Table 7 SSS results for xyna-theau and xyna-strli. SSS results for the F/10 xyna-theau and xyna-strli (BLAST identity score 47%, similarity 62%). Both the xylanases are exceedingly similar in their structure (RMS = 2.130A using SPDBV) and therefore close identity in the primary structure is expected as depicted by high BLAST identity score. Similarly, SSearch produces good alignment where character based identity is high. Highly identical subsequences do produce low SSS score (row 1) but non identical subsequences producing low scores are interesting. BLAST does not detect similarity in row 3 subsequences but aligns them. SSearch, however, does not align the two subsequences in row 3. Most of them show similar secondary and tertiary structures. Note the similarity in secondary structures shown below each subsequence. F = 16, S z = 8, β = 2.5. PDBids: xyna-theau = 1GOR, xyna-strli = 1EOV. The assignments for secondary structure are: h = helix; b = residue in isolated beta bridge; e = extended beta strand; g = 310 helix; i = pi helix; t = hydrogen bonded turn; s = bend [37]. SSS = 0.731.
From: Detailed protein sequence alignment based on Spectral Similarity Score (SSS)
| Â | Seq | Segment | Subseq | msd | Blast Result | SSearch Results | rms | Image |
|---|---|---|---|---|---|---|---|---|
1 | x-theau x-strli | (38) [304–312] (41) [329–337] |
| 0.60 |
|
| 0.21 | fig 7a |
2 | x-theau x-strli | (29) [231–223] (32) [255–263] |
| 2.17 |
|
| 1.51 | fig 7b |
3 | x-theau x-strli | (30) [243–239] (33) [265–273] |
| 3.92 | VLQALPLL YNSNFRTT | VLQALPLL YNSNFRTT | 1.69 | fig 7c |
4 | x-theau x-strli | (27) [215–223] (30) [239–247] |
| 2.93 |
|
| 0.19 | fig 7d |
