what is the best johto team

All a matter of opinion and what you as the player are best fit for using. I would say Dragon types are normally the best, though I could be wrong seeing as I don't know what type you prefer.

Typhloision
Skarmory
Victorbell
Scizor
Gyrodos
Amphoras

Feraligatr
Arcanine
Gyrodos
Celebi
Umbreon/Espeon
Tyranitar

Magmortar
Lugia
Mewtwo
Pidgeot
Tyranitar
Scizor

Yes I know it doesn't have a starter Pokemon but trust me I beat the game with this party
P.S. Mewtwo should probably be your best

Meganium
Lapras
Flareon
Togekiss
Donphan
Mamoswine :P

It all depends on your starter Pokemon and what types of Pokemon you prefer tbh

Thyplosion moves blast burn eruption lava plume flame thrower.tyranitar moves earthqake stone edge dark pulse thunder.dragonite mov

Celebi
Gyarados
Latios/Latias
Espeon/Umbreon
Ho-oh(because it's in Heart Gold version)
Lugia

The legendaries,the Red Gyarados and two of Eve's(a nickname for Eevee)evolutions are so great,but when they are level 100,90 or something I think they don't obey!Sorry.:(

Gyrados
Tyranitar
Charizard-if you can get, if not Arcanine
Dragonite
Magnanium
Machamp

Beasts^^

Tyranitar should be used last or as just a "mine sweeper"/ killing an entire team considering that his sandstorm ability hurts bascially your entire team, but if you get a tyrnaitar by jhoto you should OWN, same with a dragonite

Magnesium I choose because well because grass type Pokemon that are good are hard to come bye-or go with an electric, while fire in typholsion you can find a few VERY good/equal of ability type guys and gyrados is easily, IMO, as good if not better then feraligatr, so that leaves you with magnesium

If you can't get a aracnine-because you use soul silver, you can originally pick typholsion and then get an electric-maybe a pikachu with I think a "LIGHT BALL" which makes it's special attack/lightning attacks alot stronger then any raichu^^-light ball only effects pickachu, I think they wanted to find a way to explain ash's pickahu bein so strong, so it apparently has a light ball^^

Tyranitar-Thunder punch, Crunch, Earthquake, Rockslide
Skarmory-Spikes, Toxic, Ariel ace/Pluck, Steelwing/Protect
Suicune-Mirror Coat, Reflect, Surf, Ice Beam
Umbreon-Curse, Crunch, Moonlight/Confuseray, Fire Fang
Jolteon-Thunderbolt, Shockwave, Thunderwave, Doublekick
Weavile-Nightslash, Icepunch, Faintattack, Shadowclaw

With this team and their moves thay cover all of their weaknesses and have moves to beat every type besides normal types

There is no 'best team'. It is your game, and it is up to you how you play it. You can go through the game with whichever team you want, but I'll give you some good Pokemon to start with. This is not a 'You should totally use this' type of thing, these are just suggestions:

Typhlosion/Feraligatr/Meganium - Your starter. Choose whichever you like, they're all good.
Slowbro- Water and pyschic moves + bulk make this a good Pokemon. You can catch them at Slowpoke Well.
Lapras- Another water Pokemon with great HP and special attack. You can catch it on a Friday in Union Cave, once you have surf.
Eeveelutions - I'm saying eeveelutions because all of them are awesome. Choose one depending on your team to cover weaknesses. If you want, you could breed the Eevee you recieve to get more so that you can have more than one Eeveelution. You recieve Eevee from Bill in Goldenrod City.
Heracross/Scizor- Both really good Pokemon, either will work, just note Scizor will require trade. You can catch Heracross by headbutting trees in Azalea Town, and Scyther in the bug catching contests.
Alakazam/Gengar - They require trade to evolve, but they're both equally good. They both help for Morty, if you can get one before then. You can catch Gastly in Sprout Tower, which makes it a great early Pokemon. I believe you can get an Abra from the game corner type thing in Goldenrod as a prize.
Dragonite - You'll be waiting a long time to get this Pokemon, but it's worth it. It's a really strong Pokemon with great stats. You can get Dratini/Dragonair in Dragon's Den.
Togetic/Togekiss - With Serene Grace, these Pokemon are great additions to your team. You will have to wait til after the Elite Four to get a shiny stone to evolve it though. You recieve a Togepi from an egg you get in Violet City.
Ampharos - One of the only electric types in the game, and obtained really early, Ampharos is a really useful Pokemon. You get catch Mareep just outside Violet City.

