Musgrave IF,Harris HH

    更新日期:2012-01-24 00:00:00

  • Lipid-bound factor Xa regulates tissue factor activity.

    abstract::The activation of coagulation factor X by tissue factor (TF) and coagulation factor VIIa (VIIa) on a phospholipid surface is thought to be the key step in the initiation of blood coagulation. In this reaction, the product, fXa, is transiently and reversibly bound to the TF-VIIa enzyme complex. This in effect leads to ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi700136a

    authors: Hathcock J,Rusinova E,Vaananen H,Nemerson Y

    更新日期:2007-05-22 00:00:00

  • Human lysosomal sphingomyelinase: substrate efficacy of apolipoprotein/sphingomyelin complexes.

    abstract::Human apolipoprotein stimulation of sphingomyelin (SM) hydrolysis by sphingomyelinase from human skin fibroblasts has been studied. Apolipoproteins A-I, A-II, B, C-I, and E do not enhance sphingomyelin hydrolysis above control levels. In contrast, apoC-II stimulates sphingomyelin hydrolysis by approximately 2.5-fold. ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00363a036

    authors: Ahmad TY,Beaudet AL,Sparrow JT,Morrisett JD

    更新日期:1986-07-29 00:00:00

  • An improved version of the hairpin ribozyme functions as a ribonucleoprotein complex.

    abstract::Most RNA molecules that are endowed with catalytic activity function in the form of ribonucleoproteins within cells. These complexes are frequently large, poorly defined, and difficult to study. As a model system to study biological catalysis by ribonucleoproteins, we have modified the hairpin ribozyme by inserting an...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00023a021

    authors: Sargueil B,Pecchia DB,Burke JM

    更新日期:1995-06-13 00:00:00