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= psy5433
         (100 letters)

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

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



>pdb|2IU6|A Chain A, Regulation Of The Dha Operon Of Lactococcus Lactis
 pdb|2IU6|B Chain B, Regulation Of The Dha Operon Of Lactococcus Lactis
          Length = 336

 Score = 26.2 bits (56), Expect = 5.0,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 22/48 (45%)

Query: 18  VNNKQRQALDYSESLKQKYAHHPQIRRIARHRQVPRHIYNAQAEHRAI 65
           + N +    +++E++K+       +R I  H  +  + YN    HR +
Sbjct: 101 IKNFEADLKEFNEAIKEARTEGIDVRYIVSHDDISVNAYNFHKRHRGV 148


>pdb|2IU4|A Chain A, Dihydroxyacetone Kinase Operon Co-Activator Dha-Dhaq
 pdb|2IU4|B Chain B, Dihydroxyacetone Kinase Operon Co-Activator Dha-Dhaq
          Length = 336

 Score = 26.2 bits (56), Expect = 5.0,   Method: Composition-based stats.
 Identities = 10/48 (20%), Positives = 22/48 (45%)

Query: 18  VNNKQRQALDYSESLKQKYAHHPQIRRIARHRQVPRHIYNAQAEHRAI 65
           + N +    +++E++K+       +R I  H  +  + YN    HR +
Sbjct: 101 IKNFEADLKEFNEAIKEARTEGIDVRYIVSHDDISVNAYNFHKRHRGV 148


  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    0.127    0.370 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,868,406
Number of Sequences: 62578
Number of extensions: 87084
Number of successful extensions: 283
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 275
Number of HSP's gapped (non-prelim): 16
length of query: 100
length of database: 14,973,337
effective HSP length: 66
effective length of query: 34
effective length of database: 10,843,189
effective search space: 368668426
effective search space used: 368668426
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: 45 (21.9 bits)