SUPERFAMILY 1.75 HMM library and genome assignments server

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PGBD-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 6 SUPERFAMILY models representing the PGBD-like superfamily
Model ID No. of seqs Build date Seed sequence Family of seed
0051968 212 2008-09-10 d2bgxa1 Peptidoglycan binding domain, PGBD
0040446 573 2005-09-08 d1lbua1 Peptidoglycan binding domain, PGBD
0036027 305 2005-09-08 d1ck7a6 MMP N-terminal domain
0049469 320 2008-09-10 d1su3a1 MMP N-terminal domain
0040394 292 2005-09-08 d1l6ja1 MMP N-terminal domain
0043654 219 2005-09-08 d1slma1 MMP N-terminal domain