KNOTTIN

[…] e and 82.35% identity. In the built model of OdClTx1, three strand (8.57%), one helix (28.57%), and one loop (62.86%) were found. OdClTx1 folding was done by the highest confidence of similarity with knottin domains. These domains are small inhibitors, toxins, and lectins belonging to the scorpion toxin-like superfamily and short-chain scorpion toxins family[]. In OdClTx1 mature peptide, the knott […]

[…] oyed a peptidomic approach to identify a panel of CRPs, roseltides (rT1-rT8), from the medicinal plant Hibiscus sabdariffa. Roseltide rT1, the smallest member of roseltide family, was identified as a knottin-type inhibitor against human neutrophil elastase. There has been only one reported knottin-type porcine elastase inhibitor (MCEI-IV) with three N-terminal truncated analogs (MCEI-I to MCEI-III […]

[…] ected manually through visualization of the resulting clusters; alternate cutoffs of 0.6 and 0.8 were also assessed and rejected. Any cluster containing four or more peptides annotated with the SCOP “knottin” fold (SCOP identifier g.3) were considered “knottin clusters”; peptides from these clusters were pooled and reclustered hierarchically, using the disulfide distance metric and imposing a cuto […]

[…] antimicrobial (disulfide based) lasso proteins – for example this motif might serve as a “molecular plug”, as in case of the action of mini-proteins, blocking the uptake channel.The first engineered knottin was already successfully applied for tumor imaging. The cyclotides, a family of mini-proteins that contain a head-to-tail cyclized backbone, also have a diverse range of biological activities, […]

[…] in the primary sequence and the relative orientation of the disulfide bond pairs and the secondary structures between the ISTX-I and ICK fold. Furthermore, we used our structure to search against the KNOTTIN database, which provides standardized data on the knottin structural family. Both the Knoter3D and Knoter1D tools suggested that ISTX-I does not exhibit the inhibitor cysteine knot topology. R […]

[…] The curated Fungi1 alignment was downloaded from the KNOTTIN database [] and trimmed to the conserved cysteine residues plus 10 residues of padding on either side (alignment positions 423 through 483, counting from 1). Hmmer 3.0 (http://hmmer.org) was u […]