Crystal structure and properties of CYP231A2 from the thermoacidophilic archaeon Picrophilus torridus.

Abstract:

:The crystal structure of a cytochrome P450 from the thermoacidophile Picrophilus torridus, CYP231A2 (PTO1399), has been solved. This structure reveals a wide open substrate access channel. To better understand ligand-induced structural transitions in CYP231A2, protein-ligand interactions were investigated using 4-phenylimidazole. Comparison of the ligand-free and -bound CYP231A2 structures shows conformational changes where the F and G helices swing as a single rigid body about a pivot point at the N-terminal end of the F helix, allowing the F helix region to dip toward the heme, resulting in closer contacts with the ligand. Thermal melting data illustrate that the melting temperature for CYP231A2 increases nearly 10 degrees C upon ligand binding, thus illustrating that the closed conformation is substantially more stable. Furthermore, spectroscopic data indicate that the active site is stable at pH 4.5, although, unusually, the thiolate ligand to the iron can be reversibly protonated. CYP231A2 does not exhibit structural features normally associated with thermophilic proteins such as an increase in salt bridge networks or extensive aromatic clustering. The increase in thermal stability instead is best correlated with the smaller size and shorter loops in CYP231A2 compared to other P450s.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Ho WW,Li H,Nishida CR,de Montellano PR,Poulos TL

doi

10.1021/bi702240k

subject

Has Abstract

pub_date

2008-02-19 00:00:00

pages

2071-9

issue

7

eissn

0006-2960

issn

1520-4995

journal_volume

47

pub_type

杂志文章
  • Role of structural and energetic factors in regulating repair of a bulky DNA lesion with different opposite partner bases.

    abstract::Extensive molecular modeling with molecular dynamics simulations and van der Waals energy analyses were used to elucidate the striking finding that a mutagenic benzo[a]pyrene-derived DNA lesion, the base-displaced intercalated 10R-(+)-cis-anti-B[a]P-N(2)-dG (G*), manifests large differences in nucleotide excision repa...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi4009177

    authors: Mu H,Kropachev K,Chen Y,Zhang H,Cai Y,Geacintov NE,Broyde S

    更新日期:2013-08-20 00:00:00

  • pH dependence of tritium exchange with the C-2 protons of the histidines in bovine trypsin.

    abstract::At pH 8.9 and 37 degrees C the half-times for tritium exchange with the C-2 protons of the histidines of trypsin are 73 days for His-57, and greater than 1000 days for His-40 and His-91. These half-times are much longer than the half-life of exchange for the C-2 proton of free histidine (2.8 days at pD 8.2), and longe...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00661a010

    authors: Krieger M,Koeppe RE 2nd,Stroud RM

    更新日期:1976-08-10 00:00:00

  • The structure of human parathyroid hormone from a study of fragments in solution using 1H NMR spectroscopy and its biological implications.

    abstract::In order to gain insight into the structure of human parathyroid hormone (hPTH), four fragments [hPTH(1-34), hPTH(18-48), hPTH(28-48), and hPTH(53-84)], which cover all regions of the intact hormone, have been investigated by CD and NMR spectroscopy in combination with distance geometry, and restrained molecular dynam...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00173a010

    authors: Wray V,Federau T,Gronwald W,Mayer H,Schomburg D,Tegge W,Wingender E

    更新日期:1994-02-22 00:00:00

  • Rh(phen)2phi3+ as a shape-selective probe of triple helices.

    abstract::RNA pur*pur-pyr and pyr*pur-pyr (pur = purine, pyr = pyrimidine) triple helices consisting of a Watson-Crick base-paired 28mer hairpin duplex and a Hoogsteen base-paired purine or pyrimidine 12mer are targeted with photoactivated cleavage by the metal complex Rh(phen)2phi3+ (phen = phenanthroline, phi = 9, 10-phenanth...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi980509v

    authors: Lim AC,Barton JK

    更新日期:1998-06-23 00:00:00

  • Solution structure of a designed spirocyclic helical ligand binding at a two-base bulge site in DNA.

    abstract::The solution structure of the complex formed between an oligodeoxynucleotide containing a two-base bulge (5'-CCATCGTCTACCTTTGGTAGGATGG) and SCA-alpha2, a designed spirocyclic helical molecule, has been elucidated. SCA-alpha2, a close mimic of the metabolite, NCSi-gb, of the DNA bulge-specific enediyne antibiotic neoca...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi602599d

    authors: Zhang N,Lin Y,Xiao Z,Jones GB,Goldberg IH

    更新日期:2007-04-24 00:00:00

  • Binding of human fibroblast interferon to concanavalin A-agarose. Involvement of carbohydrate recognition and hydrophobic interaction.

