feat(structures): add GCE suppressor tRNA cloverleaf structures - #38
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Adds bundled cloverleaf diagrams for the Methanosarcina pyrrolysyl-tRNA and M. jannaschii tyrosyl-tRNA amber suppressors used in genetic code expansion. The pyrrolysyl-tRNA lacks a canonical D-stem (its D-arm is an unpaired loop), which the R2R layout pipeline didn't support; fixed find_innermost_acceptor_pair() and create_stockholm() to handle 2-stem (D-stem-less) junctions alongside the existing 3- and 4-stem cases. Verified byte-identical regeneration for all 4 existing organisms. Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> Claude-Session: https://claude.ai/code/session_01JzBXHA7AoCXcvKmueXxDpH
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🤖 Generated with Claude Code
https://claude.ai/code/session_01JzBXHA7AoCXcvKmueXxDpH