3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF04001

Details:

PFam ID : PF04001

PFam Domain Description : Transcription factor Vhr1

Number of Sequence in 50% Dataset : 3

Number of Sequence in Full Dataset : 18

Average sequence length: 87.2

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF04001	D8M4A3_BLAHO_2_148	No suitable BRS could be identified

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF04001	Q75AJ4_ASHGO_5_100	100

Sequence based PCA Plot of the family - PF04001 :

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=19 Length=18
Motif2 Start=10 Length=8
Motif3 Start=1 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