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= psy11389
         (73 letters)

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

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



>pdb|3G5W|A Chain A, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
           Europaea
 pdb|3G5W|B Chain B, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
           Europaea
 pdb|3G5W|C Chain C, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
           Europaea
 pdb|3G5W|D Chain D, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
           Europaea
 pdb|3G5W|E Chain E, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
           Europaea
 pdb|3G5W|F Chain F, Crystal Structure Of Blue Copper Oxidase From Nitrosomonas
           Europaea
          Length = 318

 Score = 26.9 bits (58), Expect = 2.8,   Method: Composition-based stats.
 Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 11/57 (19%)

Query: 20  HCGIKGNEIVDVAAR------NPTNATPLNLCTPEDFKPFVASLMNSEWQSQWDNVP 70
           HC +  NE V +          P N  P+     +D+      LM S+W S W N P
Sbjct: 103 HCHVNVNEHVTMRGMWGPLIVEPKNPLPIEKTVTKDY-----ILMLSDWVSSWANKP 154


>pdb|1S9U|A Chain A, Atomic Structure Of A Putative Anaerobic Dehydrogenase
          Component
          Length = 207

 Score = 25.0 bits (53), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 8/15 (53%), Positives = 12/15 (80%)

Query: 52 PFVASLMNSEWQSQW 66
          P V +L+N +WQ+QW
Sbjct: 35 PLVQALLNDDWQAQW 49


  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
   0.317    0.133    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,619,461
Number of Sequences: 62578
Number of extensions: 88945
Number of successful extensions: 181
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 180
Number of HSP's gapped (non-prelim): 2
length of query: 73
length of database: 14,973,337
effective HSP length: 43
effective length of query: 30
effective length of database: 12,282,483
effective search space: 368474490
effective search space used: 368474490
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: 45 (21.9 bits)