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= psy11496
         (607 letters)

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

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



>pdb|3EPH|A Chain A, Crystallographic Snapshots Of Eukaryotic
           Dimethylallyltransferase Acting On Trna: Insight Into
           Trna Recognition And Reaction Mechanism
 pdb|3EPH|B Chain B, Crystallographic Snapshots Of Eukaryotic
           Dimethylallyltransferase Acting On Trna: Insight Into
           Trna Recognition And Reaction Mechanism
 pdb|3EPJ|A Chain A, Crystallographic Snapshots Of Eukaryotic
           Dimethylallyltransferase Acting On Trna: Insight Into
           Trna Recognition And Reaction Mechanism
 pdb|3EPJ|B Chain B, Crystallographic Snapshots Of Eukaryotic
           Dimethylallyltransferase Acting On Trna: Insight Into
           Trna Recognition And Reaction Mechanism
 pdb|3EPK|A Chain A, Crystallographic Snapshots Of Eukaryotic
           Dimethylallyltransferase Acting On Trna: Insight Into
           Trna Recognition And Reaction Mechanism
 pdb|3EPK|B Chain B, Crystallographic Snapshots Of Eukaryotic
           Dimethylallyltransferase Acting On Trna: Insight Into
           Trna Recognition And Reaction Mechanism
 pdb|3EPL|A Chain A, Crystallographic Snapshots Of Eukaryotic
           Dimethylallyltransferase Acting On Trna: Insight Into
           Trna Recognition And Reaction Mechanism
 pdb|3EPL|B Chain B, Crystallographic Snapshots Of Eukaryotic
           Dimethylallyltransferase Acting On Trna: Insight Into
           Trna Recognition And Reaction Mechanism
          Length = 409

 Score = 30.8 bits (68), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 4/51 (7%)

Query: 468 IIANMLRNCSGPQRQRLLSKFTENDHEKVDRLLELHFKYLSKVDEADKEQR 518
           +I N L  C       + +K+  ND+ +V R+LE+++K   K  E   EQ+
Sbjct: 136 VIYNTLVKCDPD----IATKYHPNDYRRVQRMLEIYYKTGKKPSETFNEQK 182


>pdb|3C6F|A Chain A, Crystal Structure Of Protein Bsu07140 From Bacillus
           Subtilis
 pdb|3C6F|B Chain B, Crystal Structure Of Protein Bsu07140 From Bacillus
           Subtilis
 pdb|3C6F|C Chain C, Crystal Structure Of Protein Bsu07140 From Bacillus
           Subtilis
 pdb|3C6F|D Chain D, Crystal Structure Of Protein Bsu07140 From Bacillus
           Subtilis
          Length = 153

 Score = 28.9 bits (63), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 37/68 (54%), Gaps = 8/68 (11%)

Query: 480 QRQRLLSKFTENDHEKVDRLLELHFKYLSKVDEADKEQRDEDEDENYLRRLEAGLFTLQL 539
           Q+ +   KF E +   V R  EL +K + K       + D ++ ++ LR  +AG F++Q 
Sbjct: 3   QKMKSSRKFLEGEPNIVIRKGELQYKVMKK------NKIDINQLQSMLR--QAGSFSIQE 54

Query: 540 VDYIIVET 547
           V+Y I+ET
Sbjct: 55  VEYAIMET 62


  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
   0.318    0.135    0.379 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,788,217
Number of Sequences: 62578
Number of extensions: 547630
Number of successful extensions: 1304
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1300
Number of HSP's gapped (non-prelim): 18
length of query: 607
length of database: 14,973,337
effective HSP length: 104
effective length of query: 503
effective length of database: 8,465,225
effective search space: 4258008175
effective search space used: 4258008175
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: 54 (25.4 bits)