Well, these are some reccomended Pokemon to get you started. Remember, you can beat the game with just about any team you want. Yes, if you have enough skill, it is possible to beat the game with six Magikarps.

I know this is really late! I wrote this for people who came to this question looking for help.

Megaineum/fearalgater
Arcinine
Amphoros
Dragonite
Crobat

And something to replace th type of tarter you didn't pick out f those two at the top. Water/grass pokemon. Maybe if it's megaineum I would get the red garadoes, and if it's fearaligater, I would probably trade myself a turtwig... I like turtwigs :D

These aren't in order
Meganium- not the fire type nor water coz you can get a good substitute of those pokemons
Arcanine/Flareon- your fire type, good subs for typhlosion but flareon idk if it's gud
Lapras/Slowbro- both great poke on with high hp/endurance, lapras as your dragon-sweeper, slowbro for physical(ithink) wall and psychic moves
Ampharos- like said above/below, one of the only electric types, beside jolteon
Pidgeot/Fearow/Crobat- good flying types
Blissey(idk if it will appear in that game)/Dragonite- blissey as you're special wall(probably the best one), dragonite as your sweeper

I aint gud, these are based on experiences
:D

One you need to look at stats moves types and leagdarys

Meganium your grass
Entei your fire type that is powerful before the elite four
Suicune same as entei
Tyranitar Your tank with high defense and attack
Dragonite Your super strong dragon which an beat any type through moves types
Lugia Your strongest Pokemon by far with psychic flying electricand water type moves can't be beat

Meganium
Arcanine
Poliwrath
Dragonite
Ampharos
Pidgeot

If you are like me and like to use Pokemon of the same region you are in for your team then this is what I used and beat red with
Typhlosion-All around
Crobat-Awesome speed
Ampharos-Special attack
Quagsire-Good swimmer, kinda bulky
Fortress-Wall... The wall
Pilowsine-Kills the overpowered dragons

I agree with the person who said "there's no best team" just pick Pokemon you really like. But my honest opinion if you have to use legendaries to beat the game how is that any fun it's supposed to be challenging, this is my team I am currently working on:
Feraligatr- Adamant + sp defense
Ice punch, Dragon dance, Aqua tail, Crunch
Houndoom- Modest + speed
Sunny day, Solar beam, Flamethrower, Dark pulse
Donphan- Impish + sp defense
Earthquake, Fire fang, Giga impact, ether Rock slide or Stone edge
Skarmory- Jolly + speed/attack
Whirlwind, Brave bird, Spikes, Steel wing
Heracross- Adamant + defense
Close combat, Megahorn, Night slash, Aerial ace
Granbull-Jolly + anything but sp attack
Fire punch, Crunch, Super fang, and haven't figured out the last move
Keep in mind this is for competitive game play to feel free to add suggestions on the moves

Personally I use these Pokemon but I apologize that they are not all from johto or kanto

Typhlosion
Dialga
Gengar
Infernape
Dragonite
Blastoise/Swampert

Typhlosion
Scizor
Crobat
Ampharos
Lugia
Espeon/Heracross/Quagsire

My team to beat red: tyranitar lvl 60 feraligatr lvl 73 pikachu lvl 40 onix lvl 52 heracross lvl 42 ho oh lvl 47

My team.... All 60+ Typlosion, togekiss, ampharos, slowbro, Heracross, and Mamoswine........ I have defeated jhoto elite 4 though it's a piece of cake....... Now m planning to sail to kanto and continue the game......... Well my team rocks

