Literature DB >> 23784776

Increased enzyme binding to substrate is not necessary for more efficient cellulose hydrolysis.

Dahai Gao1, Shishir P S Chundawat, Anurag Sethi, Venkatesh Balan, S Gnanakaran, Bruce E Dale.   

Abstract

Substrate binding is typically one of the rate-limiting steps preceding enzyme catalytic action during homogeneous reactions. However, interfacial-based enzyme catalysis on insoluble crystalline substrates, like cellulose, has additional bottlenecks of individual biopolymer chain decrystallization from the substrate interface followed by its processive depolymerization to soluble sugars. This additional decrystallization step has ramifications on the role of enzyme-substrate binding and its relationship to overall catalytic efficiency. We found that altering the crystalline structure of cellulose from its native allomorph I(β) to III(I) results in 40-50% lower binding partition coefficient for fungal cellulases, but surprisingly, it enhanced hydrolytic activity on the latter allomorph. We developed a comprehensive kinetic model for processive cellulases acting on insoluble substrates to explain this anomalous finding. Our model predicts that a reduction in the effective binding affinity to the substrate coupled with an increase in the decrystallization procession rate of individual cellulose chains from the substrate surface into the enzyme active site can reproduce our anomalous experimental findings.

Entities:  

Keywords:  biofuels; glycosidases; kinetic modeling; lignocellulose; polysaccharide hydrolysis

Mesh:

Substances:

Year:  2013        PMID: 23784776      PMCID: PMC3703979          DOI: 10.1073/pnas.1213426110

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  31 in total

1.  Carbohydrate-binding modules recognize fine substructures of cellulose.

Authors:  Bradley W McLean; Alisdair B Boraston; Darren Brouwer; Nooshafarin Sanaie; Colin A Fyfe; R Antony J Warren; Douglas G Kilburn; Charles A Haynes
Journal:  J Biol Chem       Date:  2002-08-20       Impact factor: 5.157

2.  Mechanism of initial rapid rate retardation in cellobiohydrolase catalyzed cellulose hydrolysis.

Authors:  Jürgen Jalak; Priit Väljamäe
Journal:  Biotechnol Bioeng       Date:  2010-08-15       Impact factor: 4.530

3.  Mixture optimization of six core glycosyl hydrolases for maximizing saccharification of ammonia fiber expansion (AFEX) pretreated corn stover.

Authors:  Dahai Gao; Shishir P S Chundawat; Chandraraj Krishnan; Venkatesh Balan; Bruce E Dale
Journal:  Bioresour Technol       Date:  2009-11-30       Impact factor: 9.642

4.  Traffic jams reduce hydrolytic efficiency of cellulase on cellulose surface.

Authors:  Kiyohiko Igarashi; Takayuki Uchihashi; Anu Koivula; Masahisa Wada; Satoshi Kimura; Tetsuaki Okamoto; Merja Penttilä; Toshio Ando; Masahiro Samejima
Journal:  Science       Date:  2011-09-02       Impact factor: 47.728

5.  Multifaceted characterization of cell wall decomposition products formed during ammonia fiber expansion (AFEX) and dilute acid based pretreatments.

Authors:  Shishir P S Chundawat; Ramin Vismeh; Lekh N Sharma; James F Humpula; Leonardo da Costa Sousa; C Kevin Chambliss; A Daniel Jones; Venkatesh Balan; Bruce E Dale
Journal:  Bioresour Technol       Date:  2010-07-02       Impact factor: 9.642

Review 6.  Deconstruction of lignocellulosic biomass to fuels and chemicals.

Authors:  Shishir P S Chundawat; Gregg T Beckham; Michael E Himmel; Bruce E Dale
Journal:  Annu Rev Chem Biomol Eng       Date:  2011       Impact factor: 11.059

7.  Molecular-level origins of biomass recalcitrance: decrystallization free energies for four common cellulose polymorphs.

Authors:  Gregg T Beckham; James F Matthews; Baron Peters; Yannick J Bomble; Michael E Himmel; Michael F Crowley
Journal:  J Phys Chem B       Date:  2011-03-22       Impact factor: 2.991

8.  Cellulose-binding domains promote hydrolysis of different sites on crystalline cellulose.

Authors:  G Carrard; A Koivula; H Söderlund; P Béguin
Journal:  Proc Natl Acad Sci U S A       Date:  2000-09-12       Impact factor: 11.205

9.  Hypocrea jecorina CEL6A protein engineering.

Authors:  Suzanne E Lantz; Frits Goedegebuur; Ronald Hommes; Thijs Kaper; Bradley R Kelemen; Colin Mitchinson; Louise Wallace; Jerry Ståhlberg; Edmundo A Larenas
Journal:  Biotechnol Biofuels       Date:  2010-09-08       Impact factor: 6.040

10.  Dissecting and reconstructing synergism: in situ visualization of cooperativity among cellulases.

Authors:  Thomas Ganner; Patricia Bubner; Manuel Eibinger; Claudia Mayrhofer; Harald Plank; Bernd Nidetzky
Journal:  J Biol Chem       Date:  2012-11-01       Impact factor: 5.157

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  23 in total

1.  Influence of surface charge, binding site residues and glycosylation on Thielavia terrestris cutinase biochemical characteristics.

