DPInteract (original) (raw)
This database is copyright 1994 the President and Fellows of Harvard College. Robison, K., and Church, G. DPInteract: A database on DNA-protein interactions. (1994). http://arep.med.harvard.edu/dpinteract/ Electronically published and manuscript in preparation.
For 55 E. coli DNA-binding proteins with known binding sites, we have compiled DNA-binding site matrices and performed searches over the complete E. coli K12 genome. The search matrices and results are located at: http://arep.med.harvard.edu/ecoli_matrices
E-mail address for corrections and feedback: krobison@nucleus.harvard.edu
Documentation
Searches
- Full-text search on this dataset
- Search for citations in this dataset
- Search a sequence against the database using BLASTN
- Search database sites for specific subsequences
Helix-Turn-Helix Protein Families
- alpA;araC;arsR;asnC
- birA
- cI;cro;crp
- deoR;dtxR
- fis;fur
- gntR
- hipB
- iclR
- lacI;lexA;luxR;lysR
- marR;merR;modE;mor
- ner;ntrC
- pin
- rpoD;rpoN
- sorC
- tetR;trpR
- Unclassified HTH
Probe-Helix Protein Families
Beta-Ribbon Protein Families
Zinc-Finger Protein Families
Other and Unclassified Protein Families
- abrB;argR
- dps
- int
- hha;hns
- intR
- dnaJ
- mod;mtlR
- glpG
- bolA
- nagC
- papB;papI
- rop;rtp
- tus
- Unknown protein;Unclassified
References
Summaries, Tables & Statistics
- DNA binding site matrices for 55 proteins
- Family Entry Statistics
- Gene Entry Statistics
- DPInteract Entries with Known 3-Dimensional Structures
Useful & Related Resources
- BLOCKS
- EcoCyc
- ExPASy
- Entrez
- Literature Searches
- BIOSCI Table of Contents Searches
- Medline Genetics Subset
- SeqAnalRef, a bibliography on biological sequence analysis
- E.coli Data Collection (ECDC)
- E.coli Genetic Stock Center
- SCOP: Structural Classification of Proteins
- WebLogo page