Exhaustive Enumeration of Protein Domain Families

Exhaustive enumeration of protein domain families - PubMed

Domains are considered as the basic units of protein folding, evolution, and function. Decomposing each protein into modular domains is thus a basic ...

Exhaustive Enumeration of Protein Domain Families - ScienceDirect

A representative database of 249,264 protein sequences were decomposed into 450,462 domains. These domains were clustered on the basis of sequence similarities ...

Exhaustive Enumeration of Protein Domain Families - ScienceDirect

Here, we present ADDA, an automatic algorithm for domain decomposition and clustering of all protein domain families.

Exhaustive enumeration of protein domain families. - Abstract

We use alignments derived from an all-on-all sequence comparison to define domains within protein sequences based on a global maximum likelihood model. In all, ...

Exhaustive Enumeration of Protein Domain Families | Request PDF

Request PDF | Exhaustive Enumeration of Protein Domain Families | Domains are considered as the basic units of protein folding, evolution, and function.

Exhaustive enumeration of protein domain families. | Semantic Scholar

Semantic Scholar extracted view of "Exhaustive enumeration of protein domain families." by A. Heger et al.

The Pfam protein families database - PMC - PubMed Central

Second, we discuss some of the features of domains of unknown function (also known as DUFs), which constitute a rapidly growing class of ...

Exhaustive enumeration of protein conformations using ...

Pairwise RMS deviations of atomic position comparisons between pairs of these 1, 000 structures revealed that these conformations can be grouped into about 25 ...

Pfam 10 years on: 10 000 families and still growing - Oxford Academic

Pfam is a large collection of protein domains and families. Its scientific goal is to provide a complete and accurate classification of protein families and ...

Density Peak clustering of protein sequences associated to a Pfam ...

We introduce a procedure that aims to identify automatically putative protein families. The procedure is based on Density Peak Clustering.

CroMaSt: a workflow for assessing protein domain classification by ...

... domain definition and enumeration of true domain instances. Results ... lated domain families in order to get the most exhaustive results.

Protein domain identification methods and online resources

Here, we focus on the classification of protein domains. Consistent with the methods to identify domains, there are also two kinds of domain databases, namely ...

CroMaSt: a workflow for assessing protein domain classification by ...

Most proteins are composed of one or more domains that can be identified at the sequence or structural level. A protein domain is defined by ...

Exhaustive enumeration of protein domain families — Helsingin ...

Exhaustive enumeration of protein domain families ; Journal of Molecular Biology · 328 · 749-767 · 19 · 0022-2836.

Exhaustive enumeration of protein conformations using ...

Pairwise RMS deviations of atomic position comparisons between pairs of these 1,000 structures revealed that these conformations can be grouped into about 25 ...

DPCfam: a new method for unsupervised protein family classification

Others aim to classify the protein sequence space more widely (Pfam, PANTHER). Most databases try to identify domains (evolutionary, structural ...

The Ferredoxins family (cluster 47 at level 10 ?0 ). Each circle ...

... protein repertoire on the organismal scale. View · Exhaustive Enumeration of Protein Domain Families. Article. Jun 2003; J MOL BIOL. Andreas Heger ...

[PDF] ADDA: a domain database with global coverage of the protein ...

A database of protein domain families with complete coverage of all protein sequences and 3828 novel domain families that do not overlap with the curated ...

EVEREST: automatic identification and classification of protein ...

Proteins are comprised of one or several building blocks, known as domains. Such domains can be classified into families according to their ...

DPCfam: a new method for unsupervised protein family classification

The Pfam protein families database in 2019, NAR, № 47, с. D427; Exhaustive enumeration of protein domain families, JMB, № 328, с. 749 https://doi.org ...