A protein-RNA complex orchestrated by EMB1006, EMB1270, EMB976, and CFM2 facilitates clpP1 intron 2 splicing in Arabidopsis chloroplasts

• EMB1006 specifically binds to a sequence near the 3' end of clpP1 exon 2, guided by PPR code prediction. • EMB1006 forms a protein complex with EMB1270, EMB976, and CFM2, as revealed by immunoprecipitation and mass spectrometry. • Direct interactions between EMB1006 and EMB1270 or CFM2 are confirmed by yeast two-hybrid and pull-down assays, while EMB976 associates indirectly. • A model is proposed where EMB1006 and EMB1270 bind distinct sites on clpP1 pre-mRNA, assembling with CFM2 and EMB976 to facilitate clpP1 intron 2 splicing in chloroplasts.