Authors:  Abhijit N Shirke; Danielle Basore; Samantha Holton; An Su; Evan Baugh; Glenn L Butterfoss; George Makhatadze; Christopher Bystroff; Richard A Gross
Journal:  Appl Microbiol Biotechnol       Date:  2016-01-13       Impact factor: 4.813

2.  Single-molecule imaging analysis of elementary reaction steps of Trichoderma reesei cellobiohydrolase I (Cel7A) hydrolyzing crystalline cellulose Iα and IIII.

Authors:  Yusuke Shibafuji; Akihiko Nakamura; Takayuki Uchihashi; Naohisa Sugimoto; Shingo Fukuda; Hiroki Watanabe; Masahiro Samejima; Toshio Ando; Hiroyuki Noji; Anu Koivula; Kiyohiko Igarashi; Ryota Iino
Journal:  J Biol Chem       Date:  2014-04-01       Impact factor: 5.157

3.  A structural and kinetic survey of GH5_4 endoglucanases reveals determinants of broad substrate specificity and opportunities for biomass hydrolysis.

Authors:  Evan M Glasgow; Elias I Kemna; Craig A Bingman; Nicole L Ing; Kai Deng; Christopher M Bianchetti; Taichi E Takasuka; Trent R Northen; Brian G Fox
Journal:  J Biol Chem       Date:  2020-10-16       Impact factor: 5.157

4.  Multifunctional cellulase catalysis targeted by fusion to different carbohydrate-binding modules.

Authors:  Johnnie A Walker; Taichi E Takasuka; Kai Deng; Christopher M Bianchetti; Hannah S Udell; Ben M Prom; Hyunkee Kim; Paul D Adams; Trent R Northen; Brian G Fox
Journal:  Biotechnol Biofuels       Date:  2015-12-21       Impact factor: 6.040

5.  Engineering nonphosphorylative metabolism to generate lignocellulose-derived products.

Authors:  Yi-Shu Tai; Mingyong Xiong; Pooja Jambunathan; Jingyu Wang; Jilong Wang; Cole Stapleton; Kechun Zhang
Journal:  Nat Chem Biol       Date:  2016-02-08       Impact factor: 15.040

6.  Probing substrate interactions in the active tunnel of a catalytically deficient cellobiohydrolase (Cel7).

Authors:  Francieli Colussi; Trine H Sørensen; Kadri Alasepp; Jeppe Kari; Nicolaj Cruys-Bagger; Michael S Windahl; Johan P Olsen; Kim Borch; Peter Westh
Journal:  J Biol Chem       Date:  2014-12-04       Impact factor: 5.157

7.  The predominant molecular state of bound enzyme determines the strength and type of product inhibition in the hydrolysis of recalcitrant polysaccharides by processive enzymes.

Authors:  Silja Kuusk; Morten Sørlie; Priit Väljamäe
Journal:  J Biol Chem       Date:  2015-03-12       Impact factor: 5.157

8.  Specificity of O-glycosylation in enhancing the stability and cellulose binding affinity of Family 1 carbohydrate-binding modules.

Authors:  Liqun Chen; Matthew R Drake; Michael G Resch; Eric R Greene; Michael E Himmel; Patrick K Chaffey; Gregg T Beckham; Zhongping Tan
Journal:  Proc Natl Acad Sci U S A       Date:  2014-05-12       Impact factor: 11.205

9.  Synergism of glycoside hydrolase secretomes from two thermophilic bacteria cocultivated on lignocellulose.

Authors:  Kundi Zhang; Xiaohua Chen; Wolfgang H Schwarz; Fuli Li
Journal:  Appl Environ Microbiol       Date:  2014-02-14       Impact factor: 4.792

10.  A structural and kinetic survey of GH5_4 endoglucanases reveals determinants of broad substrate specificity and opportunities for biomass hydrolysis.

Authors:  Evan M Glasgow; Elias I Kemna; Craig A Bingman; Nicole Ing; Kai Deng; Christopher M Bianchetti; Taichi E Takasuka; Trent R Northen; Brian G Fox
Journal:  J Biol Chem       Date:  2020-12-18       Impact factor: 5.157

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