protein-assembly

Fusion protein design combines multiple protein components with GS linkers while optimizing codons for GC-content targets. This Skill automates assembly order, linker placement, codon optimization, and generates synthesis-ready DNA sequences from PDB-derived proteins, plasmid CDS, or protein database sources.

Yes. This Skill catalogs protein components from diverse sources—PDB files, plasmid coding sequences, and protein databases—and assembles them into a single fusion construct with specified linkers and codon optimization applied uniformly.

Codon optimization analyzes GC content using sliding-window validation to keep sequences within specified constraints. The Skill enforces these limits across the entire fusion construct while preserving protein function and synthesis readiness.

This Skill explicitly handles N-terminal methionine placement across fusion components. It enforces exact protein order with GS linkers and validates sequence integrity so the final assembly maintains correct translational start sites and reading frames.

No. This Skill automatically validates sequences, analyzes GC content in sliding windows, ensures length constraints are met, and outputs a synthesis-ready gBlock DNA sequence file—eliminating manual validation steps before ordering.

Yes. This Skill supports wavelength-matched fluorescent protein selection as part of fusion assembly, allowing you to pair compatible FP components with optimized linkers in a single coordinated design workflow.