Jessica H. Fong

TL;DR: NCBI’s Conserved Domain Database (CDD) is a resource for the annotation of protein sequences with the location of conserved domain footprints, and functional sites inferred from these footprints.

TL;DR: NCBI's Conserved Domain Database is a collection of multiple sequence alignments and derived database search models, which represent protein domains conserved in molecular evolution, and provides annotation of domain footprints and conserved functional sites on protein sequences.

TL;DR: It is argued that the mechanisms of regulation of binding specificity through disordered regions in complexes can be as common as for unbound monomeric proteins.

TL;DR: This work proposes a model of evolution in which architectures arise through rearrangements of inferred precursor architectures and acquisition of new domains, and finds that the distribution of rearrangement classes is robust with respect to alternative parsimony rules for inferring the presence of precursor architectures in ancestral species.

TL;DR: MMDB as mentioned in this paper provides a complete set of detailed and pre-computed structural alignments obtained with the VAST algorithm, and provides visualization tools for 3D structure and structure/sequence alignment via the molecular graphics viewer Cn3D.