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= 0001.0272.p
         (135 letters)

Database: BlastDatabases/707/707 
           3697 sequences; 1,221,021 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|152980805|ref|YP_001354155.1| biopolymer transport protein To...    54   4e-09

>gi|152980805|ref|YP_001354155.1| biopolymer transport protein TolR
           [Janthinobacterium sp. Marseille]
          Length = 146

 Score = 53.5 bits (127), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 68/133 (51%), Gaps = 7/133 (5%)

Query: 8   KKRKARVEIIPMIDVMMFLLVFFVLISLNVIPAL-----GLKTQLPSSSTAQ-DLKPQTK 61
           +K K+ + ++P IDVM+ LLV F++ +    P +       K+ LP +   + DL+P T 
Sbjct: 14  RKFKSEINVVPYIDVMLVLLVIFMVAAPLTNPGVINLPNAAKSTLPPTEYIRIDLRPDTS 73

Query: 62  AIITIAKDDVIQVDGEN-TNLDGLTAHLDKLRKEGEKLNLIINSDRGVEVQRLVDVMDTL 120
           A +TIA     +   E   N   L   L  +  +  +L ++I++D+ ++   ++  +   
Sbjct: 74  ATLTIAGSKGGKAPTETAANRAALAQKLQAIHADRPELPVMISADKNIKYDEVIQAISEA 133

Query: 121 KKGGFDSISIATR 133
           KK G + + +AT+
Sbjct: 134 KKLGIERVGLATK 146


  Database: BlastDatabases/707/707
    Posted date:  Apr 13, 2011 12:58 PM
  Number of letters in database: 1,221,021
  Number of sequences in database:  3697
  
Lambda     K      H
   0.319    0.136    0.372 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3697
Number of Hits to DB: 290,787
Number of extensions: 10749
Number of successful extensions: 57
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 57
Number of HSP's successfully gapped: 2
Length of query: 135
Length of database: 1,221,021
Length adjustment: 74
Effective length of query: 61
Effective length of database: 947,443
Effective search space: 57794023
Effective search space used: 57794023
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 124 (52.4 bits)