Abstract:
:Peptide-mediated interactions are gaining increased attention due to their predominant roles in the many regulatory processes that involve dynamic interactions between proteins. The structures of such interactions provide an excellent starting point for their characterization and manipulation, and can provide leads for targeted inhibitor design. The relatively few experimentally determined structures of peptide-protein complexes can be complemented with an outburst of modeling approaches that have been introduced in recent years, with increasing accuracy and applicability to ever more systems. We review different methods to address the considerable challenges in modeling the binding of a short yet highly flexible peptide to its partner. These methods apply an array of sampling strategies and draw from a recent amassing of knowledge about the biophysical nature of peptide-protein interactions. We elaborate on applications of these structure-based approaches and in particular on the characterization of peptide binding specificity to different peptide-binding domains and enzymes. Such applications can identify new biological targets and thus complement our current view of protein-protein interactions in living organisms. Accurate peptide-protein docking is of particular importance in the light of increased appreciation of the crucial functional roles of disordered regions and the many linear binding motifs embedded within.
journal_name
Curr Opin Struct Bioljournal_title
Current opinion in structural biologyauthors
London N,Raveh B,Schueler-Furman Odoi
10.1016/j.sbi.2013.07.006subject
Has Abstractpub_date
2013-12-01 00:00:00pages
894-902issue
6eissn
0959-440Xissn
1879-033Xpii
S0959-440X(13)00127-9journal_volume
23pub_type
杂志文章,评审abstract::The annotation of protein function at genomic scale is essential for day-to-day work in biology and for any systematic approach to the modeling of biological systems. Currently, functional annotation is essentially based on the expansion of the relatively small number of experimentally determined functions to large co...
journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
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abstract::Protein-protein interactions involving the catalytic domain of protein kinases are likely to be generally important in the regulation of signal transduction pathways, but are rather sparsely represented in crystal structures. Recently determined structures of the kinase domains of the mitogen-activated protein kinase ...
journal_title:Current opinion in structural biology
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journal_title:Current opinion in structural biology
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
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journal_title:Current opinion in structural biology
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
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journal_title:Current opinion in structural biology
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journal_title:Current opinion in structural biology
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2009.05.006
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2008.01.006
更新日期:2008-04-01 00:00:00
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2011.08.002
更新日期:2011-10-01 00:00:00
abstract::The surfaces of all microbes are 'sugar coated' with molecules such as lipopolysaccharides in Gram-negative bacteria, capsular polysaccharides in bacteria, lipoarabinomannans in mycobacteria and lipophosphoglycan in Leishmania. The basic structures of these glycoconjugates are known and, in the case of pathogens, they...
journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/s0959-440x(98)80146-2
更新日期:1998-10-01 00:00:00
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2019.07.008
更新日期:2019-12-01 00:00:00
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2013.11.006
更新日期:2014-04-01 00:00:00
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2007.06.001
更新日期:2007-06-01 00:00:00
abstract::The past year has witnessed a tremendous increase in our understanding of the structures and interactions of the GTPases. The highlights include crystal structures of G alpha subunits, as well as the first complex between a GTPase (Rap1A) and an effector molecule (c-Raf1 Ras-binding domain). In the field of elongation...
journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/0959-440x(95)80015-8
更新日期:1995-12-01 00:00:00
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2012.11.012
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2006.01.004
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abstract::Glycoproteins and protein-carbohydrate complexes in the worldwide Protein Data Bank (wwPDB) can be an excellent source of information for glycoscientists. Unfortunately, a rather large number of errors and inconsistencies is found in the glycan moieties of these 3D structures. This review illustrates frequent problems...
journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2016.10.010
更新日期:2017-06-01 00:00:00
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pub_type: 杂志文章,评审
doi:10.1016/s0959-440x(02)00289-0
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2012.03.006
更新日期:2012-08-01 00:00:00
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pub_type: 杂志文章,评审
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2004.04.005
更新日期:2004-06-01 00:00:00
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journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
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abstract::The utility of mass spectrometry for the analysis of proteins has grown enormously in the past decade. Significant advances in detection and ionization techniques are allowing questions about noncovalent assembly to be addressed by the direct observation of gas phase complexes, their assembly in real time and their di...
journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
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更新日期:2000-10-01 00:00:00
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journal_title:Current opinion in structural biology
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abstract::Over 5000 halogenated natural products have been reported so far, many of these arising from the marine environment. The introduction of a halogen into a molecule can significantly impact its bioavailability and bioactivity. More recently enzymatic halogenation has been used to enable late stage functionalisation thro...
journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2020.05.012
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abstract::RNA-dependent RNA polymerases (RdRps) of the segmented double-stranded (ds) RNA viruses of the Reoviridae family exhibit distinguishing structural elements, enabling the enzymes to function within the confines of a proteinaceous core particle. These globular, cage-like polymerases are traversed by four well-defined tu...
journal_title:Current opinion in structural biology
pub_type: 杂志文章,评审
doi:10.1016/j.sbi.2009.10.007
更新日期:2009-12-01 00:00:00