3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF00469

Details:

PFam ID : PF00469

PFam Domain Description : Negative factor, (F-Protein) or Nef

Number of Sequence in 50% Dataset : 15

Number of Sequence in Full Dataset : 4367

Average sequence length: 195.1

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00469	Q87488_SIVCZ_2_107	14.2

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00469	D6C7E1_9HIV1_29_75	98.7

Sequence based PCA Plot of the family - PF00469 :

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=27 Length=8
Motif2 Start=1 Length=8
Motif3 Start=18 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