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PDBsum entry 5ivn
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Peptide binding protein
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PDB id
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5ivn
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References listed in PDB file
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Key reference
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Title
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Peptides in headlock--A novel high-Affinity and versatile peptide-Binding nanobody for proteomics and microscopy.
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Authors
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M.B.Braun,
B.Traenkle,
P.A.Koch,
F.Emele,
F.Weiss,
O.Poetz,
T.Stehle,
U.Rothbauer.
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Ref.
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Sci Rep, 2016,
6,
19211.
[DOI no: ]
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PubMed id
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Abstract
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Nanobodies are highly valuable tools for numerous bioanalytical and biotechnical
applications. Here, we report the characterization of a nanobody that binds a
short peptide epitope with extraordinary affinity. Structural analysis reveals
an unusual binding mode where the extended peptide becomes part of a β-sheet
structure in the nanobody. This interaction relies on sequence-independent
backbone interactions augmented by a small number of specificity-determining
side chain contacts. Once bound, the peptide is fastened by two nanobody side
chains that clamp it in a headlock fashion. Exploiting this unusual binding
mode, we generated a novel nanobody-derived capture and detection system.
Matrix-coupled nanobody enables the fast and efficient isolation of
epitope-tagged proteins from prokaryotic and eukaryotic expression systems.
Additionally, the fluorescently labeled nanobody visualizes subcellular
structures in different cellular compartments. The high-affinity-binding and
modifiable peptide tag of this system renders it a versatile and robust tool to
combine biochemical analysis with microscopic studies.
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