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= psy9115
         (96 letters)

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

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



>pdb|3CX3|A Chain A, Crystal Structure Analysis Of The Streptococcus Pneumoniae
           Adcaii Protein
 pdb|3CX3|B Chain B, Crystal Structure Analysis Of The Streptococcus Pneumoniae
           Adcaii Protein
          Length = 284

 Score = 28.1 bits (61), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 13/36 (36%), Positives = 20/36 (55%)

Query: 24  VTKEHRESLSKNAKALFVKCKENIRDIQNKYTKTVK 59
           V  EH+E+  KNA+A   K +E  +  Q K+ K  +
Sbjct: 142 VDSEHKETYQKNAQAFIKKAQELTKKFQPKFEKATQ 177


>pdb|3BQ0|A Chain A, Pre-insertion Binary Complex Of Dbh Dna Polymerase
 pdb|3BQ1|A Chain A, Insertion Ternary Complex Of Dbh Dna Polymerase
 pdb|3BQ2|A Chain A, Post-Insertion Binary Complex Of Dbh Dna Polymerase
 pdb|4HYK|A Chain A, Dbh Ternary Complex (substrates Partially Disordered)
          Length = 354

 Score = 25.4 bits (54), Expect = 7.5,   Method: Composition-based stats.
 Identities = 13/34 (38%), Positives = 22/34 (64%), Gaps = 5/34 (14%)

Query: 30  ESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEK 63
           E ++  AKAL++     ++  QNKY++ V+NK K
Sbjct: 215 EKITGKAKALYL-----LKLAQNKYSEPVENKSK 243


>pdb|1K1Q|A Chain A, Crystal Structure Of A Dinb Family Error Prone Dna
           Polymerase From Sulfolobus Solfataricus
 pdb|1K1Q|B Chain B, Crystal Structure Of A Dinb Family Error Prone Dna
           Polymerase From Sulfolobus Solfataricus
 pdb|1K1S|A Chain A, Crystal Structure Of Dinb From Sulfolobus Solfataricus
          Length = 354

 Score = 25.4 bits (54), Expect = 7.7,   Method: Composition-based stats.
 Identities = 13/34 (38%), Positives = 22/34 (64%), Gaps = 5/34 (14%)

Query: 30  ESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEK 63
           E ++  AKAL++     ++  QNKY++ V+NK K
Sbjct: 215 EKITGKAKALYL-----LKLAQNKYSEPVENKSK 243


>pdb|3TCM|A Chain A, Crystal Structure Of Alanine Aminotransferase From Hordeum
           Vulgare
 pdb|3TCM|B Chain B, Crystal Structure Of Alanine Aminotransferase From Hordeum
           Vulgare
          Length = 500

 Score = 25.4 bits (54), Expect = 8.5,   Method: Composition-based stats.
 Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)

Query: 44  KENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQSAFESYHG 86
           +ENI  + NK   + K   +S G  ++D+  VS QS  + Y+G
Sbjct: 280 QENIY-VDNKKFHSFKKIVRSLGYGEEDLPLVSYQSVSKGYYG 321


>pdb|4GFQ|A Chain A, 2.65 Angstrom Resolution Crystal Structure Of Ribosome
           Recycling Factor (Frr) From Bacillus Anthracis
          Length = 209

 Score = 25.4 bits (54), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 15/54 (27%), Positives = 29/54 (53%)

Query: 24  VTKEHRESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSE 77
           +T+E R  L K  K    + K  +R+++      +K  EK+  +++DD+R  +E
Sbjct: 129 LTEERRRDLVKVVKKYAEEAKVAVRNVRRDGNDDLKKLEKAGEITEDDLRGYTE 182


  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
   0.312    0.128    0.358 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,565,670
Number of Sequences: 62578
Number of extensions: 76564
Number of successful extensions: 234
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 217
Number of HSP's gapped (non-prelim): 23
length of query: 96
length of database: 14,973,337
effective HSP length: 62
effective length of query: 34
effective length of database: 11,093,501
effective search space: 377179034
effective search space used: 377179034
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)