MolClustPy: A Python Package to Characterize Multivalent Biomolecular Clusters

Abstract

AO_SCPLOWBSTRACTC_SCPLOWO_ST_ABSSO_SCPLOWUMMARYC_SCPLOWC_ST_ABSLow-affinity interactions among multivalent biomolecules may lead to the formation of molecular complexes that undergo phase transitions to become extra-large clusters. Characterizing the physical properties of these clusters is important in recent biophysical research. Due to weak interactions such clusters are highly stochastic, demonstrating a wide range of sizes and compositions. We have developed a Python package to perform multiple stochastic simulation runs using NFsim (Network-Free stochastic simulator), characterize and visualize the distribution of cluster sizes, molecular composition, and bonds across molecular clusters and individual molecules of different types. AO_SCPLOWVAILABILITYC_SCPLOWO_SCPCAP C_SCPCAPO_SCPLOWANDC_SCPLOWO_SCPCAP C_SCPCAPO_SCPLOWIMPLEMENTATIONC_SCPLOWThe software is implemented in Python. A detailed Jupyter notebook is provided to enable convenient running. Code, user guide and examples are freely available at https://molclustpy.github.io/ CO_SCPLOWONTACTC_SCPLOWachattaraj007@gmail.com, blinov@uchc.edu SO_SCPLOWUPPLEMENTARYC_SCPLOWO_SCPCAP C_SCPCAPO_SCPLOWINFORMATIONC_SCPLOWAvailable at https://molclustpy.github.io/