Stimulation of lignocellulosic biomass hydrolysis by proteins of glycoside hydrolase family 61: structure and function of a large, enigmatic family.

Abstract:

:Currently, the relatively high cost of enzymes such as glycoside hydrolases that catalyze cellulose hydrolysis represents a barrier to commercialization of a biorefinery capable of producing renewable transportable fuels such as ethanol from abundant lignocellulosic biomass. Among the many families of glycoside hydrolases that catalyze cellulose and hemicellulose hydrolysis, few are more enigmatic than family 61 (GH61), originally classified based on measurement of very weak endo-1,4-beta-d-glucanase activity in one family member. Here we show that certain GH61 proteins lack measurable hydrolytic activity by themselves but in the presence of various divalent metal ions can significantly reduce the total protein loading required to hydrolyze lignocellulosic biomass. We also solved the structure of one highly active GH61 protein and find that it is devoid of conserved, closely juxtaposed acidic side chains that could serve as general proton donor and nucleophile/base in a canonical hydrolytic reaction, and we conclude that the GH61 proteins are unlikely to be glycoside hydrolases. Structure-based mutagenesis shows the importance of several conserved residues for GH61 function. By incorporating the gene for one GH61 protein into a commercial Trichoderma reesei strain producing high levels of cellulolytic enzymes, we are able to reduce by 2-fold the total protein loading (and hence the cost) required to hydrolyze lignocellulosic biomass.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Harris PV,Welner D,McFarland KC,Re E,Navarro Poulsen JC,Brown K,Salbo R,Ding H,Vlasenko E,Merino S,Xu F,Cherry J,Larsen S,Lo Leggio L

doi

10.1021/bi100009p

subject

Has Abstract

pub_date

2010-04-20 00:00:00

pages

3305-16

issue

15

eissn

0006-2960

issn

1520-4995

journal_volume

49

pub_type

杂志文章
  • Isoprenoid diphosphate utilization by recombinant human farnesyl:protein transferase: interactive binding between substrates and a preferred kinetic pathway.

    abstract::The catalytic utilization of dimethylallyl, geranyl, farnesyl, and geranylgeranyl diphosphates in the reaction catalyzed by recombinant human farnesyl:protein transferase (hFPTase) has been examined in the presence of three different protein substrates, Ras-CVLS, Ras-CVIM, and Ras-CAIL. hFPTase catalyzed both farnesyl...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00083a038

    authors: Pompliano DL,Schaber MD,Mosser SD,Omer CA,Shafer JA,Gibbs JB

    更新日期:1993-08-17 00:00:00

  • Mutational analysis of the "regulatory module" of hormone-sensitive lipase.

    abstract::Hormone-sensitive lipase (HSL) is a rate-limiting enzyme in lipolysis that displays broad substrate specificity. HSL function is regulated by reversible phosphorylation that occurs within a 150 aa "regulatory module" of the protein. The current studies used mutational analysis to dissect the contribution of the "regul...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi049206t

    authors: Wang J,Shen WJ,Patel S,Harada K,Kraemer FB

    更新日期:2005-02-15 00:00:00

  • Chemical modification of the urokinase-type plasminogen activator and its receptor using tetranitromethane. Evidence for the involvement of specific tyrosine residues in both molecules during receptor-ligand interaction.

    abstract::The high-affinity interaction between urokinase-type plasminogen activator (uPA) and its glycolipid anchored receptor (uPAR) is essential for the confinement of plasminogen activation to cell surfaces where it is thought to play an important role in cancer cell invasion and metastasis. The receptor binding site of uPA...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00039a006

    authors: Ploug M,Rahbek-Nielsen H,Ellis V,Roepstorff P,Danø K

    更新日期:1995-10-03 00:00:00

  • Structural and functional comparisons of nucleotide pyrophosphatase/phosphodiesterase and alkaline phosphatase: implications for mechanism and evolution.

