SUPERFAMILY 1.75 HMM library and genome assignments server

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Putative DNA-binding domain superfamily models

A superfamily is represented by one or more models; usually there is more than one model representing the superfamily. Since each model is built to capture the whole superfamily, they are likely to be overlapping and sometimes are mostly overlapping or even redundant to each other. Also models often do not score their own seed sequence more highly than other sequences in the superfamily, so it is a mistake to think that the model represents the seed sequence.

All models are available for immediate download after obtaining a license by filling in a short online registration form. Licenses are free for academic and commercial purposes.

Plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be viewed for each model by following the model ID link.


All 14 SUPERFAMILY models representing the Putative DNA-binding domain superfamily
Model ID No. of seqs Build date Seed sequence Family of seed
0048783 31 2008-09-10 d1pm6a_ Excisionase-like
0037930 35 2005-09-08 d1g4da_ Excisionase-like
0044064 38 2005-09-08 d1tnsa_ Excisionase-like
0042522 287 2005-09-08 d1pysb2 Domains B1 and B5 of PheRS-beta, PheT
0042521 461 2005-09-08 d1pysb1 Domains B1 and B5 of PheRS-beta, PheT
0036272 51 2005-09-08 d1d4ua1 DNA repair factor XPA DNA- and RPA-binding domain, C-terminal subdomain
0042547 548 2005-09-08 d1q08a_ DNA-binding N-terminal domain of transcription activators
0039468 1084 2005-09-08 d1jbga_ DNA-binding N-terminal domain of transcription activators
0037244 762 2005-09-08 d1exja1 DNA-binding N-terminal domain of transcription activators
0042546 1108 2005-09-08 d1q06a_ DNA-binding N-terminal domain of transcription activators
0043545 82 2005-09-08 d1sbxa_ Dachshund-homology domain
0040420 88 2005-09-08 d1l8ra_ Dachshund-homology domain
0039432 341 2005-09-08 d1j9ia_ Terminase gpNU1 subunit domain
0041317 53 2005-09-08 d1nd9a_ N-terminal subdomain of bacterial translation initiation factor IF2