Assessment of protein side-chain conformation prediction methods in different residue environments

Lenna X. Peterson; Xuejiao Kang; Daisuke Kihara

doi:10.1002/prot.24552

Assessment of protein side-chain conformation prediction methods in different residue environments

Proteins Structure Function and Bioinformatics ◽

10.1002/prot.24552 ◽

2014 ◽

Vol 82 (9) ◽

pp. 1971-1984 ◽

Cited By ~ 19

Author(s):

Lenna X. Peterson ◽

Xuejiao Kang ◽

Daisuke Kihara

Keyword(s):

Chain Conformation ◽

Side Chain ◽

Prediction Methods ◽

Side Chain Conformation

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Side Chain Conformation Restriction in the Catalysis of Glycosidic Bond Formation by Leloir Glycosyltransferases, Glycoside Phosphorylases, and Transglycosidases

ACS Catalysis ◽

10.1021/acscatal.1c00896 ◽

2021 ◽

pp. 5069-5078

Author(s):

Jonathan C. K. Quirke ◽

David Crich

Keyword(s):

Bond Formation ◽

Chain Conformation ◽

Glycosidic Bond ◽

Side Chain ◽

Side Chain Conformation

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Side-chain conformation and 13C-NMR chemical shift of poly(l-phenylalanine) and oligopeptides containing l-phenylalanine and tyrosine residues in the solid state

Journal of Molecular Structure ◽

10.1016/0022-2860(90)80115-z ◽

1990 ◽

Vol 220 ◽

pp. 251-260 ◽

Cited By ~ 10

Author(s):

Hidetoshi Miyamoto ◽

Tadashi Komoto ◽

Hiromichi Kurosu ◽

Isao Ando ◽

Takuo Ozaki ◽

...

Keyword(s):

Solid State ◽

Chemical Shift ◽

13C Nmr ◽

Chain Conformation ◽

Side Chain ◽

Nmr Chemical Shift ◽

Tyrosine Residues ◽

Side Chain Conformation

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Side-chain conformation at the selectivity filter shapes the permeation free-energy landscape of an ion channel

Proceedings of the National Academy of Sciences ◽

10.1073/pnas.1408950111 ◽

2014 ◽

Vol 111 (31) ◽

pp. E3196-E3205 ◽

Cited By ~ 10

Author(s):

T. J. Harpole ◽

C. Grosman

Keyword(s):

Free Energy ◽

Ion Channel ◽

Energy Landscape ◽

Chain Conformation ◽

Selectivity Filter ◽

Side Chain ◽

Free Energy Landscape ◽

Side Chain Conformation

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Incremental prediction of the side-chain conformation of proteins by a genetic algorithm

Proceedings of the First IEEE Conference on Evolutionary Computation. IEEE World Congress on Computational Intelligence ◽

10.1109/icec.1994.349924 ◽

2002 ◽

Cited By ~ 3

Author(s):

H. Iijima ◽

Y. Naito

Keyword(s):

Genetic Algorithm ◽

Chain Conformation ◽

Side Chain ◽

Side Chain Conformation

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Side Chain Conformation and Its Influence on Glycosylation Selectivity in Hexo- and Higher Carbon Furanosides

The Journal of Organic Chemistry ◽

10.1021/acs.joc.1c02374 ◽

2021 ◽

Author(s):

Sameera Siyabalapitiya Arachchige ◽

David Crich

Keyword(s):

Chain Conformation ◽

Side Chain ◽

Side Chain Conformation

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An unprecedented side chain conformation of paclitaxel (Taxol®): Crystal structure of 7-Mesylpaclitaxel

Tetrahedron Letters ◽

10.1016/0040-4039(96)00585-0 ◽

1996 ◽

Vol 37 (20) ◽

pp. 3425-3428 ◽

Cited By ~ 12

Author(s):

Qi Gao ◽

Shu-Hui Chen

Keyword(s):

Crystal Structure ◽

Chain Conformation ◽

Side Chain ◽

Side Chain Conformation

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Glycoside Hydrolases Restrict the Side Chain Conformation of Their Substrates To Gain Additional Transition State Stabilization

Journal of the American Chemical Society ◽

10.1021/jacs.0c05592 ◽

2020 ◽

Vol 142 (40) ◽

pp. 16965-16973 ◽

Cited By ~ 1

Author(s):

Jonathan C. K. Quirke ◽

David Crich

Keyword(s):

Transition State ◽

Chain Conformation ◽

Glycoside Hydrolases ◽

Side Chain ◽

Side Chain Conformation ◽

Transition State Stabilization

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Stereospecific synthesis of methyl 2-amino-2,4-dideoxy-6S-deuterio-α-D-xylo-hexopyranoside and methyl 2-amino-2,4-dideoxy-6S-deuterio-4-propyl-α-d-glucopyranoside: Side chain conformation of the novel aminoglycoside antibiotic propylamycin

Carbohydrate Research ◽

10.1016/j.carres.2020.107984 ◽

2020 ◽

Vol 491 ◽

pp. 107984

Author(s):

Michael G. Pirrone ◽

Takahiko Matsushita ◽

Andrea Vasella ◽

David Crich

Keyword(s):

Aminoglycoside Antibiotic ◽

Chain Conformation ◽

Stereospecific Synthesis ◽

Side Chain ◽

The Novel ◽

Side Chain Conformation

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Heterogeneous side chain conformation highlights a network of interactions implicated in hysteresis of the knotted protein, minimal tied trefoil

Journal of Physics Condensed Matter ◽

10.1088/0953-8984/27/35/354108 ◽

2015 ◽

Vol 27 (35) ◽

pp. 354108 ◽

Cited By ~ 6

Author(s):

David J Burban ◽

Ellinor Haglund ◽

Dominique T Capraro ◽

Patricia A Jennings

Keyword(s):

Chain Conformation ◽

Side Chain ◽

Side Chain Conformation ◽

Knotted Protein

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SCit: web tools for protein side chain conformation analysis

Nucleic Acids Research ◽

10.1093/nar/gkh388 ◽

2004 ◽

Vol 32 (Web Server) ◽

pp. W508-W511 ◽

Cited By ~ 19

Author(s):

R. Gautier ◽

A.-C. Camproux ◽

P. Tuffery

Keyword(s):

Chain Conformation ◽

Side Chain ◽

Conformation Analysis ◽

Side Chain Conformation ◽

Web Tools

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