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= 039590
         (379 letters)

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

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



>pdb|2NX2|A Chain A, Crystal Structure Of Protein Ypsa From Bacillus Subtilis,
           Pfam Duf1273
          Length = 181

 Score = 31.6 bits (70), Expect = 0.79,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 18/29 (62%)

Query: 303 QRPLGFWKKGAFFVVSTSGHLLLYDPNTQ 331
           + PL F +K  FF+  + G LLLYDP  +
Sbjct: 115 ESPLQFKQKNQFFIDKSDGLLLLYDPEKE 143


>pdb|1B54|A Chain A, Crystal Structure Of A Yeast Hypothetical Protein-A
           Structure From Bnl's Human Proteome Project
          Length = 257

 Score = 28.9 bits (63), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 22/85 (25%), Positives = 36/85 (42%), Gaps = 2/85 (2%)

Query: 296 VGPFVGVQRPLGFWKKGAFFVVSTSGHLLLYDPNTQEMRDLGVTCFDVSVHMYKESLIR- 354
           +  +  V+  +    K      + S  LLL     +   D+ +  +D  V  + E+ ++ 
Sbjct: 16  IAQYESVREVVNAEAKNVHVNENASKILLLVVSKLKPASDIQI-LYDHGVREFGENYVQE 74

Query: 355 LKGGDNLLDFDIPWHVLGVYQTNSC 379
           L     LL  DI WH +G  QTN C
Sbjct: 75  LIEKAKLLPDDIKWHFIGGLQTNKC 99


>pdb|1CT5|A Chain A, Crystal Structure Of Yeast Hypothetical Protein
           Ybl036c-Selenomet Crystal
          Length = 256

 Score = 28.9 bits (63), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 22/85 (25%), Positives = 36/85 (42%), Gaps = 2/85 (2%)

Query: 296 VGPFVGVQRPLGFWKKGAFFVVSTSGHLLLYDPNTQEMRDLGVTCFDVSVHMYKESLIR- 354
           +  +  V+  +    K      + S  LLL     +   D+ +  +D  V  + E+ ++ 
Sbjct: 15  IAQYESVREVVNAEAKNVHVNENASKILLLVVSKLKPASDIQI-LYDHGVREFGENYVQE 73

Query: 355 LKGGDNLLDFDIPWHVLGVYQTNSC 379
           L     LL  DI WH +G  QTN C
Sbjct: 74  LIEKAKLLPDDIKWHFIGGLQTNKC 98


  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
   0.325    0.141    0.465 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,241,548
Number of Sequences: 62578
Number of extensions: 529316
Number of successful extensions: 1335
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1333
Number of HSP's gapped (non-prelim): 8
length of query: 379
length of database: 14,973,337
effective HSP length: 100
effective length of query: 279
effective length of database: 8,715,537
effective search space: 2431634823
effective search space used: 2431634823
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: 52 (24.6 bits)