There are many and various:-
FIX - is used for messages between brokers, investment banks financial advisors etc.
it has many message types such as "quote", "offer", "accept", "buy" etc. so that the various houses can negotiate and trade on an automated basis.
Each stock exchange NASDAQ,AMEX,FTSE, etc. etc. has its own proprietary proctocol (and perhaps more improtantly PROCEDURES) for automated trading.
Rueters, Bloomberg, etc. etc. have thier own proprietary protocols for providing market information.
Each regulator such as the Securities Exchange Commision, has its on protocol for filing and querying company statments.
Then many "ordinary" fincial protocols such as SWIFT for international business, ISO 8583 for credit card payments and whatever interbank payments system is supported in the countries the house operates in.
Just to complicate things a little further many widly used products such as the MUREX trading family or the FERMAT risk management products use there own APIs which are regarded as "standard" in the same way as MS Word is standard.
And to top it all most of the bulge bracket banks have in house written "backbone" applications which use private inhouse protocols.
An uderstanding of the underlying business of the group you are supporting (and these teams can be absurdly specialised ) is probably more useful. Deal with the various protocols on a "need to do" basis.