| More docs on the ARB website. See also index of helppages. Last update on 27. Jun 2017 .

Main topics:

- ARB: a Short Introduction
- ARB_NT Main Window
- Protein Alignments
- Glossary

Related topics:

- Convert Species to SAI
- Import Foreign Data(bases)
- NOTES: dssp

# Create SAI from protein secondary structure

- OCCURRENCE
- DESCRIPTION
- NOTES
- EXAMPLES
- WARNINGS
- BUGS

## OCCURRENCE

### ARB_NT/SAI/Create SAI using/Protein secondary structure

## DESCRIPTION

### Takes the currently selected species and searches for the field 'sec_struct'. A new SAI is created using the data in this field. A simple input window pops up where the default name '[species name]_pfold' for the new SAI can be changed.

## NOTES

### The import filter 'dssp_all.ift' allows for importing the amino acid sequence as well as the protein secondary structure from a dssp file and the structure is stored in the field 'sec_struct'. That way, secondary structure can be aligned along with the sequence manually and can later be extracted to create an SAI.

### The import filter 'dssp_2nd_struct.ift' extracts only the protein secondary structure which is stored as alignment data. SAIs can simply be created from these species with 'Species -> Convert to SAI' in the 'Species Information' window (see ´Convert Species to SAI´).

### Refer to ´Import Foreign Data(bases)´ and especially ´NOTES: dssp´ for detailed information on importing sequences and structures and on the DSSP format.

## EXAMPLES

### None

## WARNINGS

### None

## BUGS

### No bugs known