    abstract::The rapid expansion of the amount of genomic and structural data has provided many examples of enzymes with evolutionarily related active sites that catalyze different reactions. Functional comparisons of these active sites can provide insight into the origins of the enormous catalytic proficiency of enzymes and the e...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi060847t

    authors: Zalatan JG,Fenn TD,Brunger AT,Herschlag D

    更新日期:2006-08-15 00:00:00

  • Allosteric communication in the tryptophan synthase bienzyme complex: roles of the beta-subunit aspartate 305-arginine 141 salt bridge.

    abstract::The allosteric interactions that regulate substrate channeling and catalysis in the tryptophan synthase bienzyme complex from Salmonella typhimurium are triggered by covalent reactions at the beta-site and binding of substrate/product to the alpha-site. The transmission of these allosteric signals between the alpha- a...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi034291a

    authors: Ferrari D,Niks D,Yang LH,Miles EW,Dunn MF

    更新日期:2003-07-01 00:00:00

  • Raman difference spectroscopic studies of the myosin S1.MgADP.vanadate complex.

    abstract::The Raman spectra of the nonbridging V--O bonds in the myosin S1.MgADP.Vi complex, often believed to be a transition-state analogue for the phosphotransfer reaction catalyzed by myosin, and in a vanadate solution model compound have been obtained using Raman difference spectroscopic techniques. A symmetric/asymmetric ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi980556n

    authors: Deng H,Wang J,Callender RH,Grammer JC,Yount RG

    更新日期:1998-08-04 00:00:00

  • Structural requirements for long-chain (sphingoid) base inhibition of protein kinase C in vitro and for the cellular effects of these compounds.

    abstract::Sphingosine, sphinganine, and other long-chain (sphingoid) bases inhibit protein kinase C in vitro and block cellular responses to agonists that are thought to act via this enzyme. To gain further insight into the mechanism of this inhibition, a series of long-chain analogues differing in alkyl chain length (11-20 car...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00434a004

    authors: Merrill AH Jr,Nimkar S,Menaldino D,Hannun YA,Loomis C,Bell RM,Tyagi SR,Lambeth JD,Stevens VL,Hunter R

    更新日期:1989-04-18 00:00:00

  • Details of mannitol transport in Escherichia coli elucidated by site-specific mutagenesis and complementation of phosphorylation site mutants of the phosphoenolpyruvate-dependent mannitol-specific phosphotransferase system.

    abstract::The mannitol transport protein (EIImtl) carries out translocation with concomitant phosphorylation of mannitol from the periplasm to the cytoplasm, at the expense of phosphoenolpyruvate (PEP). The phosphoryl group which is needed for this group translocation is sequentially transferred from PEP via two phosphorylation...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00221a006

    authors: van Weeghel RP,van der Hoek YY,Pas HH,Elferink M,Keck W,Robillard GT

    更新日期:1991-02-19 00:00:00

  • "Dilysine trigger" in transferrins probed by mutagenesis of lactoferrin: crystal structures of the R210G, R210E, and R210L mutants of human lactoferrin.

    abstract::The mammalian iron-binding proteins lactoferrin (Lf) and transferrin (Tf) bind iron very tightly, but reversibly. Despite homologous structures and essentially identical iron binding sites, Tf begins to release iron at pH 6.0, whereas Lf retains iron to pH approximately 3.5. This difference in iron retention gives the...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi020443a

    authors: Peterson NA,Arcus VL,Anderson BF,Tweedie JW,Jameson GB,Baker EN

    更新日期:2002-12-03 00:00:00

  • Interconverting conformations of slipped-DNA junctions formed by trinucleotide repeats affect repair outcome.

    abstract::Expansions of (CTG)·(CAG) repeated DNAs are the mutagenic cause of 14 neurological diseases, likely arising through the formation and processing of slipped-strand DNAs. These transient intermediates of repeat length mutations are formed by out-of-register mispairing of repeat units on complementary strands. The three-...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi301369b

    authors: Slean MM,Reddy K,Wu B,Nichol Edamura K,Kekis M,Nelissen FH,Aspers RL,Tessari M,Schärer OD,Wijmenga SS,Pearson CE

