Complex lassos can be divided according to the number of piercings through the minimal surface spanned on the covalent loop. In particular, four classes of complex lasso proteins exist:
the Ln class, where one tail pierces the surface n times;
the LSn class, where one tail pierces the surface n times, winding around the loop;
the LLi,j class, where both tails pierce the surface i and j times respectively;
the LSLi,j class, where one tail pierces the surface i times in the supercoiling manner, and the second pierces the surface in the simple manner.
Another classification may be given according to the nature of the bridge closing the covalent loop. Most of the complex lasso proteins have a disulfide-based loop, however, the amide-based and ester-based complex lasso proteins are known.
Popularity of complex lasso in proteins
Around 18% of proteins with disulfide bridges have complex lasso, however, much more complex lasso would be predicted when analyzing the non-interacting polymeric models. Apart from structures with only one pierced loop, there may be also chains with several complex lasso structures. In particular, the loops may pierce each other, forming a protein Hopf link. There are much less complex lassos in proteins than it is expected from simple polymer models. However, there are groups of proteins which have higher complex lasso probability than we could expect from such models.
Biological role
It is not known if the complex lasso motif is functional in general. However, in some cases the importance of the motif for the protein function was reported. In particular, in case of lasso peptides, the motif allows to act like a plug for specific NTP-uptake channels.. On the other hand, the motif was shown to be functional in case of leptin - the obesity-related protein. The analysis of the shape of complex lasso proteins compared to the polymeric models with similar size shows, that some classes of complex lasso proteins may also be functional. This concerns toxic, antimicrobial, defensin-like or immune system related with L1 motif
Computer tools to analyze the complex lasso topology
The current list of complex lasso proteins may be found in the database, which allows also uploading and analyzing own data. The manual inspection of the data is also possible with the - the PyMol plugin.
