SUPERFAMILY 1.75 HMM library and genome assignments server

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Origin of replication-binding domain, RBD-like 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 7 SUPERFAMILY models representing the Origin of replication-binding domain, RBD-like superfamily
Model ID No. of seqs Build date Seed sequence Family of seed
0052766 293 2008-09-10 d2fufa1 The origin DNA-binding domain of SV40 T-antigen
0043184 110 2005-09-08 d1r9wa_ Replication initiation protein E1
0037306 110 2005-09-08 d1f08a_ Replication initiation protein E1
0040790 22 2005-09-08 d1m55a_ Replication protein Rep, nuclease domain
0040363 209 2005-09-08 d1l2ma_ DNA-binding domain of REP protein
0042148 63 2005-09-08 d1p4da_ Relaxase domain
0041922 64 2005-09-08 d1omha_ Relaxase domain