3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF00494

Details:

PFam ID : PF00494

PFam Domain Description : Squalene/phytoene synthase

Number of Sequence in 50% Dataset : 269

Number of Sequence in Full Dataset : 1401

Average sequence length: 253.3

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00494	D9X6M0_STRVR_37_154	88.0

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00494	LCPS_PHARH_305_657	99.9

Sequence based PCA Plot of the family - PF00494 :

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=117 Length=8
Motif2 Start=137 Length=8
Motif3 Start=218 Length=8
Motif4 Start=15 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