In this present work, we explore the effectiveness of layered molybdenum disulfide (2H-MoS2) and graphitic carbon nitride (g-C3N4) heterostructure as anode for Sodium-Ion Batteries (SIBs) by using first principles analysis. To study the anode properties, we varied the interlayer distance between 2H-MoS2/g-C3N4 as 3Å, 6Å, 9Å,12 Å, and 14 Å between MoS2 as substrate and g-C3N4 as top layer. The fundamental properties, such as structural stability and electronic structure were analysed for the respective systems. The adsorption kinetics of Na ion on the g-C3N4 layer were analysed by performing molecular dynamics (MD) simulations to understand the adsorption mechanism better. Our results showed that the interlayer distance of 6 Å with formation energy of −4.31 eV, the theoretical specific capacity value of 765.32 mAhg−1, the average electrode potential is between 0.8 and 1.3 V and the adsorption energy of −2.16 eV is suitable for MoS2/g-C3N4 based anodes for Na ion batteries.