Editing Sequence motif (section)

====PROSITE pattern notation====

The [[PROSITE]] notation uses the [[IUPAC]] one-letter codes and conforms to the above description with the exception that a concatenation symbol, '<code>-</code>', is used between pattern elements, but it is often dropped between letters of the pattern alphabet.

PROSITE allows the following pattern elements in addition to those described previously:
* The lower case letter '<code>x</code>' can be used as a pattern element to denote any amino acid.
* A string of characters drawn from the alphabet and enclosed in braces (curly brackets) denotes any amino acid except for those in the string. For example, <code>{ST}</code> denotes any amino acid other than <code>S</code> or <code>T</code>.
* If a pattern is restricted to the N-terminal of a sequence, the pattern is prefixed with '<code>&lt;</code>'.
* If a pattern is restricted to the C-terminal of a sequence, the pattern is suffixed with '<code>&gt;</code>'.
* The character '<code>&gt;</code>' can also occur inside a terminating square bracket pattern, so that <code>S[T&gt;]</code> matches both "<code>ST</code>" and "<code>S&gt;</code>".
* If <code>e</code> is a pattern element, and <code>m</code> and <code>n</code> are two decimal integers with <code>m</code> <= <code>n</code>, then:
** <code>e(m)</code> is equivalent to the repetition of <code>e</code> exactly <code>m</code> times;
** <code>e(m,n)</code> is equivalent to the repetition of <code>e</code> exactly <code>k</code> times for any integer <code>k</code> satisfying: <code>m</code> <= <code>k</code> <= <code>n</code>.

Some examples:
* <code>x(3)</code> is equivalent to <code>x-x-x</code>.
* <code>x(2,4)</code> matches any sequence that matches <code>x-x</code> or <code>x-x-x</code> or <code>x-x-x-x</code>.

The signature of the C2H2-type ''[[zinc finger]]'' domain is:
* <code>C-x(2,4)-C-x(3)-[LIVMFYWC]-x(8)-H-x(3,5)-H</code>