Results 251 to 260 of about 319,877 (305)

Protein Tertiary Structure Prediction

Current Protocols in Protein Science, 2000
AbstractThis unit addresses how to predict the tertiary structure of a protein from its amino acid sequence using computational methods. Three types of prediction methods‐‐homology modeling, fold recognition, and ab initio prediction‐‐are introduced.
D, Xu, Y, Xu
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Protein Tertiary Structure Modeling

Current Protocols in Protein Science, 2001
AbstractInsights into the 3D‐structure of a protein have proven useful during experiment design. Experimentally elucidated structures are often not available, but comparative protein modeling provides a viable alternative in many cases. This unit presents comparative protein modeling and how to use the highly sophisticated but easy‐to‐use free software
Guex, N., Schwede, T., Peitsch, M. C.
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Calculation of protein tertiary structure

Journal of Molecular Biology, 1976
Abstract We describe a method for calculating the tertiary structure of proteins given their amino acid sequence. The algorithm involves locally minimizing an energylike expression as a function of the Cartesian co-ordinates of the C β of all residues.
I D, Kuntz, G M, Crippen, P A, Kollman, D, Kimelman   +3 more
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Probing Protein Tertiary Structure with Amidination

Analytical Chemistry, 2005
A chemical derivatization method, amidination, that has recently been effectively employed in peptide mass spectrometry experiments is used to covalently modify lysines in several standard proteins. Protein and peptide mass spectra identify sites at which the reaction does or does not occur.
Dariusz J, Janecki, Richard L, Beardsley, James P, Reilly   +2 more
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Unfolding of tertiary structures of proteins

International Journal of Peptide and Protein Research, 1984
The unfolding pathway of lysozyme was investigated by carrying out the computer simulation. Taking into account the simultaneous change of both the dihedral angles ø and of a residue, we explore the detailed features of the conformational energy profiles. The triangle distance map shows that the lysozyme molecule is divided into three domains, 1–40, 41–
H, Wakana, H, Yokomizo, H, Wako, Y, Isogai, K, Kosuge, N, Saito   +5 more
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Recognition of coarse‐grained protein tertiary structure

Proteins: Structure, Function, and Bioinformatics, 2004
AbstractA model of the protein backbone is considered in which each residue is characterized by the location of its Cα atom and one of a discrete set of conformal (ϕ, ψ) states. We investigate the key differences between a description that offers a locally precise fit to known backbone structures and one that provides a globally accurate fit to protein
LEZON T, BANAVAR J, MARITAN, AMOS
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Computing tertiary structures of proteins

Journal of Protein Chemistry, 1990
Using only data on sequence, a method of computing a low-resolution tertiary structure of a protein is described. The steps are: (a) Estimate the distances of individual residues from the centroid of the molecule, using data on hydrophobicity and additional geometrical constraints. (b) Using these distances, construct a two-valued matrix whose elements,
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Phylogenetics: Tertiary protein structures needed

Nature Ecology & Evolution, 2017
We need to estimate protein tertiary structure, as well as using primary sequences, in order to further our understanding of protein evolution and evolutionary processes in general.
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