Biointelligence

At a glance

SEQUENCE DATABASES


*Click on the names to access the databases

Major Sequence Repositories

DDBJ: DNA Data Bank of Japan

EMBL: European Molecular biology Laboratory

GenBank: Genetic Sequence Database of NCBI


General Sequence Databases (DNA, RNA, Protein)

RefSeq: NCBI Reference Sequence Database
DoTS: Database of Transcribed Sequences
DiProDb: Dinucleotide Property Database
TRRD: Transcription Regulatory Regions Database
Treefam: Tree Families Daabase
OPSD: Oral Pathogen Sequence Database
STRBase: Short Tandem Repeat DNA Internet Database
EID: Exon Intron Database
SRS: Sequence Retrival System
INSDC: International Nucleotide Sequence Database Collaboration
VectorDB: Database of Vector Sequences
EPConDB: Database of Expressed Gene Sequences
GeneCards: Imtegrated Database of Human Genes
EPD: Eukaryotic promoter Database
PlantPromDB: Database of Plant Promoters
Biozon: General Sequence Database

RefSeq: NCBI Reference Sequence Database

DoTS: Database of Transcribed Sequences

DiProDb: Dinucleotide Property Database

TRRD: Transcription Regulatory Regions Database

Treefam: Tree Families Daabase

OPSD: Oral Pathogen Sequence Database

STRBase: Short Tandem Repeat DNA Internet Database

EID: Exon Intron Database

SRS: Sequence Retrival System

INSDC: International Nucleotide Sequence Database Collaboration

VectorDB: Database of Vector Sequences

EPConDB: Database of Expressed Gene Sequences

GeneCards: Imtegrated Database of Human Genes

EPD: Eukaryotic promoter Database

PlantPromDB: Database of Plant Promoters

Biozon: General Sequence Database


RNA DATABASES

GtRNAdb: Genomic tRNA Database

Rfam: RNA family Database

RRDb: 5S Ribosomal RNA Database

BPS: Database of RNA Base-pair Structures

miRBase: Micro RNA Database

fRNAdb: Functional RNA Database

RRRdb: European Ribosomal RNA Database

NCRNAdb: Non-Coding RNA Database

SCOR: Structural Classification of RNA

tmRNADB: Database of tmRNA

RNAseP: RNAase P RNA database

SnoRNABase: database of human C/D box and H/ACA modification guide RNAs

RAGdb: RNA as Websource Database


PROTEIN DATABASES

PDB: Protein Data Bank

UniProt: Protyein Knowledge Base

Prosite: Database of Protein Domains, families and Functional Sites

Interpro: Database of Protein Domains, families, repeats and Functional Sites

COGS: Clusters of Orthologous Groups of Proteins

Pfam: Protein Families database

BioGrid: General Repository of Interaction Datasets

HPRD: Human Protein Reference Database

MPdb: Membrane Protein Data Bank

SYSTERS: Protein Famliy Database

HPR: Human Protein Atlas

PDBTM: Protein Databank of Transmembrane Proteins

PKG: Protein Kinase Groups

InACT: Database of Protein Interaction Data

IPI: International Protein Index

Consurf Database: Server for Identification of Functional Regions in proteins

GPCRDB: Information system for G Protein Coupled Receptors

SPD: Secreted Protein Database

Swiss-Prot: Curated Protein Sequence Database

ARABI-COIL: Arbidopsis Coiled Coil Protein Database

SENTRA: Database of Prokaryotic Signal transduction Proteins

EcoProDb: Ecoli. Protein Database

PKG: Protein Kinase Groups

PRIDE: PRoteomics IDEntification database

TCB: Transport Classification Database

Phosphabase: Protein phosphate Information Resource

GELBANK: Two-dimensional gel electrophoresis (2DE) images of proteomes

PRINTS: Database of Protein Finger Prints

PMD: Protein Mutant Database

PRF: Protein Research Foundation

CATH: Classification Architecture Topology Hierarchy Database

SCOP: Structural Classification of Proteins

MIPS: Munich Information Center for Protein Sequences

WD Repeat: Repeat Family of Proteins

PIR: protein information Resource

SGK: Structural Genomics Knowledge Database

PANTHER: Protein Analysis through Evolutionary Relationships

TIGRfams: Protein Families based on Hidden Markov Models


ENZYME DATABASES

ExplorEnz: The Enzyme database

BRENDA:  Comprehensive Enzyme Information System

EC-PDB: Enzyme Structures database

MACiE: Mechanism Annotation and Classification in Enzymes

IntEnz: Integrated Relational Enzyme database

HCS: Hierarchial Classifictaion of Hydrolases catalytic sites

TECR: Thermodynamics of Enzyme-Catalyzed Reactions

REBase: Restriction Enzyme Database

END: Enzyme Nomenclature Database

KEGG: KEGG Ligand Database

ENZYME: Enzyme Nomenclature Database

ESD: Enzyme Structures Database

PRECISE: Predicted and Concensus Interaction Sites in Enzymes


STRUCTURE DATABASES

PDB: Protein Data Bank

PDBsum: Database of Macro Molecular Structures

ATPS: Anotomy and Taxonomy of Protein Structure

ASCMCHB: Atlas of Side chain and main chain Hydrogen Bonding

Columba: Protein Structure Annotation

CC+: Database of coiled coil structures

SitesBase: Database of known Ligand Binding Sites

DMM: Database of Macromolecular Movements

BindingDB: Binding Database

DisProt: Database of Protein Disorder

iMOTdb: Database of Spatially Interacting Motifs in proteins

DBAli: A Database of Structure Alignments

DSSP: Database of Secondary Structure Assignments

DASSD: Dihedral Angle and Secondary Structure Database of Short Amino Acid Fragments

ICBS: Database of Protein Protein Intercations

JAIL: Database of Intercating Domains

AMS: Atlas of Macro Molecular Structures

MPKS: Membarne Proteins of Known 3D Structures

CATH: Protein Structure Classification

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