3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF00309

Details:

PFam ID : PF00309

PFam Domain Description : Sigma-54 factor, Activator interacting domain (AID)

Number of Sequence in 50% Dataset : 35

Number of Sequence in Full Dataset : 595

Average sequence length: 48.2

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00309	E2NP40_9FIRM_5_53	5.8

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00309	B2UL79_AKKM8_4_52	100

Sequence based PCA Plot of the family - PF00309 :

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

PSIMOT-Motifs Extracted using PSIMOT:
There are 3 motifs

Motif1 Start=26 Length=8
Motif2 Start=15 Length=8
Motif3 Start=41 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