3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF12940

Details:

PFam ID : PF12940

PFam Domain Description : Recombination-activation protein 1 (RAG1)

Number of Sequence in 50% Dataset : 8

Number of Sequence in Full Dataset : 297

Average sequence length: 306.6

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF12940	D7PDF1_9PERC_173_260	14.2

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF12940	Q45ZT6_STRPU_447_899	96.2

Sequence based PCA Plot of the family - PF12940 :

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=225 Length=8
Motif2 Start=119 Length=11
Motif3 Start=354 Length=8
Motif4 Start=200 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