3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF04998

Details:

PFam ID : PF04998

PFam Domain Description : RNA polymerase Rpb1, domain 5

Number of Sequence in 50% Dataset : 368

Number of Sequence in Full Dataset : 2605

Average sequence length: 400.6

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF04998	Q6JTY8_9MYRI_18_108	72.4

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF04998	E1ZGY3_9CHLO_93_466	100

Sequence based PCA Plot of the family - PF04998 :

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

PSIMOT-Motifs Extracted using PSIMOT:
There are 2 motifs

Motif1 Start=127 Length=50
Motif2 Start=1 Length=52

Download PSSM/HMM Models/Alignment:

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