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= 033888
         (109 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|B9L7B0|SYS_NAUPA Serine--tRNA ligase OS=Nautilia profundicola (strain ATCC BAA-1463
           / DSM 18972 / AmH) GN=serS PE=3 SV=1
          Length = 416

 Score = 29.3 bits (64), Expect = 8.0,   Method: Composition-based stats.
 Identities = 13/42 (30%), Positives = 27/42 (64%)

Query: 52  GQKYRIHDLQEDTSALKEEQESLTNRMNNIKHSLLHEASLEP 93
           G+K +  +++++ ++LKEE   L  ++  I+ SLL +A + P
Sbjct: 66  GEKDKAEEIKKEVNSLKEEISVLEEKLKTIEDSLLQKALVIP 107


>sp|B2S1W7|GREA_TREPS Transcription elongation factor GreA OS=Treponema pallidum subsp.
           pallidum (strain SS14) GN=greA PE=3 SV=1
          Length = 162

 Score = 29.3 bits (64), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 2/55 (3%)

Query: 49  RSLGQKYRIHDLQEDTS--ALKEEQESLTNRMNNIKHSLLHEASLEPTGLFASRL 101
           R +G+   + DL+E+    A +EEQ  L N +  ++  +      +PT + A R+
Sbjct: 34  REIGRALELGDLRENAEYKAAREEQTRLNNMVTRLQEEIERAQVFDPTTVVAGRV 88


>sp|O83063|GREA_TREPA Transcription elongation factor GreA OS=Treponema pallidum (strain
           Nichols) GN=greA PE=3 SV=1
          Length = 162

 Score = 29.3 bits (64), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 2/55 (3%)

Query: 49  RSLGQKYRIHDLQEDTS--ALKEEQESLTNRMNNIKHSLLHEASLEPTGLFASRL 101
           R +G+   + DL+E+    A +EEQ  L N +  ++  +      +PT + A R+
Sbjct: 34  REIGRALELGDLRENAEYKAAREEQTRLNNMVTRLQEEIERAQVFDPTTVVAGRV 88


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.313    0.126    0.338 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 33,728,850
Number of Sequences: 539616
Number of extensions: 1029265
Number of successful extensions: 3255
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 3249
Number of HSP's gapped (non-prelim): 12
length of query: 109
length of database: 191,569,459
effective HSP length: 77
effective length of query: 32
effective length of database: 150,019,027
effective search space: 4800608864
effective search space used: 4800608864
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.8 bits)