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= 039270
         (131 letters)

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

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



>pdb|2YZH|A Chain A, Crystal Structure Of Peroxiredoxin-Like Protein From
           Aquifex Aeolicus
 pdb|2YZH|B Chain B, Crystal Structure Of Peroxiredoxin-Like Protein From
           Aquifex Aeolicus
 pdb|2YZH|C Chain C, Crystal Structure Of Peroxiredoxin-Like Protein From
           Aquifex Aeolicus
 pdb|2YZH|D Chain D, Crystal Structure Of Peroxiredoxin-Like Protein From
           Aquifex Aeolicus
          Length = 171

 Score = 32.7 bits (73), Expect = 0.060,   Method: Compositional matrix adjust.
 Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 2/47 (4%)

Query: 76  MSEQFYSTRKCTNVNLILQGVSVIVDFNLRDLEGYDVVLGTQWLRTL 122
           M   F   R C + N+  Q V+V  DF  RD+E Y V++G   L+ +
Sbjct: 87  MDLPFAQKRFCESFNI--QNVTVASDFRYRDMEKYGVLIGEGALKGI 131


>pdb|2CTQ|A Chain A, Solution Structure Of J-Domain From Human Dnaj Subfamily C
           Menber 12
          Length = 112

 Score = 27.3 bits (59), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 12/35 (34%), Positives = 20/35 (57%)

Query: 95  GVSVIVDFNLRDLEGYDVVLGTQWLRTLEPILWDF 129
           G+  I+++   D E Y  +LG   L ++E IL +F
Sbjct: 7   GMDAILNYRSEDTEDYYTLLGCDELSSVEQILAEF 41


>pdb|3UQY|L Chain L, H2-Reduced Structure Of E. Coli Hydrogenase-1
 pdb|3UQY|M Chain M, H2-Reduced Structure Of E. Coli Hydrogenase-1
 pdb|3USC|L Chain L, Crystal Structure Of E. Coli Hydrogenase-1 In A
           Ferricyanide-Oxidized Form
 pdb|3USC|M Chain M, Crystal Structure Of E. Coli Hydrogenase-1 In A
           Ferricyanide-Oxidized Form
 pdb|3USE|L Chain L, Crystal Structure Of E. Coli Hydrogenase-1 In Its
           As-Isolated Form
 pdb|3USE|M Chain M, Crystal Structure Of E. Coli Hydrogenase-1 In Its
           As-Isolated Form
 pdb|4GD3|L Chain L, Structure Of E. Coli Hydrogenase-1 In Complex With
           Cytochrome B
 pdb|4GD3|M Chain M, Structure Of E. Coli Hydrogenase-1 In Complex With
           Cytochrome B
 pdb|4GD3|J Chain J, Structure Of E. Coli Hydrogenase-1 In Complex With
           Cytochrome B
 pdb|4GD3|K Chain K, Structure Of E. Coli Hydrogenase-1 In Complex With
           Cytochrome B
          Length = 582

 Score = 25.8 bits (55), Expect = 8.0,   Method: Composition-based stats.
 Identities = 10/28 (35%), Positives = 15/28 (53%)

Query: 54  INGRIGNISPIVLVDSGSTRNFMSEQFY 81
           ING   N+ P+ LVD    + F+   +Y
Sbjct: 327 INGDFNNVLPVDLVDPQQVQEFVDHAWY 354


  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
   0.319    0.133    0.380 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,407,369
Number of Sequences: 62578
Number of extensions: 108720
Number of successful extensions: 179
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 176
Number of HSP's gapped (non-prelim): 4
length of query: 131
length of database: 14,973,337
effective HSP length: 88
effective length of query: 43
effective length of database: 9,466,473
effective search space: 407058339
effective search space used: 407058339
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 46 (22.3 bits)