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= psy1009
         (129 letters)

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

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



>pdb|2IXG|A Chain A, Crystal Structure Of The Atpase Domain Of Tap1 With Atp
           (S621a, G622v, D645n Mutant)
          Length = 271

 Score = 26.6 bits (57), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 12/40 (30%), Positives = 21/40 (52%)

Query: 18  RPRKEYIRDVETAMGYQNYMELKRLAQNRNEWRRRTKLLL 57
           +PR   + +  +A+   N + ++RL     EW  RT LL+
Sbjct: 174 KPRLLILDNATSALDAGNQLRVQRLLYESPEWASRTVLLI 213


>pdb|2IXE|A Chain A, Crystal Structure Of The Atpase Domain Of Tap1 With Atp
           (d645n Mutant)
 pdb|2IXE|D Chain D, Crystal Structure Of The Atpase Domain Of Tap1 With Atp
           (d645n Mutant)
          Length = 271

 Score = 26.6 bits (57), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 12/40 (30%), Positives = 21/40 (52%)

Query: 18  RPRKEYIRDVETAMGYQNYMELKRLAQNRNEWRRRTKLLL 57
           +PR   + +  +A+   N + ++RL     EW  RT LL+
Sbjct: 174 KPRLLILDNATSALDAGNQLRVQRLLYESPEWASRTVLLI 213


>pdb|2IXF|A Chain A, Crystal Structure Of The Atpase Domain Of Tap1 With Atp
           (D645q, Q678h Mutant)
 pdb|2IXF|B Chain B, Crystal Structure Of The Atpase Domain Of Tap1 With Atp
           (D645q, Q678h Mutant)
 pdb|2IXF|C Chain C, Crystal Structure Of The Atpase Domain Of Tap1 With Atp
           (D645q, Q678h Mutant)
 pdb|2IXF|D Chain D, Crystal Structure Of The Atpase Domain Of Tap1 With Atp
           (D645q, Q678h Mutant)
          Length = 271

 Score = 25.8 bits (55), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 12/40 (30%), Positives = 20/40 (50%)

Query: 18  RPRKEYIRDVETAMGYQNYMELKRLAQNRNEWRRRTKLLL 57
           +PR   +    +A+   N + ++RL     EW  RT LL+
Sbjct: 174 KPRLLILDQATSALDAGNQLRVQRLLYESPEWASRTVLLI 213


>pdb|3TCS|A Chain A, Crystal Structure Of A Putative Racemase From Roseobacter
           Denitrificans
 pdb|3TCS|B Chain B, Crystal Structure Of A Putative Racemase From Roseobacter
           Denitrificans
          Length = 388

 Score = 25.4 bits (54), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 9/21 (42%), Positives = 16/21 (76%)

Query: 42  LAQNRNEWRRRTKLLLPTNRQ 62
           + +NR+EW  RT+ ++PT R+
Sbjct: 174 VGRNRDEWPGRTEEIIPTMRR 194


  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
   0.324    0.138    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,612,502
Number of Sequences: 62578
Number of extensions: 122824
Number of successful extensions: 328
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 324
Number of HSP's gapped (non-prelim): 4
length of query: 129
length of database: 14,973,337
effective HSP length: 88
effective length of query: 41
effective length of database: 9,466,473
effective search space: 388125393
effective search space used: 388125393
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)