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= 040408
         (235 letters)

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

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



>pdb|3KSR|A Chain A, Crystal Structure Of A Putative Serine Hydrolase (Xcc3885)
           From Xanthomonas Campestris Pv. Campestris At 2.69 A
           Resolution
          Length = 290

 Score = 28.1 bits (61), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 3/70 (4%)

Query: 99  KAVIIRVRFPDNHTLEVNFHPSETMQSLVDFLRMRVLSRTDVPFYLYTAPPKRIIKDMSQ 158
           +++  RV    +H L V  H  E  ++L+D+L   V+ R         A  K+++K+   
Sbjct: 206 RSLTSRVIAGADHALSVKEHQQEYTRALIDWLTEXVVGRRIALAKEVVAARKQLLKEQQG 265

Query: 159 DFYSAGFIPG 168
           D  S   +PG
Sbjct: 266 DAVS---LPG 272


  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    0.134    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,451,691
Number of Sequences: 62578
Number of extensions: 165391
Number of successful extensions: 281
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 280
Number of HSP's gapped (non-prelim): 1
length of query: 235
length of database: 14,973,337
effective HSP length: 96
effective length of query: 139
effective length of database: 8,965,849
effective search space: 1246253011
effective search space used: 1246253011
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: 50 (23.9 bits)