Zobrazeno 31 - 40
of 48
pro vyhledávání: '"Benjamin A, Shoemaker"'
Autor:
Stephen H. Bryant, Manoj Tyagi, Benjamin A. Shoemaker, Ratna R. Thangudu, Thomas Madej, Anna R. Panchenko
Publikováno v:
BMC Bioinformatics, Vol 11, Iss 1, p 365 (2010)
BMC Bioinformatics
BMC Bioinformatics
Background The study of protein-small molecule interactions is vital for understanding protein function and for practical applications in drug discovery. To benefit from the rapidly increasing structural data, it is essential to improve the tools tha
Autor:
Oxana V. Galzitskaya, Sergiy O. Garbuzynskiy, Anna R. Panchenko, Benjamin A. Shoemaker, Jessica H. Fong, Michail Yu. Lobanov
Publikováno v:
Nucleic Acids Research
Most of the proteins in a cell assemble into complexes to carry out their function. In this work, we have created a new database (named ComSin) of protein structures in bound (complex) and unbound (single) states to provide a researcher with exhausti
Publikováno v:
Journal of molecular biology. 395(4)
The evolution of protein interactions cannot be deciphered without a detailed analysis of interaction interfaces and binding modes. We performed a large-scale study of protein homooligomers in terms of their symmetry, interface sizes, and conservatio
Autor:
Sergiy O. Garbuzynskiy, Benjamin A. Shoemaker, Jessica H. Fong, Michail Yu. Lobanov, Anna R. Panchenko, Oxana V. Galzitskaya
Publikováno v:
PLoS Computational Biology, Vol 5, Iss 3, p e1000316 (2009)
PLoS Computational Biology
PLoS Computational Biology
We perform a large-scale study of intrinsically disordered regions in proteins and protein complexes using a non-redundant set of hundreds of different protein complexes. In accordance with the conventional view that folding and binding are coupled,
Publikováno v:
Journal of molecular biology. 385(1)
It has been observed that the evolutionary distances of interacting proteins often display a higher level of similarity than those of non-interacting proteins. This finding indicates that interacting proteins are subject to common evolutionary constr
Publikováno v:
Computational Biology ISBN: 9781848001244
Protein-protein Interactions and Networks
Protein-protein Interactions and Networks
In this chapter we review current approaches to store, retrieve and integrate diverse protein interaction data. To incorporate the heterogeneous results of computational predictions and protein interaction experiments, methods of data integration hav
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::e66d91271cc94cb98f00b162f8cb92f0
https://doi.org/10.1007/978-1-84800-125-1_2
https://doi.org/10.1007/978-1-84800-125-1_2
Publikováno v:
BMC Evolutionary Biology, Vol 7, Iss 1, p 19 (2007)
BMC Evolutionary Biology
BMC Evolutionary Biology
Background In this paper we describe an analysis of the size evolution of both protein domains and their indels, as inferred by changing sizes of whole domains or individual unaligned regions or "spacers". We studied relatively early evolutionary eve
Publikováno v:
Expert review of proteomics. 2(5)
Histone proteins play essential structural and functional roles in the transition between active and inactive chromatin states. Although histones have a high degree of conservation due to constraints to maintain the overall structure of the nucleosom
Autor:
John B. Anderson, Paul A. Thiessen, David I. Hurwitz, Raja Mazumder, Natalie D. Fedorova, Jodie J. Yin, Gabriele H. Marchler, Lewis Y. Geer, Aron Marchler-Bauer, Stephen H. Bryant, John D. Jackson, Aviva R. Jacobs, James S. Song, Sona Vasudevan, Benjamin A. Shoemaker, Siqian He, Bachoti S. Rao, Anna R. Panchenko, Anastasia N. Nikolskaya, Thomas Madej, Chunlei Liu, Roxanne A. Yamashita, Cynthia A. Liebert, Vahan Simonyan, Yanli Wang, Christopher J. Lanczycki, Carol DeWeese-Scott
Publikováno v:
Nucleic acids research. 31(1)
The Conserved Domain Database (CDD) is now indexed as a separate database within the Entrez system and linked to other Entrez databases such as MEDLINE(R). This allows users to search for domain types by name, for example, or to view the domain archi
Autor:
Jie, Chen, John B, Anderson, Carol, DeWeese-Scott, Natalie D, Fedorova, Lewis Y, Geer, Siqian, He, David I, Hurwitz, John D, Jackson, Aviva R, Jacobs, Christopher J, Lanczycki, Cynthia A, Liebert, Chunlei, Liu, Thomas, Madej, Aron, Marchler-Bauer, Gabriele H, Marchler, Raja, Mazumder, Anastasia N, Nikolskaya, Bachoti S, Rao, Anna R, Panchenko, Benjamin A, Shoemaker, Vahan, Simonyan, James S, Song, Paul A, Thiessen, Sona, Vasudevan, Yanli, Wang, Roxanne A, Yamashita, Jodie J, Yin, Stephen H, Bryant
Publikováno v:
Nucleic acids research. 31(1)
Three-dimensional structures are now known within most protein families and it is likely, when searching a sequence database, that one will identify a homolog of known structure. The goal of Entrez's 3D-structure database is to make structure informa