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= 025746
         (248 letters)

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

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



>pdb|3E2D|A Chain A, The 1.4 A Crystal Structure Of The Large And Cold-Active
           Vibrio Sp. Alkaline Phosphatase
 pdb|3E2D|B Chain B, The 1.4 A Crystal Structure Of The Large And Cold-Active
           Vibrio Sp. Alkaline Phosphatase
          Length = 502

 Score = 29.3 bits (64), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 29/91 (31%), Positives = 37/91 (40%), Gaps = 12/91 (13%)

Query: 102 ALVDSFYGTDRGLNATSETRAEIVEL-----ITQLEAKN-----PTPAPTEALTLLNAKW 151
            ++  F   D+ L  T E  AEIV       IT  +AKN     P P        L+A+ 
Sbjct: 370 GMISEFQKLDKSLQ-TPEKLAEIVNKNSEFPITAEQAKNVLASKPNPYRLAQHKYLSAEE 428

Query: 152 ILVYTSFSGLFPLLSRGTLPLARVEEISQTI 182
           +     F   FP   RG L LAR +   Q I
Sbjct: 429 VPAINDFDAFFPYNDRGNL-LAREQATGQNI 458


  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
   0.316    0.130    0.359 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,644,125
Number of Sequences: 62578
Number of extensions: 181800
Number of successful extensions: 467
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 464
Number of HSP's gapped (non-prelim): 4
length of query: 248
length of database: 14,973,337
effective HSP length: 96
effective length of query: 152
effective length of database: 8,965,849
effective search space: 1362809048
effective search space used: 1362809048
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)