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   YP_001304276.1;SP16569N
Protein Sequence Comparative Analysis   (PSCA)
 
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YP_001304276.1    PFAM and Other Family Domains



   Single domain is shown with a single color      Overlapping domains are shown as mixed colors
Index Model Accession Type seq_f seq_t seq_b hmm_f hmm_t hmm_b Bitscore E_value
1 v3_1_0:1w0pA02 v3_1_0:1w0pA02 Unknown 190 539 .. 1 381 [] 274 3.8e-88
2 v3_1_0:2sli002 v3_1_0:2sli002 Unknown 184 541 .] 1 383 [] 259.2 6.9e-82
3 v3_1_0:1w8oA01 v3_1_0:1w8oA01 Unknown 179 537 .. 1 354 [] 259.8 1.6e-80
4 v3_1_0:3sil000 v3_1_0:3sil000 Unknown 192 524 .. 26 379 .] 235.9 3.9e-71
5 v3_1_0:1n1tA01 v3_1_0:1n1tA01 Unknown 191 539 .. 1 386 [] 219.8 4.3e-68
6 v3_1_0:1sqjB01 v3_1_0:1sqjB01 Unknown 177 531 .. 1 331 [] 74.9 4.1e-25
7 v3_1_0:1sqjB02 v3_1_0:1sqjB02 Unknown 201 490 .. 1 324 [. 31.6 3.0e-10
8 v3_1_0:1c7sA04 v3_1_0:1c7sA04 Unknown 345 387 .. 1 37 [. 8.8 .048
   From   Expect (E_value cut-off) 
FSS for  functional & structural coverage of v3_1_0:1w0pA02...


Notes
The types of Pfam domains and families include Family, Domain, Repeat and Motif. You can retrieve sequences that cover the Pfam model from JCSG sequence pool. The structural coverage displays the informatiom of seed sequences for the Pfam model and showes if the Pfam model is covered by PDB sequences or JCSG targets.
Domain and family search is done using HMMER program and PFAM database with expect (E-value cut-off) at 0.05. The Pfam protein families database. A. Bateman, E. Birney, R. Durbin, S.R. Eddy, K.L. Howe, and E.L.L. Sonnhammer Nucleic Acids Research, 28:263-266, 2000.


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