SUPERFAMILY 1.75 HMM library and genome assignments server

SUPERFAMILY 2 can be accessed from Please contact us if you experience any problems.

PapD-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 10 SUPERFAMILY models representing the PapD-like superfamily
Model ID No. of seqs Build date Seed sequence Family of seed
0053784 832 2010-05-31 d2co7b1 Pilus chaperone
0049045 932 2008-09-10 d1quna1 Pilus chaperone
0042924 190 2005-09-08 d1qpxa1 Pilus chaperone
0048701 990 2008-09-10 d1p5va1 Pilus chaperone
0047932 952 2008-09-10 d1l4ia1 Pilus chaperone
0049221 479 2008-09-10 d1rowa_ MSP-like
0048218 418 2008-09-10 d1mspa_ MSP-like
0047045 409 2008-09-10 d1grwa_ MSP-like
0048065 384 2008-09-10 d1m1sa_ MSP-like
0050581 525 2008-09-10 d1wica_ MSP-like