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Clustal Conservation Groups

The Clustal ALN sequence-alignment format includes characters symbolizing degree of conservation in a column. These can be shown in the Conservation header of an alignment in the Sequence Viewer.

Positions where every residue is the same type (complete identity) are marked with an asterisk (*).

Positions where one of the following strong groups is fully conserved are marked with a colon (:).

STA
NEQK
NHQK
NDEQ
QHRK
MILV
MILF
HY
FYW
Positions where one of the following weak groups is fully conserved are marked with a period (.).
CSA
ATV
SAG
STNK
STPA
SGND
SNDEQK
NDEQHK
NEQHRK
FVLIM
HFY
The groups are defined using the PAM250 matrix; scores within the strong groups are > 0.5 and scores within the weak groups are positive but ≤ 0.5.

Other positions are not marked with any character.


UCSF Resource for Biocomputing, Visualization, and Informatics / November 2018