Many millennia ago, a meteor from space which threatened to destroy the world was stopped by Arceus who intervened to protect the world. While attempting to protect the world, Arceus was badly injured and Damos (&#12480;&#12514;&#12473;) took care of it. As gratidude, Arceus promised to help make the desolate land of Mich&#299;na rich and prosperous so it gave Damos the Jewel of Life (&#21629;&#12398;&#23453;&#29577;). 
Arceus let Damos borrow 16 parts of its body to create the Jewel of Life which were to be returned to it on a specific date. Arceus was betrayed when it was not returned and it vowed to judge humans when it awakens. 
Many millennia after these events, Satoshi, Hikari and Takeshi arrive in the riverside town of Mich&#299;na (&#12511;&#12481;&#12540;&#12490;) which is surrounded by nature's beauty. They decide to go the ruins of Mich&#299;na which are at the summit of a large rock. There is a large and beautiful lake at its shores and Satoshi and friends are fascinated by the lake, but suddenly, waves begin to form in the lake and tornado of water begins to wreak havoc. 
A descendant of Damos, a girl called Sheena, runs out from the ruins of Mich&#299;na. Sheena saw what was happening and she summoned Dialga and she says "Dialga, please!" and Dialga manages to stop the tornado. 
Satoshi and his friends finally get to see the ruins and Kevin and Sheena tell the old legend of Mich&#299;na to Satoshi and his friends. Moments after they explain the legend, the fighting between Dialga, Palkia and Giratina becomes fierce and the ruins of Mich&#299;na are destroyed. Arceus is awoken... 
(Source: Pocketmonsters)

After defeating Brandon and declining the offer to be a Frontier Brain, Ash sets off to travel through the far away land of Sinnoh. Once he gets there, he meets up with Hikari, a local trainer from the region, and they decide to travel together.

On the other side of the world, there exists another mysterious, mirror-like dimension known as the Reverse World. In this unique space lives the legendary Pokemon Giratina, a god-like Pokemon who soon finds itself in a great struggle with the legendary Pokemon Dialga! Why are these two Pokemon fighting? And what is the secret of this Reverse World? 
Meanwhile, Satoshi and his friends are traveling when they are greeted by yet another legendary Pokemon, Shaymin. This cute and somewhat cheeky Pokemon holds the secret to the battle between the two god Pokemon, but something unexpected happens to it during its journey. In order to save both worlds, Satoshi joins forces with it to stop the fighting once and for all!

Long ago, the mighty Pokémon Arceus was betrayed by a human it trusted. Now Arceus is back for revenge! Dialga, Palkia and Giratina must join forces to help Ash, Dawn and their new friends Kevin and Sheena stop Arceus from destroying humankind. But it may already be too late!
 
(Source: Viz Media)
 
The Viz Media version has the original 3 chapters arranged as 2 bigger chapters.

The Fury of Zoroark Has Been Unleashed! 
The Pok&eacute;mon Baccer World Cup. 
It is the most anticipated event of the year, and as hundreds flock to Crown City to watch the exciting competition unfold, Ash, Pikachu, and his friends encounter a mysterious new Pok&eacute;mon they have never seen before. 
But when the three Legendary Pok&eacute;mon Raikou, Entei, and Suicune suddenly arrive and begin rampaging through the streets, it&rsquo;s up to Ash and his companions, along with their new Pok&eacute;mon friend Zorua, to uncover the secret behind the immense and powerful forces at work. 
What strange and dangerous powers are afoot in Crown City? Why did Celebi suddenly return after vanishing for twenty years? And why is the mighty Zoroark unleashing its fury upon the town? The quest for these answers leads down an uncertain path filled with peril&mdash;can Ash and his companions find enough courage, strength, and friendship to unearth the mystery in time to save Crown City? 
(Source: Pokemon.com)

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