3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF03870

Details:

PFam ID : PF03870

PFam Domain Description : RNA polymerase Rpb8

Number of Sequence in 50% Dataset : 28

Number of Sequence in Full Dataset : 138

Average sequence length: 128.9

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF03870	Q0D9U8_ORYSJ_1_80	70.3

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF03870	D2VRJ9_NAEGR_11_155	100

Sequence based PCA Plot of the family - PF03870 :

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=34 Length=8
Motif2 Start=15 Length=8
Motif3 Start=64 Length=8
Motif4 Start=84 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