• Source: Lisica

Lisica ("female fox" in several Slavic languages) may refer to:

LiSiCA (Ligand Similarity using Clique Algorithm), software used in molecular modelling
Lisica (Gostynin), a village in Poland




People with the surname


Slavko Lisica (1944-2013), Serbian Major general
Mileta Lisica (1966-2020), Serbian-Slovenian basketball player
Rade Lisica (born 1997), Slovenian basketball player
Mateo Lisica (born 2003), Croatian football player




See also


Gollak-Lisica, a peak in the Gollak, Kosovo
Lesica (disambiguation)
Lisca (disambiguation)
Lisitsa (disambiguation)
• Source: LiSiCA

LiSiCA (Ligand Similarity using Clique Algorithm) is a ligand-based virtual screening software that searches for 2D and 3D similarities between a reference compound and a database of target compounds which should be represented in a Mol2 format. The similarities are expressed using the Tanimoto coefficients and the target compounds are ranked accordingly. LiSiCA is also available as LiSiCA PyMOL plugin both on Linux and Windows operating systems.




Description


As an input LiSiCA requires at least one reference compound and database of target compounds. For 3D screening this database has to be a pregenerated database of conformations of target and for 2D screening a topology, that is, a list of atoms and bonds, for each target compound. On each step the algorithm compares reference compound to one of the compounds from target compounds based on their 2D or 3D representation. Both compounds(molecules) are converted to molecular graphs. In 2D and 3D screening the molecular graph vertices represent atoms. In 2D screening edges of molecular graph represent covalent bonds while in 3D screening edges are drawn between every pair of vertices and have no chemical meaning. A product graph generated from molecular graphs is then searched using fast maximum clique algorithm to find the largest substructure common to both compounds. The similarity between compounds is calculated using Tanimoto coefficients and target compounds are ranked according to their Tanimoto coefficients.




Feature overview



LiSiCA can search 2D and 3D similarities between a reference compound and a database of target compounds. It takes as an input at least one reference compound and a database of target compounds. By default it returns only the compound most similar to the reference compound out of all compounds in database of target compounds.
Other optional parameters LiSiCA uses are:

Number of CPU threads to useDefault value: the default is to try to detect the number of CPUs and use all of them or, failing that, use 1
Product graph dimensionPossible input: 2, 3Default value: 2
Maximum allowed atom spatial distance difference for the 3D product graph measured in angstromsDefault value: 1.0
Maximum allowed shortest path difference for the 2D product graph measured in the number of covalent bonds between atomsDefault value: 1
Consider hydrogensDefault value: False
Number of highest ranked molecules to write to outputDefault value: 0
Maximum allowed number of highest scoring conformations to be outputtedDefault value: 1
In addition LiSiCA PyMOL plugin also offers to load saved results.




History


LiSiCA Software (March 2015)
LiSiCA PyMOL plugin (March 2016)




Interesting fact


The Slovene word lisica means 'fox', which is why the logo of LiSiCA software is a fox holding two molecules.




References






External links


LiSiCA software
LiSiCA plugin

Kata Kunci Pencarian:

• Lisica
• LiSiCA
• Slavko Lisica
• Mateo Lisica
• Mileta Lisica
• Rade Lisica
• Dallas Records
• Coda di Volpe
• Lisica (Gostynin)
• Slavomolisano dialect