Results 51 to 60 of about 418,398 (323)

Recoverable One-dimensional Encoding of Three-dimensional Protein Structures

, 2005
Protein one-dimensional (1D) structures such as secondary structure and contact number provide intuitive pictures to understand how the native three-dimensional (3D) structure of a protein is encoded in the amino acid sequence.
A. R. Kinjo, Berman, Havel, K. Nishikawa, Kabsch, Kinjo, Nakai, Plaxco, Porto, Vendruscolo, Wang   +10 more
core   +2 more sources

Evaluation of in silico protein secondary structure prediction methods by employing statistical techniques

Biomedical and Biotechnology Research Journal, 2017
Background: With the advent of many new advanced techniques, sequences of a number of proteins have been made available. But the relative paucity of the experimentally determined three-dimensional structures of these proteins has paved way for the ...
Kandavelmani Angamuthu, Shanmughavel Piramanayagam   +1 more
doaj   +1 more source

Empirical study of deep neural network architectures for protein secondary structure prediction [PDF]

Protein secondary structure prediction is a sub-problem of protein structure prediction. Instead of fully recovering the whole three dimensional structure from amino acid sequence, protein secondary structure prediction only aimed at predicting the local
Du, Ming
core   +1 more source

Prediction of protein-protein interaction types using association rule based classification [PDF]

, 2009
This article has been made available through the Brunel Open Access Publishing Fund - Copyright @ 2009 Park et alBackground: Protein-protein interactions (PPI) can be classified according to their characteristics into, for example obligate or transient ...
Gilbert, D, Kim, JW, Kim, S, Park, SH, Reyes, JA   +4 more
core   +3 more sources

Aligning Protein Sequences with Predicted Secondary Structure [PDF]

Journal of Computational Biology, 2010
Accurately aligning distant protein sequences is notoriously difficult. Since the amino acid sequence alone often does not provide enough information to obtain accurate alignments under the standard alignment scoring functions, a recent approach to improving alignment accuracy is to use additional information such as secondary structure.
John, Kececioglu, Eagu, Kim, Travis, Wheeler   +2 more
openaire   +2 more sources

Improving prediction of secondary structure, local backbone angles, and solvent accessible surface area of proteins by iterative deep learning [PDF]

, 2015
Direct prediction of protein structure from sequence is a challenging problem. An effective approach is to break it up into independent sub-problems. These sub-problems such as prediction of protein secondary structure can then be solved independently ...
Dehzangi, A., Heffernan, R., Lyons, J., Paliwal, K.K., Sattar, A., Sharma, Alokanand, Wang, J., Yang, Y., Zhou, Y.   +8 more
core   +1 more source

Protein secondary structure: category assignment and predictability [PDF]

FEBS Letters, 2001
In the last decade, the prediction of protein secondary structure has been optimized using essentially one and the same assignment scheme known as DSSP. We present here a different scheme, which is more predictable. This scheme predicts directly the hydrogen bonds, which stabilize the secondary structures.
Andersen, Claus A, Bohr, Henrik, Brunak, Søren   +2 more
openaire   +2 more sources

The Caenorhabditis elegans DPF‐3 and human DPP4 have tripeptidyl peptidase activity

FEBS Letters, EarlyView.
The dipeptidyl peptidase IV (DPPIV) family comprises serine proteases classically defined by their ability to remove dipeptides from the N‐termini of substrates, a feature that gave the family its name. Here, we report the discovery of a previously unrecognized tripeptidyl peptidase activity in DPPIV family members from two different species.
Aditya Trivedi, Rajani Kanth Gudipati
wiley   +1 more source

Predicting Secondary Structures, Contact Numbers, and Residue-wise Contact Orders of Native Protein Structure from Amino Acid Sequence by Critical Random Networks

, 2005
Prediction of one-dimensional protein structures such as secondary structures and contact numbers is useful for the three-dimensional structure prediction and important for the understanding of sequence-structure relationship.
Altschul, S. F., Madden, T. L., Sch, Baldi, P., Brunak, S., Frasconi, P., CHANDONIA J-M, Crooks, G. E. &, Kinjo, A. R. &, Kinjo, A. R. &, Kinjo, A. R., Horimoto, K. &, Lee, B. &, Li, W., Jaroszewski, L. &, Nishikawa, K. &, Pollastri, G., Baldi, P., Fariselli, Rost, B., TATENO Y   +12 more
core   +1 more source

Monte Carlo study of cooperativity in homopolypeptides [PDF]

, 1992
©1992 American Institute of PhysicsThe electronic version of this article is the complete one and can be found online at: http://link.aip.org/link/?JCPSA6/97/9412/1DOI:10.1063/1.463317A discretized model of globular proteins is employed in a Monte Carlo ...
Kolinski, Andrzej, Skolnick, Jeffrey
core   +1 more source