Crobat
Gengar
Jolteon
Pigeot
Bedrill
Gravler

If you ask me, the best Johto team is...
- Typhlosion - Flamethrower, Hyper Beam, Thunder Punch, Quick Attack
Hits hard, with the main move being Flamethrower. Use Hyper Beam as a last resort, because you need to recharge afterward. Thunder Punch is useful if someone uses a Water-type to counter your Typhlosion, and Quick Attack is always a useful finisher.
- Slowbro - Surf, Psychic, Shadow Ball/Blizzard, Amnesia
Slowbro has a high special attack and defense, giving him the capability to hit hard and take a punch. Surf and Psychic are the main moves, and use dependent on type advantages. Shadow Ball and Blizzard are good TM moves that do a lot of damage as well. Shadow Ball is more accurate with less damage, so it's a safer bet, but Blizzard is useful to deal with Lance or other birds that cross your path. However, it is quite inaccurate. Amnesia is a solid stat move to keep Slowbro alive. Amnesia helps to make him even more tank-y and grants it the ability to stand up to a special attack hitter. (Electric-, Dark-, and Ghost-type moves are mostly special attack based).
- Crobat - Confuse Ray, Wing Attack/Double Team, Fly, Toxic
The King of the Waiting Game, Crobat uses strategy instead of straight power. Use Confuse Ray and Toxic to start, then Fly to buy time and let confusion and poison damage to do work. Wing Attack is useful to quickly kill off something with not a whole lot of health left, however if after using Confuse Ray and Toxic you use Double Team 4-6 times, it's difficult to even hit Crobat never mind kill him after he gets "set up".
- Ampharos - Thunder Wave, Rain Dance, Thunder, Thunder Punch
Ampharos is another hard hitter, with really high special attack. Instead of a variety of move types, Ampharos is best with electric moves to get devastating STAB bonuses. Thunder Wave is always helpful because Ampharos is a rather slow Pokemon, and paralysis will pretty much guarantee Ampharos will strike first. Using Rain Dance increases Thunder's accuracy and makes it reliable high power move, that comboed with STAB and high special attack will pretty much 1 shot any opponent (except obviously Ground-types). Thunder Punch is a good finisher if the opponent is at around 25% health.
- Lapras - Confuse Ray/Sing, Ice Beam, Surf/Hydro Pump/Nightmare, Rest/Dream Eater
Although, yes, if you use this team, you already have a Water-type Pokemon. But this one is Ice-type, and it's a MUST if you ask me to have an Ice-type to deal with Lance and Clair. Confuse Ray or Sing is a good status move that your opponent has to deal with. Ice Beam and Surf are strong go-to moves that Lapras has STAB bonus to. Or, you can use Hydro Pump, as it is less reliable but good extra damage if it hits. If you use Confuse Ray, make your last move Rest, because Lapras has a lot of health. If it was Sing, you can still use Rest, or you can use Dream Eater and Nightmare instead of your Water-type move (because you already have a Water-type Pokemon in Slowbro.) Dream Eater and Nightmare are good if you want both. Dream Eater is really good damage and sustain, because it heals you, and Nightmare is good ongoing damage that can equal a lot. Lapras' strategy really depends on what you want.
- Steelix - Earthquake, Iron Tail, Sandstorm, Crunch
Because you have 2 Water-type Pokemon and a Flying-type Pokemon, a Ground-type is a must to deal with Electric-types. Use Earthquake, one of the strongest moves in the game with a lot of power and a lot of accuracy. Iron Tail is less reliable but still has a lot of damage. Sandstorm gives good ongoing damage to your opponent, so it isn't bad to have. Crunch is a good finisher and to deal with Psychic-types, because none of your other Pokemon counter Psychics (except Slowbro's Shadow Ball).

This is my suggestion...

Typhlosion
Nature: (no change)
Item: (Expert Belt)
Moveset: Sunny Day, Flamethrower, Solar Beam, Earthquake

Crobat
Nature: (no change)
Item:Focus Sash
Moveset: Confuse Ray, Toxic, FLy, Giga Drain

Ampharos (female)
Nature: Modest
Item : Wide Lens
Moveset: Attract, Thunder Wave, Thunder, Focus Blast

Kingdra
Ability: Sniper
Nature: Hasty
Item: Scope Lens
Moveset: Focus Energy, Yawn, Surf, Outrage

Scizor:
Ability: Swarm
Nature: Cautious
Item: Razor Claw
Moveset: Focus Energy, Sword Dance, X-Scizor, Iron Head

Tyranitar:
Nature:Brave
Item: Tyranitarite
Moveset: Stone Edge, Crunch, Earthquake, Outrage

Typhlosion
Gyarados
Lugia/Hooh (Lugia in soulsilver AND Hooh in heartgold)
Umbreon
Ampharos
Dragonite