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= 041930
         (320 letters)

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

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



>pdb|1A88|A Chain A, Chloroperoxidase L
 pdb|1A88|B Chain B, Chloroperoxidase L
 pdb|1A88|C Chain C, Chloroperoxidase L
          Length = 275

 Score = 30.0 bits (66), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 6/58 (10%)

Query: 248 VVQAKIPPVSIKTNNRPD--PLEVLDRVKITNTLETPRSTIKGALKVPQHRELKFSRE 303
           V+ + +PPV +K++  PD  PLEV D  +    L   R+     + VP      F+RE
Sbjct: 118 VLVSAVPPVMVKSDTNPDGLPLEVFDEFRA--ALAANRAQFY--IDVPSGPFYGFNRE 171


>pdb|1A8Q|A Chain A, Bromoperoxidase A1
          Length = 274

 Score = 29.6 bits (65), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 20/48 (41%), Positives = 29/48 (60%), Gaps = 5/48 (10%)

Query: 240 HTMIKLQN-VVQAKIPPVSIKTNNRPD--PLEVLDRVKITNTLETPRS 284
           H   +L++ V+ + IPPV IK++  PD  P EV D +K  N + T RS
Sbjct: 107 HGTGRLRSAVLLSAIPPVMIKSDKNPDGVPDEVFDALK--NGVLTERS 152


  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
   0.317    0.131    0.367 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,672,646
Number of Sequences: 62578
Number of extensions: 257169
Number of successful extensions: 606
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 606
Number of HSP's gapped (non-prelim): 5
length of query: 320
length of database: 14,973,337
effective HSP length: 99
effective length of query: 221
effective length of database: 8,778,115
effective search space: 1939963415
effective search space used: 1939963415
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)