BLASTP 2.2.18 [Mar-02-2008]


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= 0045.0005.p
         (118 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BS_yurQ [L] COG0322 Nuclease subunit of the excinuclease complex      159   1e-39

>BS_yurQ [L] COG0322 Nuclease subunit of the excinuclease complex
          Length = 124

 Score =  159 bits (401), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 79/124 (63%), Positives = 96/124 (77%), Gaps = 6/124 (4%)

Query: 1   MISITIPAPDVTIMKQEN------PVLSHIYGFTDFHLITREKGGIFMFYNDKDELLFVG 54
           MI I IPAP+VTI +++       P +  I+GF DFH I R+KGGIFMFYN  DELLFVG
Sbjct: 1   MIKIDIPAPNVTITERQQSANDNEPKIKPIHGFIDFHQIPRDKGGIFMFYNIHDELLFVG 60

Query: 55  KARKLRPRIKKHFEDNVSVMKPHRDEVAKIEVCIIDDAVDREIYETYIVNKLRAKYNVEK 114
           KARKLR RIKKHFED VS +K HRDEV KIEVC++DD ++REIYETYI+N   +KYN++K
Sbjct: 61  KARKLRQRIKKHFEDTVSPIKHHRDEVYKIEVCVVDDPMEREIYETYIINTQHSKYNIDK 120

Query: 115 VLYK 118
           V +K
Sbjct: 121 VFFK 124


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.324    0.142    0.410 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 8,817,742
Number of extensions: 337257
Number of successful extensions: 533
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 535
Number of HSP's successfully gapped: 1
Length of query: 118
Length of database: 38,378,431
Length adjustment: 85
Effective length of query: 33
Effective length of database: 28,575,041
Effective search space: 942976353
Effective search space used: 942976353
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 109 (46.6 bits)