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= psy4075
         (67 letters)

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

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



>pdb|3G36|A Chain A, Crystal Structure Of The Human Dpy-30-Like C-Terminal
          Domain
 pdb|3G36|B Chain B, Crystal Structure Of The Human Dpy-30-Like C-Terminal
          Domain
 pdb|3G36|C Chain C, Crystal Structure Of The Human Dpy-30-Like C-Terminal
          Domain
 pdb|3G36|D Chain D, Crystal Structure Of The Human Dpy-30-Like C-Terminal
          Domain
          Length = 55

 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/32 (65%), Positives = 24/32 (75%)

Query: 36 RLDLHALPTRQYLDQTVVPILLAALTQLTKER 67
          ++DL +LPTR YLDQTVVPILL     L KER
Sbjct: 1  KVDLQSLPTRAYLDQTVVPILLQGXAVLAKER 32


>pdb|3U1T|A Chain A, Haloalkane Dehalogenase, Dmma, Of Marine Microbial
          Origin
 pdb|3U1T|B Chain B, Haloalkane Dehalogenase, Dmma, Of Marine Microbial
          Origin
          Length = 309

 Score = 26.6 bits (57), Expect = 4.0,   Method: Composition-based stats.
 Identities = 12/29 (41%), Positives = 18/29 (62%)

Query: 31 GLKKPRLDLHALPTRQYLDQTVVPILLAA 59
          G  +P L LH  PT  YL + ++P ++AA
Sbjct: 27 GSGQPVLFLHGNPTSSYLWRNIIPYVVAA 55


  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
   0.310    0.131    0.358 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,080,890
Number of Sequences: 62578
Number of extensions: 70983
Number of successful extensions: 93
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 91
Number of HSP's gapped (non-prelim): 2
length of query: 67
length of database: 14,973,337
effective HSP length: 38
effective length of query: 29
effective length of database: 12,595,373
effective search space: 365265817
effective search space used: 365265817
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 45 (21.9 bits)