SWISS-PROT

It is an annotated protein sequence database maintained by the Swiss Institute of Bioinformatics and European Bioinformatic Institute.

1. SWISS-PROT
Amandeep Singh
Assistant Professor
Department of Biotechnology
GSSDGS KhalsaCollege Patiala

2. Introduction
SWISS-PROT
Protein sequence database
High level of Annotation Low Redundancy High level of
Integration
•Sequence of Protein
•Structure of Protein
•Function of Protein
•Modifications in Protein
Redundancymeans
having multiple
copies of same data
in thedatabase.
Databases 1
Databases 2
Databases 3

3. Introduction
SWISS-PROT is an annotated Protein sequence Database.
SWISS-PROT
EBI (European Bioinformatics Institute)
SIB (Swiss Institute of Bioinformatics)
Maintained
by

4. Features
1. Annotation
2 Classes of Data
Core data Annotation
•Sequence data (amino acid
sequence, protein name
description)
•Citation information
•Taxonomic data
•Functions of the protein
•Post translational modifications
•Domains & sites
•Secondary structure
•Quaternary structure
•Similarities with other proteins
•Diseases associated with
deficiencies in proteins
•Sequence conflicts, variants

5. Features
2. Minimum redundancy
Protein 1 Protein 2 Protein 3
Entry 1 Entry 2 Entry 3
Merge all data
To minimize redundancy

6. Features
3. Integration with other databases
SWISS-PROT
DDBJ
EMBLE
GenBank
2D, 3D
Protein
structural
databases
Protein
domain &
Family
databases
Post
Translational
Modifications
databases
Species-
specific Data
collection
Disease
databases

7. TrEMBL
ComputerannotatedsupplementofSWISS-PROTthatcontainall
translationsofEMBLnucleotidesequenceentriesnotyetintegratedin
SWISS-PROT.
SRS System
(Sequence Retrieval System)
At EBI
Download entire database
as single flat file
Accessed Through
EMBL

8. TrEMBLSections
2 Sections
SP-TrEMBL
(SWISS-PROT TrEMBL)
REM-TrEMBL
(REMainingTrEMBL)
Contains sequences
which will be eventually
incorporated into
SWISS-PROT
Contains sequences which will NOT
be eventually incorporated into
SWISS-PROT.
•Immunoglobulins,
•T-cell receptors,
•Synthetic sequences,
•Patent application sequences,
•Fragments of less than 8 amino acids
•Coding sequences where there is
strong experimental evidence that
the sequence does not code for a real
protein.TrEMBLnew: Weekly update to TrEMBL.