S. Bhakat

AlphaFold-SFA: accelerated sampling of cryptic pocket opening, protein-ligand binding and allostery by AlphaFold, slow feature analysis and metadynamics

This paper introduces AlphaFold-SFA, a method combining AlphaFold, slow feature analysis, and metadynamics to accelerate sampling of rare protein events like cryptic pocket opening and allosteric communication.

A morphotype of Saccolaimus saccolaimus (Chiroptera: Emballonuridae) from West Bengal, India with a comparative note of the species.

The paper describes an adult Saccolaimus saccolaimus with a unique white oval pad at the base of the thumb and suggests re-evaluating its IUCN status in India.

Redescription of Dendrophthoe falcata (L. f.) Ettingsh (Loranthaceae) with notes on haustorium

The paper describes the morphology and histology of Dendrophthoe falcata var coccinea, focusing on the structure of the haustorium and its variations in different host plants.

Accelerating cryptic pocket discovery using AlphaFold

This study uses AlphaFold to generate structures for cryptic pockets, showing it can sample open states and aid in discovering drug targets, though some remain challenging.

Computational modelling of local fluctuations causing transient solvent exposure of protein amides

The paper analyzes a long MD simulation of BPTI to study the relationship between hydrogen exchange and protein dynamics, finding that exchange-competent configurations arise from transient broken states.

A nepenthesin insert allosterically controls catalysis in the malaria parasite protease plasmepsin V

The paper identifies a nepenthesin insert essential for plasmepsin V function in malaria parasites and shows it allosterically regulates catalysis.

A new species of the genus Microhyla Tschudi, 1838 (Amphibia: Anura: Microhylidae) from eastern India with notes on Indian species

The paper describes a new frog species, Microhyla bengalensis, from India, distinguished by specific morphological traits and provides comparative data on all 14 Indian Microhyla species.

A new species of the genus Carlogonus (Spirostreptida: Harpagophoridae) from West Bengal, India.

The paper describes a new species of Carlogonus, Carlogonus bengalensis, from West Bengal, India, detailing its morphological characteristics and comparing it to the 'exaratus group'.

A new paradoxosomatid millipede, Manikidesmus suriensis (Polydesmida: Paradoxosomatidae) from West Bengal, India.

The paper describes a new genus and species of millipede from India, highlighting unique morphological features distinguishing it from related genera.

A new species of the genus Euphlyctis (Anura: Dicroglossidae) from West Bengal, India

The paper describes a new species of green frog from West Bengal, India, based on morphological characteristics and comparisons with existing species.

Revision of Indian Bipaliid species with description of a new species, Bipalium bengalensis from West Bengal, India (Platyhelminthes: Tricladida: Terricola)

The paper describes a new land planarian species, Bipalium bengalensis, from India and revises the taxonomy of Indian Bipaliid species.

Deviation of Dyar's rule in the post-embryonic development in millipedes - a comprehensive analysis.

This study calculates Dyar's value and weight progression factor in millipede species, finding significant differences between polydesmid and non-polydesmid groups and supporting Dyar's rule and Crossby's growth rule.

Population ecology of Trigoniulus corallinus (Gervais) (Diplopoda: Spirobolida).

The paper studies the population ecology of Trigoniulus corallinus over a year, finding aggregated distribution and correlations between population density, biomass, and environmental factors like temperature and rainfall.

Mating pattern, duration and multiple mating in Chondromorpha severini Silvestri (Diplopoda: Polydesmida).

This study examines mating behavior in Chondromorpha severini, finding polygynandrous mating with variation in mating duration and multiple mating preferences.

A new species of leaf fish, Nandus banshlaii (Perciformes: Nandidae) from West Bengal, India

The paper describes a new species of leaf fish, Nandus banshlaii, from the Banshlai River in West Bengal, India, and differentiates it from related species using morphological and statistical analyses.

A new species of Travassosinema (Oxyuridomorpha: Travassosinematidae) from an Indian millipede, Trigoniulus corallinus (Gervais)

The paper describes a new nematode species, Travassosinema bengalensis, from an Indian millipede and suggests a new method for morphometric data presentation.

Flap dynamics in pepsin-like aspartic proteases: a computational perspective using Plasmepsin-II and BACE-1 as model systems

This study uses computational methods to analyze flap dynamics in pepsin-like aspartic proteases, showing that tyrosine side-chain rotation governs flap flexibility and binding pocket opening.