Error Code 1117 Too many columns; MySQL column-limit on table
Why would you need to create a table with even 20 columns, let alone 2000 ???

Granted, denormalized data can prevent having to do JOINs to retrieve many columns of data. However, if you have over 10 columns, you should stop and think about what would happen under the hood during data retrieval.

If a 2000 column table undergoes SELECT * FROM ... WHERE, you would generate large temp tables during the processing, fetching columns that are unnecessary, and creating many scenarios where communication packets (max_allowed_packet) would be pushed to the brink on every query.

In my earlier days as a developer, I worked at a company back in 1995 where DB2 was the main RDBMS. The company had a single table that had 270 columns, dozens of indexes, and had performance issues retrieving data. They contacted IBM and had consultants look over the architecture of their system, including this one monolithic table. The company was told "If you do not normalize this table in the next 2 years, DB2 will fail on queries doing Stage2 Processing (any queries requiring sorting on non-indexed columns)." This was told to a multi-trillion dollar company, to normalize a 270 column table. How much more so a 2000 column table.

In terms of mysql, you would have to compensate for such bad design by setting options comparable to DB2 Stage2 Processing. In this case, those options would be


max_allowed_packet
tmp_table_size
max_tmp_tables
max_heap_table_size
max_length_for_sort_data
max_sort_length
sort_buffer_size
myisam_max_sort_file_size
myisam_sort_buffer_size


Tweeking these settings to make up for the presence of dozens, let alone hundreds, of columns works well if you have TBs of RAM.

This problem multiplies geometrically if you use InnoDB as you will have to deal with MVCC (Multiversion Concurrency Control) trying to protect tons of columns with each SELECT, UPDATE and DELETE through transaction isolation.

CONCLUSION

There is no substitute or band-aid that can make up for bad design. Please, for your sake of your sanity in the future, normalize that table today !!!