Pfam: the protein families database

RD Finn, A Bateman, J Clements, P Coggill… - Nucleic acids …, 2014 - academic.oup.com
Pfam, available via servers in the UK (http://pfam. sanger. ac. uk/) and the USA (http://pfam.
janelia. org/), is a widely used database of protein families, containing 14 831 manually …

Evolutionary and comparative analysis of MYB and bHLH plant transcription factors

A Feller, K Machemer, EL Braun… - The plant journal, 2011 - Wiley Online Library
The expansion of gene families encoding regulatory proteins is typically associated with the
increase in complexity characteristic of multi‐cellular organisms. The MYB and basic helix …

Logomaker: beautiful sequence logos in Python

A Tareen, JB Kinney - Bioinformatics, 2020 - academic.oup.com
Sequence logos are visually compelling ways of illustrating the biological properties of DNA,
RNA and protein sequences, yet it is currently difficult to generate and customize such logos …

The Pfam protein families database

RD Finn, J Mistry, J Tate, P Coggill, A Heger… - Nucleic acids …, 2010 - academic.oup.com
Pfam is a widely used database of protein families and domains. This article describes a set
of major updates that we have implemented in the latest release (version 24.0). The most …

Cellular function and molecular structure of ecto-nucleotidases

H Zimmermann, M Zebisch, N Sträter - Purinergic signalling, 2012 - Springer
Ecto-nucleotidases play a pivotal role in purinergic signal transmission. They hydrolyze
extracellular nucleotides and thus can control their availability at purinergic P2 receptors …

Structure and function of WD40 domain proteins

C Xu, J Min - Protein & cell, 2011 - Springer
The WD40 domain exhibits a β-propeller architecture, often comprising seven blades. The
WD40 domain is one of the most abundant domains and also among the top interacting …

Pfam: clans, web tools and services

RD Finn, J Mistry, B Schuster-Böckler… - Nucleic acids …, 2006 - academic.oup.com
Pfam is a database of protein families that currently contains 7973 entries (release 18.0). A
recent development in Pfam has enabled the grou** of related families into clans. Pfam …

Skylign: a tool for creating informative, interactive logos representing sequence alignments and profile hidden Markov models

TJ Wheeler, J Clements, RD Finn - BMC bioinformatics, 2014 - Springer
Background Logos are commonly used in molecular biology to provide a compact graphical
representation of the conservation pattern of a set of sequences. They render the information …

WD40 proteins propel cellular networks

CU Stirnimann, E Petsalaki, RB Russell… - Trends in biochemical …, 2010 - cell.com
Recent findings indicate that WD40 domains play central roles in biological processes by
acting as hubs in cellular networks; however, they have been studied less intensely than …

Origin and diversification of basic-helix-loop-helix proteins in plants

N Pires, L Dolan - Molecular biology and evolution, 2010 - academic.oup.com
Basic helix-loop-helix (bHLH) proteins are a class of transcription factors found throughout
eukaryotic organisms. Classification of the complete sets of bHLH proteins in the sequenced …