    abstract::Human fibroblast interferon binds to a concanavalin A-agarose (Con A-Sepharose) equilibrated with methyl alpha-D-mannopyranoside, or levan; in contrast, it is only partially retarded on a similar column equilibrated with ethylene glycol. Interferon does not bind, however, to a lectin column equilibrated with both meth...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00648a039

    authors: Davey MW,Sulkowski E,Carter WA

    更新日期:1976-02-10 00:00:00

  • Gal repressor-operator-HU ternary complex: pathway of repressosome formation.

    abstract::DNA transaction reactions require formation of nucleoprotein complexes that involve multifaceted DNA-protein and protein-protein interactions. Genetic and biochemical studies suggested that the higher order Gal repressosome structure, which governs the transcription of two tandem galpromoters in Escherichia coli, invo...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi047720t

    authors: Roy S,Dimitriadis EK,Kar S,Geanacopoulos M,Lewis MS,Adhya S

    更新日期:2005-04-12 00:00:00

  • Intramolecular disulfide loop formation in a peptide containing two cysteines.

    abstract::The cyanogen bromide fragment comprising residues 115-181 of Kunitz soybean trypsin inhibitor is a soluble random-coil peptide at pH 7 containing two cysteines separated by eight other amino acids in the primary sequence. Four of the six rate constants have been determined for the three disulfide exchange reactions be...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00377a005

    authors: Snyder GH

    更新日期:1987-02-10 00:00:00

  • The subcellular distribution of adenylate and guanylate cyclases in murine lymphoid cells.

    abstract::Membrane vesicles can be prepared from murine lymphoid cells by nitrogen cavitation and fractionated by sedimentation through nonlinear sucrose density gradients. Two subpopulations of membrane vesicles, PMI and PMII, can be distinguished on the basis of sedimentation rate. The subcellular distribution of adenylate an...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00652a026

    authors: Watson J,Nilsen-Hamilton M,Hamilton RT

    更新日期:1976-04-06 00:00:00

  • Comparisons of pressure and temperature activation parameters for amide hydrogen exchange in T4 lysozyme.

    abstract::Activation enthalpies and entropies are reported for proton-deuteron exchange at 42 amide sites in T4 lysozyme and compared with activation volumes for the same residues obtained earlier [Hitchens, T. K., and Bryant, R. G. (1998) Biochemistry 37, 5878-5887]. There is no correlation found between activation volume and ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi991718y

    authors: Dixon ME,Hitchens TK,Bryant RG

    更新日期:2000-01-11 00:00:00

  • Tying up the Ends: Plasticity in the Recognition of Single-Stranded DNA at Telomeres.

    abstract::Telomeres terminate nearly exclusively in single-stranded DNA (ssDNA) overhangs comprised of the G-rich 3' end. This overhang varies widely in length from species to species, ranging from just a few bases to several hundred nucleotides. These overhangs are not merely a remnant of DNA replication but rather are the res...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.6b00496

    authors: Lloyd NR,Dickey TH,Hom RA,Wuttke DS

    更新日期:2016-09-27 00:00:00

  • Characterization of Lck-binding elements in the herpesviral regulatory Tip protein.

    abstract::Herpesvirus saimiri encodes a tyrosine kinase interacting protein (Tip) that binds to T-cell-specific tyrosine kinase Lck via multiple sequence motifs and controls its activity. The regulation of Lck by Tip represents a key mechanism in the transformation of human T-lymphocytes during herpesviral infection. In this st...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0485068

    authors: Bauer F,Hofinger E,Hoffmann S,Rösch P,Schweimer K,Sticht H

    更新日期:2004-11-30 00:00:00

  • Cadmium-113 NMR studies of the DNA binding domain of the mammalian glucocorticoid receptor.

    abstract::The DNA binding domain of the mammalian glucocorticoid hormone receptor (GR) contains nine highly conserved cysteine residues, a conservation shared by the superfamily of steroid and thyroid hormone receptors. A fragment [150 amino acids (AA) in length] consisting of GR residues 407-556, containing within it the entir...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00491a016

    authors: Pan T,Freedman LP,Coleman JE

    更新日期:1990-10-02 00:00:00

  • Pressure-induced effects on cytochrome oxidase: the aerobic steady state.

    abstract::If cytochrome c oxidase is subjected to pressure during the aerobic steady state, large spectral changes are apparent. These seem to be associated with the inhibition of electron transport within the oxidase. The volume change for the transition is about 80 mL/mol. When the oxidase in the aerobic steady state, with po...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00414a026

    authors: Kornblatt JA,Hui Bon Hoa G,Heremans K

    更新日期:1988-07-12 00:00:00

  • Solution structure of GxTX-1E, a high-affinity tarantula toxin interacting with voltage sensors in Kv2.1 potassium channels .

