EcRBPome

EcRBPome catalogs RNA-binding proteins (RBPs) across 614 complete Escherichia coli proteomes from the RefSeq database (October 2018), providing curated annotations and cross-strain comparisons to support bacterial RNA-binding protein research.

Key Features:

• Comprehensive Coverage: Genome-wide survey of RBPs across 614 complete Escherichia coli proteomes from RefSeq (October 2018).
• Cross-Strain Comparative Analysis: Comparative data on occurrence and distribution of RNA-binding domains (RBDs) across multiple E. coli strains.
• Detailed Annotations: Per-protein annotations include domain architectures, PDB structures, Gene Ontology (GO) terms, and Enzyme Commission (EC) numbers.
• Strain Metadata: Assembly, BioProject, and BioSample identifiers and details are associated with each strain entry.
• Graphical Representations: Visual summaries of RBP percentages and the abundance of various RBDs per strain.

Scientific Applications:

• Bacterial RNA Biology: Analysis of RBP repertoires to investigate RNA-mediated regulation in Escherichia coli.
• Adaptation and Pathogenicity Studies: Comparison of RBP complements to explore links with bacterial adaptation, pathogenicity, and host interactions.
• Comparative Genomics: Identification of conserved and strain-specific RBP features across E. coli strains.
• Structural and Functional Inference: Use of domain architectures and PDB structures alongside GO and EC annotations to support functional hypotheses for RBPs.

Methodology:

A systematic genome-wide survey of complete Escherichia coli proteomes was performed using RefSeq entries (October 2018), followed by curation and integration of domain, structural (PDB), GO, EC, and strain metadata to enable cross-strain comparisons.