BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 039064
         (224 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|2NYD|A Chain A, Crystal Structure Of Staphylococcus Aureus Hypothetical
           Protein Sa1388
 pdb|2NYD|B Chain B, Crystal Structure Of Staphylococcus Aureus Hypothetical
           Protein Sa1388
          Length = 370

 Score = 29.6 bits (65), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 3/66 (4%)

Query: 71  LQGHSPKRLRENPSSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISVGG 130
           L  H P    E+  + GL IG+   E+T   T     +  +++AI++    Y T IS   
Sbjct: 14  LDHHVPFSTAESWDNVGLLIGDEDVEVTGVLTALDCTLEVVNEAIEK---GYNTIISHHP 70

Query: 131 HIFKGI 136
            IFKG+
Sbjct: 71  LIFKGV 76


>pdb|3LNL|A Chain A, Crystal Structure Of Staphylococcus Aureus Protein Sa1388
 pdb|3LNL|B Chain B, Crystal Structure Of Staphylococcus Aureus Protein Sa1388
          Length = 370

 Score = 29.6 bits (65), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 3/66 (4%)

Query: 71  LQGHSPKRLRENPSSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISVGG 130
           L  H P    E+  + GL IG+   E+T   T     +  +++AI++    Y T IS   
Sbjct: 14  LDHHVPFSTAESWDNVGLLIGDEDVEVTGVLTALDCTLEVVNEAIEK---GYNTIISHHP 70

Query: 131 HIFKGI 136
            IFKG+
Sbjct: 71  LIFKGV 76


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.320    0.136    0.434 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,214,519
Number of Sequences: 62578
Number of extensions: 150071
Number of successful extensions: 382
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 382
Number of HSP's gapped (non-prelim): 2
length of query: 224
length of database: 14,973,337
effective HSP length: 95
effective length of query: 129
effective length of database: 9,028,427
effective search space: 1164667083
effective search space used: 1164667083
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)