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= psy7574
         (142 letters)

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

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



>pdb|3JTZ|A Chain A, Structure Of The Arm-type Binding Domain Of Hpi
          Integrase
 pdb|3RMP|A Chain A, Structural Basis For The Recognition Of Attp Substrates
          By P4-Like Integrases
 pdb|3RMP|C Chain C, Structural Basis For The Recognition Of Attp Substrates
          By P4-Like Integrases
          Length = 88

 Score = 26.6 bits (57), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 13/43 (30%), Positives = 22/43 (51%)

Query: 36 LKYRQYQEEQRVTQGEIDRMTKQDEKYREEKQNKMMKLRQDME 78
          LKYR   +E R+  G    ++  D + + E   KM+ L  ++E
Sbjct: 40 LKYRISGKESRIALGAYPAISLSDARQQREGIRKMLALNINLE 82


>pdb|2ZOV|A Chain A, Structure Of The Periplasmic Domain Of Motb From
          Salmonella (Crystal Form I)
          Length = 210

 Score = 25.8 bits (55), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 12/40 (30%), Positives = 27/40 (67%)

Query: 49 QGEIDRMTKQDEKYREEKQNKMMKLRQDMEESLKSREQMR 88
          QGE+++    DE  +  +Q+++ KLR D+++ ++S  ++R
Sbjct: 8  QGEVEKQPNIDELKKRXEQSRLNKLRGDLDQLIESDPKLR 47


  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
   0.305    0.119    0.302 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,416,248
Number of Sequences: 62578
Number of extensions: 120946
Number of successful extensions: 622
Number of sequences better than 100.0: 111
Number of HSP's better than 100.0 without gapping: 45
Number of HSP's successfully gapped in prelim test: 66
Number of HSP's that attempted gapping in prelim test: 513
Number of HSP's gapped (non-prelim): 155
length of query: 142
length of database: 14,973,337
effective HSP length: 89
effective length of query: 53
effective length of database: 9,403,895
effective search space: 498406435
effective search space used: 498406435
T: 11
A: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 46 (22.3 bits)