DATABASES
Bioinformatics has emerged into a discipline due to the availability of huge amount of data.
The collection of biological information is very vast and as a result there are number of databases
which are available online.
Here's a list of major Biological databases:-
Protein Sequences Databases
1.Primary Protein Sequence Databases:-The primary sequence databases currently hold over
300,000
non-redundant protein sequences. The most commonly-used are SWISS PROT and PIR.
2.Composite Databases:-There are a number of "composite" databases of protein sequences.
These compile their sequence data from the primary sequence databases and filter them to retain
only the non-redundant sequences. The best-known are OWL,NCBI.
3.Secondary Sequence Databases:-Secondary databases are those that contain information derived
from the primary sequence databases like PROSITE,PRINTS and Pfam.
.
Still there are number of categories in which Protein Sequence Databases can be characterized,these databases are as follows:-
Name |
Type |
Web Address |
Swiss-Prot |
Primary |
|
NCBI Protein database |
Composite |
|
PIR-NREF |
Primary |
|
PROSITE |
Pattern based secondary database |
|
InterPro |
Families/Domains |
|
PRINTS |
Family Fingerprints |
|
Pfam |
Protein families |
|
ProDom |
Domains |
|
AAindex |
Protein property |
|
PMD,Protein Mutant Database |
Literature based information |
|
PRF/SEQDB |
Amino acid sequences predicted from genes |
|
OWL |
Composite database |
|
SPTR |
SWISS PROT+TrEMBL |
|
Nucleotide Sequence Databases
Name |
Web address |
|
DNA Data Bank Of Japan,DDBJ |
|
| EMBL,EBI Databases |
|
|
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|
NCBI |
|
| GenBank |
|
Unigene |
|
Genomes |
|

Structure based Databases
1.Protein Structure Databases
Name |
Web Address |
PDB,Protein Data Bank |
|
PDB-TM |
|
HOMSTRAD |
|
Swiss-Model Repository |
|
ModBase |
|
NRL-3D |
|
MMDB |
|
2.Nucleic Acid Structure Databases
Name |
Web Address |
NDB |
|
RNABase |
|
Databases based on Structure based Classification
Name |
Web Address |
SCOP |
|
CATH |
|
Organism Specific Databases(Non-Human)
Name |
Web Address |
Rat |
|
Sheep |
|
Mouse |
|
Pig |
|
Cow/Cattle |
|
Dog |
|
Zebra Fish |
|
Horse |
|
Pufferfish |
|
Chicken |
|
Mosquito |
|
Drosophila |
|
E.coli |
|
Haemophilus influenzae |
|
Mycobacterium |
|
Streptococcus |
|
Streptomyces |
|
HIV |
|
Virus Information Resource |
|
Genome Databases(Human)
Name |
Web Address |
GDB,Genome Database |
|
GeneCards |
|
Gene Map'99 |
|
OMIM |
|
TIGR |
|
GenAtlas |
|
Transcription Related Databases
Name |
Web Address |
TRANSFAC |
|
TRANSCompel |
|
TRED |
|
JASPAR |
|
TRRD |
|
TESS |
|
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