 Connection
Gregg Beckham to Molecular Dynamics Simulation
This is a "connection" page, showing publications Gregg Beckham has written about Molecular Dynamics Simulation.
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Connection Strength |
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3.256 |
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Knott BC, Crowley MF, Himmel ME, St?hlberg J, Beckham GT. Carbohydrate-protein interactions that drive processive polysaccharide translocation in enzymes revealed from a computational study of cellobiohydrolase processivity. J Am Chem Soc. 2014 Jun 18; 136(24):8810-9.
Score: 0.429
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Bu L, Crowley MF, Himmel ME, Beckham GT. Computational investigation of the pH dependence of loop flexibility and catalytic function in glycoside hydrolases. J Biol Chem. 2013 Apr 26; 288(17):12175-86.
Score: 0.394
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Sammond DW, Payne CM, Brunecky R, Himmel ME, Crowley MF, Beckham GT. Cellulase linkers are optimized based on domain type and function: insights from sequence analysis, biophysical measurements, and molecular simulation. PLoS One. 2012; 7(11):e48615.
Score: 0.384
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Payne CM, Bomble YJ, Taylor CB, McCabe C, Himmel ME, Crowley MF, Beckham GT. Multiple functions of aromatic-carbohydrate interactions in a processive cellulase examined with molecular simulation. J Biol Chem. 2011 Nov 25; 286(47):41028-35.
Score: 0.356
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Prates ET, Crowley MF, Skaf MS, Beckham GT. Catalytic Mechanism of Aryl-Ether Bond Cleavage in Lignin by LigF and LigG. J Phys Chem B. 2019 12 05; 123(48):10142-10151.
Score: 0.156
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Vermaas JV, Dixon RA, Chen F, Mansfield SD, Boerjan W, Ralph J, Crowley MF, Beckham GT. Passive membrane transport of lignin-related compounds. Proc Natl Acad Sci U S A. 2019 11 12; 116(46):23117-23123.
Score: 0.156
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Taylor LE, Knott BC, Baker JO, Alahuhta PM, Hobdey SE, Linger JG, Lunin VV, Amore A, Subramanian V, Podkaminer K, Xu Q, VanderWall TA, Schuster LA, Chaudhari YB, Adney WS, Crowley MF, Himmel ME, Decker SR, Beckham GT. Engineering enhanced cellobiohydrolase activity. Nat Commun. 2018 03 22; 9(1):1186.
Score: 0.139
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Vermaas JV, Beckham GT, Crowley MF. Membrane Permeability of Fatty Acyl Compounds Studied via Molecular Simulation. J Phys Chem B. 2017 12 21; 121(50):11311-11324.
Score: 0.136
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Mayes HB, Tian J, Nolte MW, Shanks BH, Beckham GT, Gnanakaran S, Broadbelt LJ. Sodium ion interactions with aqueous glucose: insights from quantum mechanics, molecular dynamics, and experiment. J Phys Chem B. 2014 Feb 27; 118(8):1990-2000.
Score: 0.104
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Payne CM, Resch MG, Chen L, Crowley MF, Himmel ME, Taylor LE, Sandgren M, St?hlberg J, Stals I, Tan Z, Beckham GT. Glycosylated linkers in multimodular lignocellulose-degrading enzymes dynamically bind to cellulose. Proc Natl Acad Sci U S A. 2013 Sep 03; 110(36):14646-51.
Score: 0.101
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Taylor CB, Payne CM, Himmel ME, Crowley MF, McCabe C, Beckham GT. Binding site dynamics and aromatic-carbohydrate interactions in processive and non-processive family 7 glycoside hydrolases. J Phys Chem B. 2013 May 02; 117(17):4924-33.
Score: 0.099
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Payne CM, Baban J, Horn SJ, Backe PH, Arvai AS, Dalhus B, Bj?r?s M, Eijsink VG, S?rlie M, Beckham GT, Vaaje-Kolstad G. Hallmarks of processivity in glycoside hydrolases from crystallographic and computational studies of the Serratia marcescens chitinases. J Biol Chem. 2012 Oct 19; 287(43):36322-30.
Score: 0.095
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Nimlos MR, Beckham GT, Matthews JF, Bu L, Himmel ME, Crowley MF. Binding preferences, surface attachment, diffusivity, and orientation of a family 1 carbohydrate-binding module on cellulose. J Biol Chem. 2012 Jun 08; 287(24):20603-12.
