3PFDB+ - Database of Best Representative Profiles of Protein Families : Database Entry - PF00129

Details:

PFam ID : PF00129

PFam Domain Description : Class I Histocompatibility antigen, domains alpha 1 and 2

Number of Sequence in 50% Dataset : 69

Number of Sequence in Full Dataset : 2131

Average sequence length: 130.4

Pairwise Identity of Sequence in 50% Dataset : 31.3

FASSM Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00129	F1RTI1_PIG_1_129	91.1

HMMER Based Coverage Results:

Pfam ID	Best Profile	Coverage of Best Profile
PF00129	A7X5N1_ORNAN_24_204	100

Sequence based PCA Plot of the family - PF00129 :

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=83 Length=23
Motif2 Start=110 Length=17
Motif3 Start=3 Length=14
Motif4 Start=166 Length=14

Download PSSM/HMM Models/Alignment:

Prof. R. Sowdhamini (Contact : mini@ncbs.res.in)
Agnel P. Joseph, Prashant N. Shingate, and Atul K. Upadhyay