    abstract::GxTX-1E is a neurotoxin recently isolated from Plesiophrictus guangxiensis venom that inhibits the Kv2.1 channel in pancreatic beta-cells. The sequence of the toxin is related to those of previously studied tarantula toxins that interact with the voltage sensors in Kv channels, and GxTX-1E interacts with the Kv2.1 cha...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi100246u

    authors: Lee S,Milescu M,Jung HH,Lee JY,Bae CH,Lee CW,Kim HH,Swartz KJ,Kim JI

    更新日期:2010-06-29 00:00:00

  • Inhibiting gene expression with peptide nucleic acid (PNA)--peptide conjugates that target chromosomal DNA.

    abstract::Peptide nucleic acids (PNAs) are nonionic DNA/RNA mimics that can recognize complementary sequences by Watson-Crick base pairing. The neutral PNA backbone facilitates the recognition of duplex DNA by strand invasion, suggesting that antigene PNAs (agPNAs) can be important tools for exploring the structure and function...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi700230a

    authors: Hu J,Corey DR

    更新日期:2007-06-26 00:00:00

  • Nitroxides block DNA scission and protect cells from oxidative damage.

    abstract::The protective effect of cyclic stable nitroxide free radicals, having SOD-like activity, against oxidative damage was studied by using Escherichia coli xthA DNA repair-deficient mutant hypersensitive to H2O2. Oxidative damage induced by H2O2 was assayed by monitoring cell survival. The metal chelator 1,10-phenanthrol...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00216a033

    authors: Samuni A,Godinger D,Aronovitch J,Russo A,Mitchell JB

    更新日期:1991-01-15 00:00:00

  • Phosphorus-31 nuclear magnetic resonance studies of wild-type and glycolytic pathway mutants of Saccharomyces cerevisiae.

    abstract::High-resolution phosphorus-31 nuclear magnetic resonance (31P NMR) spectra of wild-type and mutant strains of Saccharomyces cerevisiae were observed at a frequency of 145.7 MHz. Levels of various phosphorus metabolites were investigated upon addition of glucose under both aerobic and anaerobic conditions. Three mutant...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00588a006

    authors: Navon G,Shulman RG,Yamane T,Eccleshall TR,Lam KB,Baronofsky JJ,Marmur J

    更新日期:1979-10-16 00:00:00

  • Excitation energy transfer studies on the proximity between SH1 and the adenosinetriphosphatase site in myosin subfragment 1.

    abstract::Excitation energy transfer studies were carried out to determine the distance between the adenosinetriphosphatase (ATPase) site and a unique "fast-reacting" sulfhydryl (referred to as SH1) in myosin subfragment 1. The fluorescent moiety of the probe N-(iodoacetyl)-N'-(5-sulfo-1-naphthyl)ethylene-diamine was used as th...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00520a035

    authors: Tao T,Lamkin M

    更新日期:1981-08-18 00:00:00

  • Composition and structure of zinc-deficient Euglena gracilis chromatin.

    abstract::The histone content of zinc-deficient (-Zn) Euglena gracilis decreases while, concomitantly, DNA content increases and the transcription rate is reduced markedly [Mazus, B., Falchuk, K. H., & Vallee, B. L. (1983) Biochemistry (in press); Falchuk, K. H., Fawcett, D. W., & Vallee, B. L. (1975) J. Cell Sci. 17, 57-78]. T...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00291a014

    authors: Stankiewicz AJ,Falchuk KH,Vallee BL

    更新日期:1983-10-25 00:00:00

  • Rhodopsin in dimyristoylphosphatidylcholine-reconstituted bilayers forms metarhodopsin II and activates Gt.

    abstract::The photochemical intermediate metarhodopsin II (meta II; lambda max = 380 nm) is generally identified with rho*, the conformation of photolyzed rhodopsin which binds and activates the visual G-protein, Gt [Emeis, D., & Hoffman, K.P. (1981) FEBS Lett. 136, 201-207]. Purified bovine rhodopsin was incorporated into vesi...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00215a006

    authors: Mitchell DC,Kibelbek J,Litman BJ

    更新日期:1991-01-08 00:00:00

  • X-ray structures of Torpedo californica acetylcholinesterase complexed with (+)-huperzine A and (-)-huperzine B: structural evidence for an active site rearrangement.

    abstract::Kinetic and structural data are presented on the interaction with Torpedo californica acetylcholinesterase (TcAChE) of (+)-huperzine A, a synthetic enantiomer of the anti-Alzheimer drug, (-)-huperzine A, and of its natural homologue (-)-huperzine B. (+)-Huperzine A and (-)-huperzine B bind to the enzyme with dissociat...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi020151+

    authors: Dvir H,Jiang HL,Wong DM,Harel M,Chetrit M,He XC,Jin GY,Yu GL,Tang XC,Silman I,Bai DL,Sussman JL