    更新日期:2013-02-05 00:00:00

  • Stereochemical studies of the beta-elimination reactions at aldehydic abasic sites in DNA: endonuclease III from Escherichia coli, sodium hydroxide, and Lys-Trp-Lys.

    abstract::The DNA strand cleavage reaction catalyzed by endonuclease III from Escherichia coli (endo III) on the 3'-side of aldehyde abasic sites proceeds by a syn beta-elimination involving abstraction of the 2'-pro-S proton and formation of a trans alpha,beta-unsaturated aldose product; we previously reported the same stereoc...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00218a033

    authors: Mazumder A,Gerlt JA,Absalon MJ,Stubbe J,Cunningham RP,Withka J,Bolton PH

    更新日期:1991-01-29 00:00:00

  • Peroxidase versus Peroxygenase Activity: Substrate Substituent Effects as Modulators of Enzyme Function in the Multifunctional Catalytic Globin Dehaloperoxidase.

    abstract::The dehaloperoxidase-hemoglobin (DHP) from the terebellid polychaete Amphitrite ornata is a multifunctional hemoprotein that catalyzes the oxidation of a wide variety of substrates, including halo/nitrophenols, haloindoles, and pyrroles, via peroxidase and/or peroxygenase mechanisms. To probe whether substrate substit...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/acs.biochem.8b00540

    authors: McGuire AH,Carey LM,de Serrano V,Dali S,Ghiladi RA

    更新日期:2018-07-31 00:00:00

  • Physiological inhibitors of the catalytic subunit of cAMP-dependent protein kinase: effect of MgATP on protein-protein interactions.

    abstract::The catalytic (C) subunit of cAMP-dependent protein kinase interacts with two classes of inhibitors. The regulatory (R) subunits, types I and II, associate to form an inactive holoenzyme complex that is activated in response to cAMP. The C-subunit is also inhibited by small heat-stable protein kinase inhibitors (PKI's...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00213a035

    authors: Herberg FW,Taylor SS

    更新日期:1993-12-21 00:00:00

  • Selective radiolabeling and isolation of the hydrophobic membrane-binding domain of human erythrocyte acetylcholinesterase.

    abstract::The hydrophobic, membrane-binding domain of purified human erythrocyte acetylcholinesterase was labeled with the photoactivated reagent 3-(trifluoromethyl)-3-(m-[125I]iodophenyl)diazirine. The radiolabel was incorporated when the enzyme was prepared in detergent-free aggregates, in detergent micelles, or in phospholip...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00359a004

    authors: Roberts WL,Rosenberry TL

    更新日期:1986-06-03 00:00:00

  • Reactions of benzylamines with methylamine dehydrogenase. Evidence for a carbanionic reaction intermediate and reaction mechanism similar to eukaryotic quinoproteins.

    abstract::It had been previously reported that aromatic amines were not substrates for the bacterial quinoprotein methylamine dehydrogenase. In this study, benzylamine-dependent activity was also not observed in the steady-state assay of this enzyme with the artificial electron acceptor phenazine ethosulfate (PES). Benzylamines...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00128a012

    authors: Davidson VL,Jones LH,Graichen ME

    更新日期:1992-04-07 00:00:00

  • Murine DNA (cytosine-5-)-methyltransferase: steady-state and substrate trapping analyses of the kinetic mechanism.

    abstract::DNA (cytosine-5-)-methyltransferase is essential for viable mammalian development and has a central function in the determination and maintenance of epigenetic methylation patterns. Steady-state and substrate trapping studies were performed to better understand how the enzyme functions. The catalytic efficiency was de...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi9810609

    authors: Flynn J,Reich N

    更新日期:1998-10-27 00:00:00

  • Determination of the three-dimensional structure of the bifunctional alpha-amylase/trypsin inhibitor from ragi seeds by NMR spectroscopy.

