3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF00060

Details:

PFam ID : PF00060

PFam Domain Description : Ligand-gated ion channel

Number of Sequence in 50% Dataset : 396

Number of Sequence in Full Dataset : 1217

Average sequence length: 241.1

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00060	A7SGV8_NEMVE_512_830	98.9

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00060	B0W521_CULQU_357_708	100

Sequence based PCA Plot of the family - PF00060 :

BRP of Green color is by FASSM and of Red color is by HMMER

PSIMOT-Motifs Extracted using PSIMOT:
There are 4 motifs

Motif1 Start=1 Length=8
Motif2 Start=136 Length=8
Motif3 Start=34 Length=8
Motif4 Start=305 Length=8

Download PSSM/HMM Models/Alignment:

Prof. R. Sowdhamini (Contact : mini@ncbs.res.in)
Agnel P. Joseph, Prashant N. Shingate, and Atul K. Upadhyay