Functional diversity within protein superfamilies
نویسندگان
چکیده
Structural genomics projects are leading to the discovery of relationships between proteins that would not have been anticipated from consideration of sequence alone. However the assignment of function via structure remains difficult as some structures are compatible with a variety of functions. In this study we explore the relationships between structural diversity and functional diversity within distantly related members of SCOP superfamilies. We use the Gene Ontology functional classification scheme and Greens path entropy to measure functional diversity. We observe a negative correlation between the functional entropy of a superfamily and the size of the conserved core.
منابع مشابه
Functional site plasticity in domain superfamilies☆
We present, to our knowledge, the first quantitative analysis of functional site diversity in homologous domain superfamilies. Different types of functional sites are considered separately. Our results show that most diverse superfamilies are very plastic in terms of the spatial location of their functional sites. This is especially true for protein-protein interfaces. In contrast, we confirm t...
متن کاملEvolution of function in protein superfamilies, from a structural perspective.
The recent growth in protein databases has revealed the functional diversity of many protein superfamilies. We have assessed the functional variation of homologous enzyme superfamilies containing two or more enzymes, as defined by the CATH protein structure classification, by way of the Enzyme Commission (EC) scheme. Combining sequence and structure information to identify relatives, the majori...
متن کاملThe evolution of protein functions and networks: a family-centric approach.
The study of superfamilies of protein domains using a combination of structure, sequence and function data provides insights into deep evolutionary history. In the present paper, analyses of functional diversity within such superfamilies as defined in the CATH-Gene3D resource are described. These analyses focus on structure-function relationships in very large and diverse superfamilies, and on ...
متن کاملDiversity in protein domain superfamilies
Whilst ∼93% of domain superfamilies appear to be relatively structurally and functionally conserved based on the available data from the CATH-Gene3D domain classification resource, the remainder are much more diverse. In this review, we consider how domains in some of the most ubiquitous and promiscuous superfamilies have evolved, in particular the plasticity in their functional sites and surfa...
متن کاملExtending CATH: increasing coverage of the protein structure universe and linking structure with function
CATH version 3.3 (class, architecture, topology, homology) contains 128,688 domains, 2386 homologous superfamilies and 1233 fold groups, and reflects a major focus on classifying structural genomics (SG) structures and transmembrane proteins, both of which are likely to add structural novelty to the database and therefore increase the coverage of protein fold space within CATH. For CATH version...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید
ثبت ناماگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید
ورودعنوان ژورنال:
- J. Integrative Bioinformatics
دوره 3 شماره
صفحات -
تاریخ انتشار 2006