Protein domain An evolutionary-conserved protein region with independent, well-defined 3D structure and function. Many proteins contain multiple domains. Protein motif A short, conserved segment of amino acids in a protein associated with some function such as binding properties. Self-supervised learning...
TRIM proteinsare defined by the presence of an N-terminal RBCC tripartite motif (Fig. 1b), yet members of the family exist which lack one or more of these RBCC domains. Nevertheless, these “TRIM-like” proteins generally share their C-terminal domain layout with other members of their resp...
We have established this repository to provide a specialized and focused platform for the field of Deep Learning for Protein Design, a rapidly advancing domain in computational biology. Contributions and suggestions are warmly welcome! Community Values, Guiding Principles, and Commitments for the ...
SUMOylation regulates nuclear accumulation and signaling activity of the soluble intracellular domain of the ErbB4 receptor tyrosine kinase. J Biol Chem. 2017;292:19890–904. Article CAS PubMed PubMed Central Google Scholar Pirola L, Zerzaihi O, Vidal H, Solari F. Protein acetylation ...
Predicting protein–DNA binding specificity is a challenging yet essential task for understanding gene regulation. Protein–DNA complexes usually exhibit binding to a selected DNA target site, whereas a protein binds, with varying degrees of binding spec
The NCBI Conserved Domain Database (CDD) consists of a collection of multiple sequence alignments of protein domains that are at various stages of being manually curated into evolutionary hierarchies based on conserved and divergent sequence and structur
Of the nine not identified by SIMBAL, seven are the most distal from the active site and make contact with an RF-1 domain distinct from that containing the methylation target glutamine (Figure 7A). Subsequences C and E, displaying the strongest SIMBAL scores, are positioned closest to the ...
There exist two ways to represent domains; either by the linear order in a protein, domain architectures [6], or by a graph where nodes are domains and edges connect domains that co-exist in a protein [1,2]. Moreover, [7] investigated whether the domain architectures had grammar as a ...
PSORT II analysis [39] classifies this transporter as residing in the plasma membrane (78.3%: plasma membrane vs. 21.7%: endoplasmic reticulum). Figure 5 Transmembrane analysis of the S. schenckii siderophore-iron transporter. Figure 5 shows the transmembrane domain analysis of SsSit. Thirteen ...
domain differs significantly between subfamilies. In addition to the classical PTPs a number of atypical phosphatases exist that lack catalytic activity (STYX or pseudophosphatases) [30]. All TriTryp PTPs identified have a single PTP domain (Figure2) with the conserved active-site motif, CX5R,...