3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF04818

Details:

PFam ID : PF04818

PFam Domain Description : RNA polymerase II-binding domain.

Number of Sequence in 50% Dataset : 62

Number of Sequence in Full Dataset : 272

Average sequence length: 62.8

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF04818	A2E1R7_TRIVA_57_119	73.7

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF04818	E1ZR60_9CHLO_133_205	100

Sequence based PCA Plot of the family - PF04818 :

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=24 Length=8
Motif2 Start=6 Length=17
Motif3 Start=55 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