3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF00516

Details:

PFam ID : PF00516

PFam Domain Description : Envelope glycoprotein GP120

Number of Sequence in 50% Dataset : 56

Number of Sequence in Full Dataset : 26716

Average sequence length: 171.5

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00516	D6NV33_9HIV1_208_510	47.2

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00516	D6NUZ6_9HIV1_139_207	99.4

Sequence based PCA Plot of the family - PF00516 :

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=29 Length=8
Motif2 Start=1 Length=18
Motif3 Start=20 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