Cryptic crossword clue
Classes immediately below those in geography, lacking 5

The most common and most likely answer to this crossword clue is the 5 letter word PHYLA

I've seen this crossword clue in The Times
P
H
Y
L
A

Buddy explains!

The straight part
We know that "Classes immediately below those" is the straight/definition part of the clue. The straight part is often a synonym or definition, in this case classes immediately below those = phyla.
The cryptic/wordplay part
In cryptic crossword there's often an wordplay/cryptic part as well.
This part involves a more complex hint, such as an anagram, homophone, hidden word, etc.
Sadly, We don't have an explanation for this specific crossword clue yet.

What does PHYLA mean?

PHYLA noun
  1. A tribe.
PHYLA noun
  1. A rank in the classification of organisms, below kingdom and above class; also called a division, especially in describing plants; a taxon at that rank
  2. A large division of possibly related languages, or a major language family which is not subordinate to another.

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