We study the early stage of the formation of seed supermassive black holes via direct collapse in dark matter (DM) halos, in the cosmological context. We perform high-resolution zoom-in simulations of such collapse at high-$z$. Using the adaptive mesh refinement code ENZO, we resolve the formation and growth of a DM halo, until its virial temperature reaches $sim 10^4$K, atomic cooling turns on, and collapse ensues. We demonstrate that direct collapse proceeds in two stages, although they are not well separated. The first stage is triggered by the onset of atomic cooling, and leads to rapidly increasing accretion rate with radius, from $dot Msim 0.1,M_odot {rm yr^{-1}}$ at the halo virial radius to few $M_odot ,{rm yr^{-1}}$, around the scale radius $R_{rm s}sim 30$pc of the NFW DM density profile. The second stage of the collapse commences when the gas density takes precedence over the DM density. This is associated with the gas decoupling from the DM gravitational potential. The ensuing collapse approximates that of an isothermal sphere with $dot M ( r )sim $const. We confirm that the gas loses its angular momentum through non-axisymmetric perturbations and gravitational torques, to overcome the centrifugal barrier. During the course of the collapse, this angular momentum transfer process happens on nearly all spatial scales, and the angular momentum vector of the gas varies with position and time. Collapsing gas also exhibits supersonic turbulent motions which suppress gas fragmentation, and are characterized by density PDF consisting of a lognormal part and a high-density power law tail.