Finally! I have my own motion logo signature! About half and a week to settled.
And everything were done in Adobe After Effects CS5.5, including the 3D logo, no other 3D software include.
For the 3D logo, using only the built in After Effect's Effect, the Shatter effect. Although in some ways this effect very limited in terms of texturing and so on, better use C4D for a better result. I need to study and practice more often. Haven't touch any 3D software yet until now except I used to know Blender before long time ago.
As for the clouds, I used the clouds image in PNG format, tweaked them using Turbulent Displacement effect, adding an more in-depth and dynamic animated clouds. Same goes to the flame like effect. Those I've applied the Fractal Noise layer with Turbulent Displacement effect. This effect somehow very awesome! So much to explore in After Effects. :)
Honestly, I am not a professional, I am still an amateur and still lot to learn. This is one of a result of my learning days through the Youtube tutorial and Video Copilot. Thanks Andrew Kramer, you are one of the reason I fell in love with motion graphics and VFX. :)