XRN2 is an essential eukaryotic exoribonuclease that processes and degrades various substrates. The ~80-residue XRN2-binding domain (XTBD) constitutes an XRN2-binding module that is employed by different metazoan proteins to link to XRN2 [1,2]:

• Caenorhabditis elegans Partner of Xrn-Two protein 1, or PAXT-1 for short. Plays a role in maintenance of steady-state concentration and turnover of microRNAs (miRNA) by degradation of mature miRNA in complex with the exoribonuclease XRN-2.
• Mammalian CDKN2A-interacting protein (CDKN2AIP) or Collaborator of ARF (CARF). Regulates DNA damage response in a dose-dependent manner through a number of signaling pathways involved in cell proliferation, apoptosis and senescence.
• Mammalian CDKN2AIP N-terminal-like protein (CDKN2AIPNL).

The XTBD domain folds into a globular four-helix bundle (H1-H4) connected by three loops (L1-L3) (see <PDB:5FIR>). H1-H3 form an antiparallel helical array and H4 folds back on top of H2 and H3 at an 90° angle. The four-helical bundle is mainly stabilized by hydrophobic helix-helix interactions together with additional polar interactions between side chains located on neighboring helices. The four-helix bundle of XTBD represents a structurally unique arrangement for XRN2 binding [2].

The profile we developed covers the entire XTBD domain.

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