    abstract::The three-dimensional structure of the bifunctional alpha-amylase/trypsin inhibitor (RBI) from seeds of ragi (Eleusine coracana Gaertneri) has been determined in solution using multidimensional 1H and 15N NMR spectroscopy. The inhibitor consists of 122 amino acids, with 5 disulfide bridges, and belongs to the plant al...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00026a009

    authors: Strobl S,Mühlhahn P,Bernstein R,Wiltscheck R,Maskos K,Wunderlich M,Huber R,Glockshuber R,Holak TA

    更新日期:1995-07-04 00:00:00

  • Organization of the human protein S genes.

    abstract::Human genomic clones that span the entire protein S expressed gene (PS alpha) and the 3' two-thirds of the protein S pseudogene (PS beta) have been isolated and characterized. The PS alpha gene is greater than 80 kilobases in length and contains 14 introns and 15 exons, as well as 6 repetitive "Alu" sequences. Exons I...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00486a010

    authors: Schmidel DK,Tatro AV,Phelps LG,Tomczak JA,Long GL

    更新日期:1990-08-28 00:00:00

  • Chelating properties of the Ca2+ transport site of the retinal rod Na-Ca+K exchanger: evidence for a common Ca2+ and Na+ binding site.

    abstract::pH-dependent Ca2+ and Na+ transport via Na-Ca+K exchange was measured in isolated and purified bovine retinal rod outer segments (ROS). Ca2+ transport was measured (1) as 45Ca uptake via reverse Na-Ca+K exchange or via Ca-Ca exchange and (2) as a Ca(2+)-induced rise in cytosolic free Ca2+ concentration via reverse Na-...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00021a045

    authors: Schnetkamp PP

    更新日期:1995-05-30 00:00:00

  • Cdx1 interacts physically with a subset of Hox proteins.

    abstract::Cdx and Hox gene families encode homeodomain-containing transcription factors involved in anterior-posterior vertebral patterning. Although Cdx proteins are direct transcriptional regulators of Hox gene expression, both Hox and Cdx proteins are known to interact with other homeodomain transcription factors, leading us...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi301241q

    authors: Lafontaine CA,Grainger S,Hess BL,Béland M,Lohnes D

    更新日期:2012-12-04 00:00:00

  • Poliovirus RNA-dependent RNA polymerase (3Dpol): kinetic, thermodynamic, and structural analysis of ribonucleotide selection.

    abstract::We have performed a kinetic and thermodynamic analysis of 3D(pol) derivatives containing substitutions in the ribose-binding pocket with ATP analogues containing correct and incorrect sugar configurations. We find that Asp-238, a residue in structural motif A that is conserved in all RNA-dependent RNA polymerases, is ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi035429s

    authors: Gohara DW,Arnold JJ,Cameron CE

    更新日期:2004-05-11 00:00:00

  • Biosynthesis of a thiamin antivitamin in Clostridium botulinum.

    abstract::Bacimethrin-derived 2'-methoxythiamin pyrophosphate inhibits microbial growth by disrupting metabolic pathways dependent on thiamin-utilizing enzymes. This study describes the discovery of the bacimethrin biosynthetic gene cluster of Clostridium botulinum A ATCC 19397 and in vitro reconstitution of bacimethrin biosynt...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi500281a

    authors: Cooper LE,O'Leary SE,Begley TP

    更新日期:2014-04-15 00:00:00

  • Crystal structures of two potent nonamidine inhibitors bound to factor Xa.

    abstract::There has been intense interest in the development of factor Xa inhibitors for the treatment of thrombotic diseases. Our laboratory has developed a series of novel non-amidine inhibitors of factor Xa. This paper presents two crystal structures of compounds from this series bound to factor Xa. The first structure is de...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0264061

    authors: Adler M,Kochanny MJ,Ye B,Rumennik G,Light DR,Biancalana S,Whitlow M

    更新日期:2002-12-31 00:00:00

  • Hydrolysis of tri- and monoacylglycerol by lipoprotein lipase: evidence for a common active site.