Score: 0.092
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Walsh MR, Rainey JD, Lafond PG, Park DH, Beckham GT, Jones MD, Lee KH, Koh CA, Sloan ED, Wu DT, Sum AK. The cages, dynamics, and structuring of incipient methane clathrate hydrates. Phys Chem Chem Phys. 2011 Nov 28; 13(44):19951-9.
Score: 0.089
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Beckham GT, Crowley MF. Examination of the a-chitin structure and decrystallization thermodynamics at the nanoscale. J Phys Chem B. 2011 Apr 21; 115(15):4516-22.
Score: 0.086
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Matthews JF, Bergenstr?hle M, Beckham GT, Himmel ME, Nimlos MR, Brady JW, Crowley MF. High-temperature behavior of cellulose I. J Phys Chem B. 2011 Mar 17; 115(10):2155-66.
Score: 0.085
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Gado JE, Harrison BE, Sandgren M, St?hlberg J, Beckham GT, Payne CM. Machine learning reveals sequence-function relationships in family 7 glycoside hydrolases. J Biol Chem. 2021 08; 297(2):100931.
Score: 0.044
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Bharadwaj VS, Knott BC, St?hlberg J, Beckham GT, Crowley MF. The hydrolysis mechanism of a GH45 cellulase and its potential relation to lytic transglycosylase and expansin function. J Biol Chem. 2020 04 03; 295(14):4477-4487.
Score: 0.040
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Vermaas JV, Kont R, Beckham GT, Crowley MF, Gudmundsson M, Sandgren M, St?hlberg J, V?ljam?e P, Knott BC. The dissociation mechanism of processive cellulases. Proc Natl Acad Sci U S A. 2019 11 12; 116(46):23061-23067.
Score: 0.039
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Zheng F, Vermaas JV, Zheng J, Wang Y, Tu T, Wang X, Xie X, Yao B, Beckham GT, Luo H. Activity and Thermostability of GH5 Endoglucanase Chimeras from Mesophilic and Thermophilic Parents. Appl Environ Microbiol. 2019 03 01; 85(5).
Score: 0.037
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Vermaas JV, Bentley GJ, Beckham GT, Crowley MF. Membrane Permeability of Terpenoids Explored with Molecular Simulation. J Phys Chem B. 2018 11 15; 122(45):10349-10361.
Score: 0.036
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Jana S, Hamre AG, Wildberger P, Holen MM, Eijsink VG, Beckham GT, S?rlie M, Payne CM. Aromatic-Mediated Carbohydrate Recognition in Processive Serratia marcescens Chitinases. J Phys Chem B. 2016 Feb 25; 120(7):1236-49.
Score: 0.030
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Vermaas JV, Crowley MF, Beckham GT, Payne CM. Effects of lytic polysaccharide monooxygenase oxidation on cellulose structure and binding of oxidized cellulose oligomers to cellulases. J Phys Chem B. 2015 May 21; 119(20):6129-43.
Score: 0.028
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Barnes BC, Knott BC, Beckham GT, Wu DT, Sum AK. Reaction coordinate of incipient methane clathrate hydrate nucleation. J Phys Chem B. 2014 Nov 20; 118(46):13236-43.
Score: 0.028
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Lin Y, Beckham GT, Himmel ME, Crowley MF, Chu JW. Endoglucanase peripheral loops facilitate complexation of glucan chains on cellulose via adaptive coupling to the emergent substrate structures. J Phys Chem B. 2013 Sep 19; 117(37):10750-8.
Score: 0.025
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Ghattyvenkatakrishna PK, Alekozai EM, Beckham GT, Schulz R, Crowley MF, Uberbacher EC, Cheng X. Initial recognition of a cellodextrin chain in the cellulose-binding tunnel may affect cellobiohydrolase directional specificity. Biophys J. 2013 Feb 19; 104(4):904-12.
Score: 0.025
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Lin Y, Silvestre-Ryan J, Himmel ME, Crowley MF, Beckham GT, Chu JW. Protein allostery at the solid-liquid interface: endoglucanase attachment to cellulose affects glucan clenching in the binding cleft. J Am Chem Soc. 2011 Oct 19; 133(41):16617-24.
Score: 0.022
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Connection Strength
The connection strength for concepts is the sum of the scores for each matching publication.
Publication scores are based on many factors, including how long ago they were written and whether the person is a first or senior author.
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