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= 004126
         (772 letters)

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

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



>pdb|3OQC|A Chain A, Ubiquitin-Fold Modifier 1 Specific Protease, Ufsp2
 pdb|3OQC|B Chain B, Ubiquitin-Fold Modifier 1 Specific Protease, Ufsp2
          Length = 481

 Score = 31.6 bits (70), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 17/46 (36%), Positives = 28/46 (60%), Gaps = 4/46 (8%)

Query: 409 AAKLGELTAIFEAKLNE----SLSGPVEALLDGANNETWPAIRKLL 450
           +  LG +T I EA+  E    ++S P++A++  A  E+W  +RKLL
Sbjct: 136 STPLGAVTPILEAENEEHHYINMSLPIDAVVSVAPEESWGKVRKLL 181


>pdb|1QLB|A Chain A, Respiratory Complex Ii-Like Fumarate Reductase From
           Wolinella Succinogenes
 pdb|1QLB|D Chain D, Respiratory Complex Ii-Like Fumarate Reductase From
           Wolinella Succinogenes
          Length = 656

 Score = 30.8 bits (68), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 24/39 (61%)

Query: 469 DMDEETKEKMLASLENYAKGVVEAKAREESGRVLMRMKD 507
           D++ +T EK +   E Y K +VE+K  E+  ++  RMKD
Sbjct: 434 DLETKTLEKFVKGQEAYMKSLVESKGTEDVFKIKNRMKD 472


>pdb|1E7P|A Chain A, Quinol:fumarate Reductase From Wolinella Succinogenes
 pdb|1E7P|D Chain D, Quinol:fumarate Reductase From Wolinella Succinogenes
 pdb|2BS3|A Chain A, Glu C180-> Gln Variant Quinol:fumarate Reductase From
           Wolinella Succinogenes
 pdb|2BS3|D Chain D, Glu C180-> Gln Variant Quinol:fumarate Reductase From
           Wolinella Succinogenes
 pdb|2BS4|A Chain A, Glu C180-> Ile Variant Quinol:fumarate Reductase From
           Wolinella Succinogenes
 pdb|2BS4|D Chain D, Glu C180-> Ile Variant Quinol:fumarate Reductase From
           Wolinella Succinogenes
 pdb|1E7P|G Chain G, Quinol:fumarate Reductase From Wolinella Succinogenes
 pdb|1E7P|J Chain J, Quinol:fumarate Reductase From Wolinella Succinogenes
          Length = 656

 Score = 30.8 bits (68), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 24/39 (61%)

Query: 469 DMDEETKEKMLASLENYAKGVVEAKAREESGRVLMRMKD 507
           D++ +T EK +   E Y K +VE+K  E+  ++  RMKD
Sbjct: 434 DLETKTLEKFVKGQEAYMKSLVESKGTEDVFKIKNRMKD 472


>pdb|2BS2|A Chain A, Quinol:fumarate Reductase From Wolinella Succinogenes
 pdb|2BS2|D Chain D, Quinol:fumarate Reductase From Wolinella Succinogenes
          Length = 660

 Score = 30.8 bits (68), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 24/39 (61%)

Query: 469 DMDEETKEKMLASLENYAKGVVEAKAREESGRVLMRMKD 507
           D++ +T EK +   E Y K +VE+K  E+  ++  RMKD
Sbjct: 434 DLETKTLEKFVKGQEAYMKSLVESKGTEDVFKIKNRMKD 472


  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
   0.318    0.132    0.390 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,585,835
Number of Sequences: 62578
Number of extensions: 789190
Number of successful extensions: 1760
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1757
Number of HSP's gapped (non-prelim): 5
length of query: 772
length of database: 14,973,337
effective HSP length: 106
effective length of query: 666
effective length of database: 8,340,069
effective search space: 5554485954
effective search space used: 5554485954
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: 55 (25.8 bits)