3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF00623

Details:

PFam ID : PF00623

PFam Domain Description : RNA polymerase Rpb1, domain 2

Number of Sequence in 50% Dataset : 50

Number of Sequence in Full Dataset : 1203

Average sequence length: 135.0

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00623	B3FIX0_9CAUD_287_435	75.5

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00623	C6LRR9_GIAIB_511_729	100

Sequence based PCA Plot of the family - PF00623 :

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=20 Length=8
Motif2 Start=2 Length=17
Motif3 Start=190 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