    abstract::The relationship between triacylglycerol and monoacylglycerol hydrolyzing activities of purified rat heart lipoprotein lipase was studied using emulsified trioleoylglycerol and micellar or albumin-bound monooleoylglycerol as substrates. The maximal reaction rates obtained with the two substrates were similar (650 and ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00654a017

    authors: Twu JS,Nilsson-Ehle P,Schotz MC

    更新日期:1976-05-04 00:00:00

  • Identification of essential tyrosine and lysine residues in angiotensin converting enzyme: evidence for a single active site.

    abstract::Inactivation of rabbit lung angiotensin converting enzyme (ACE) by 1-fluoro-2,4-dinitrobenzene (Dnp-F) has been shown to be due primarily to the modification of a tyrosine residue [Bünning, P., Kleeman, S.G., & Riordan, J.F. (1990) Biochemistry (preceding paper in this issue)]. Rabbit testicular ACE is also inactivate...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00498a011

    authors: Chen YN,Riordan JF

    更新日期:1990-11-20 00:00:00

  • Disulfide structure of the leucine-rich repeat C-terminal cap and C-terminal stalk region of Nogo-66 receptor.

    abstract::Nogo-66 receptor (NgR1) is a leucine-rich repeat (LRR) protein that forms part of a signaling complex modulating axon regeneration. Previous studies have shown that the entire LRR region of NgR1, including the C-terminal cap of the LRR, LRRCT, is needed for ligand binding, and that the adjacent C-terminal region (CT s...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi0517483

    authors: Wen D,Wildes CP,Silvian L,Walus L,Mi S,Lee DH,Meier W,Pepinsky RB

    更新日期:2005-12-20 00:00:00

  • Interaction of troponin and tropomyosin: spectroscopic and calorimetric studies.

    abstract::The thermodynamic parameters characterizing the interaction between rabbit fast skeletal muscle troponin and tropomyosin have been determined at 25 degrees C for three solution conditions: buffer containing (A) 1 mM CaCl2, simulating a "turned-on" state, (B) 3 mM MgCl2, simulating a "turned-off" state, and (C) 2 mM et...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00340a040

    authors: Ingraham RH,Swenson CA

    更新日期:1985-09-10 00:00:00

  • X-ray structure of the magnesium(II).ADP.vanadate complex of the Dictyostelium discoideum myosin motor domain to 1.9 A resolution.

    abstract::The structure of the vanadate-trapped ADP complex of a truncated head of Dictyostelium myosin II consisting of residues Asp 2-Asn 762 has been determined by molecular replacement at 1.9 A resolution and refined to a crystallographic R-factor of 19.4%. The crystals belong to the orthorhombic space group C2221 where a =...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi952633+

    authors: Smith CA,Rayment I

    更新日期:1996-04-30 00:00:00

  • Possibility of shape conformers of the protein inhibitor of the cyclic adenosine monophosphate dependent protein kinase.

    abstract::The heat-stable, protein inhibitor of the cyclic adenosine monophosphate (cAMP) dependent protein kinase [Walsh, D. A., Ashby, C. D., Gonzalez, C., Calkins, D., Fischer, E., & Krebs, E (1971a) J. Biol. Chem. 246, 1977-1985] has been purified to homogeneity from rabbit skeletal muscle by preparative electrophoresis. Em...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00589a011

    authors: McPherson JM,Whitehouse S,Walsh DA

    更新日期:1979-10-30 00:00:00

  • Interpretation of monovalent and divalent cation effects on the lac repressor-operator interaction.

    abstract::We have investigated the effects of mixed Na+: Mg2+ ionic solutions on the stability of the nonspecific lac repressor-DNA complex. The effects of Mg2+ are simply interpreted in terms of its role as a competitor (with repressor) for DNA sites. From these studies, the binding constant of the Mg-DNA complex can be determ...

    journal_title:Biochemistry

    pub_type: 杂志文章

    doi:10.1021/bi00641a005

    authors: Record MT Jr,deHaseth PL,Lohman TM

    更新日期:1977-11-01 00:00:00