    更新日期:2002-09-03 00:00:00

  • Impact of actin glutathionylation on the actomyosin-S1 ATPase.

    abstract::Glutathionylation of intracellular proteins is an established physiological regulator of protein function. In multiple models, including ischemia-reperfusion of the heart, increased oxidative stress results in the glutathionylation of sarcomeric actin. We hypothesized that actin glutathionylation may play a role in th...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi900669m

    authors: Pizarro GO,Ogut O

    更新日期:2009-08-11 00:00:00

  • Microsecond luminescence emission from copper cytochrome c.

    abstract::The luminescence of Cu-substituted cytochrome c exhibits temperature-dependent decay modes and spectral shifts at temperatures below 80 K. By comparison with the data from metal-substituted porphyrins, we determined intramolecular rate parameters. The observed tripdoublet decay time is 13 +/- 1 mus at 77 K and the qua...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00583a005

    authors: Glatz P,Chance B,Vanderkooi JM

    更新日期:1979-08-07 00:00:00

  • Albumin-bound quercetin repairs vitamin E oxidized by apolipoprotein radicals in native HDL3 and LDL.

    abstract::In the minor fraction of HDL3 containing alpha-tocopherol (alphaTocOH), selective one-electron oxidation of Trp and Tyr residues of apolipoproteins A-I and A-II by *Br2- radical-anions produces the corresponding semioxidized species, TyrO* and *Trp. Repair of TyrO* by endogenous alphaTocOH generates the alpha-tocopher...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi701419d

    authors: Filipe P,Patterson LK,Bartels DM,Hug GL,Freitas JP,Mazière JC,Santus R,Morlière P

    更新日期:2007-12-11 00:00:00

  • Identification of a regulatory segment of poly(ADP-ribose) glycohydrolase.

    abstract::Coordinate regulation of PARP-1 and -2 and PARG is required for cellular responses to genotoxic stress. While PARP-1 and -2 are regulated by DNA breaks and covalent modifications, mechanisms of PARG regulation are poorly understood. We report here discovery of a PARG regulatory segment far removed linearly from residu...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi100973m

    authors: Botta D,Jacobson MK

    更新日期:2010-09-07 00:00:00

  • Analysis of amino and carboxy terminal GLUT-4 targeting motifs in 3T3-L1 adipocytes using an endosomal ablation technique.

    abstract::The targeting of the insulin-responsive glucose transporter, GLUT-4, to an intracellular compartment in adipocytes and muscle is one of the key features responsible for the unique insulin sensitivity of this transporter. Through expression of epitope-tagged GLUT-4 mutants in 3T3-L1 adipocytes, two motifs have been ide...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi980988y

    authors: Melvin DR,Marsh BJ,Walmsley AR,James DE,Gould GW

    更新日期:1999-02-02 00:00:00

  • Binding of the proline-rich segment of myelin basic protein to SH3 domains: spectroscopic, microarray, and modeling studies of ligand conformation and effects of posttranslational modifications.

    abstract::Myelin basic protein (MBP) is a multifunctional protein involved in maintaining the stability and integrity of the myelin sheath by a variety of interactions with membranes and with cytoskeletal and other proteins. A central segment of MBP is highly conserved in mammals and consists of a membrane surface-associated am...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi701336n

    authors: Polverini E,Rangaraj G,Libich DS,Boggs JM,Harauz G

    更新日期:2008-01-08 00:00:00

  • Mechanistic studies examining the efficiency and fidelity of DNA synthesis by the 3TC-resistant mutant (184V) of HIV-1 reverse transcriptase.

    abstract::A single amino acid substitution from methionine-184 to valine (M184V) of HIV-1 reverse transcriptase (RT) evokes the 1000-fold 3TC (Lamivudine) resistance by the HIV-1 virus observed in the clinic. The M184V mutant HIV-1 RT was studied to assess its catalytic efficiency during single nucleotide incorporation using a ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi990709m

    authors: Feng JY,Anderson KS

    更新日期:1999-07-20 00:00:00

  • Activators of phosphorylase kinase alter the cross-linking of its catalytic subunit to the C-terminal one-sixth of its regulatory alpha subunit.

    abstract::Phosphorylase kinase, a regulatory enzyme of glycogenolysis in skeletal muscle, is a hexadecameric oligomer consisting of four copies each of a catalytic subunit (gamma) and three regulatory subunits (alpha, beta, and delta, the last being endogenous calmodulin). The enzyme is activated by a variety of effectors actin...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi982060b

    authors: Nadeau OW,Traxler KW,Fee LR,Baldwin BA,Carlson GM

    更新日期:1999-02-23 00:00:00