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= 0169.0007.p
         (245 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312304|ref|YP_003776396.1| permease [Herbaspirillum serope...   240   9e-65

>gi|300312304|ref|YP_003776396.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 260

 Score =  240 bits (612), Expect = 9e-65,   Method: Compositional matrix adjust.
 Identities = 140/217 (64%), Positives = 164/217 (75%)

Query: 1   LAGFVKGVVGLGLPTVAVGLLGLFMPPLQAAALLIVPSLVTNVWQLLAGGRFLWLLRRLW 60
           LAGFVKG +GLGLPTVAVGLL L MPP+QAA LLIVPS+VTN WQLL GG    L+RRLW
Sbjct: 24  LAGFVKGSIGLGLPTVAVGLLSLMMPPVQAAPLLIVPSMVTNGWQLLTGGALRALVRRLW 83

Query: 61  LMLLGIVAGTLLGANFMAPDASGRATVFLGVALVAYAVLGLAAIRFSVSAGREKTWSPLI 120
            +L GIV GTL G +FM  D   RA + LG+ALV YA+ GLA+   SVS  +E+ WSP +
Sbjct: 84  TLLAGIVLGTLAGGSFMNADGGRRAIIVLGLALVLYALAGLASWTPSVSPAQEQWWSPAV 143

Query: 121 GLITGLVTAATAVFVIPAVPYLQALNLEKDELIQALGLSFTVSTIAMAIGLAQGGALQME 180
           GL TGLVTAAT VFVIPAVPYLQAL L +++LIQALGLSFTVST+A+A+ L QGGA    
Sbjct: 144 GLATGLVTAATGVFVIPAVPYLQALGLPREQLIQALGLSFTVSTLALAVNLGQGGAFSGG 203

Query: 181 GAAISVMALLPALGGMFIGQWMRGKISATLFRRCFFI 217
               S++ LLPAL GM IG  +RG++ A  FRRCFFI
Sbjct: 204 VGWASLVLLLPALLGMSIGARVRGRVQAVTFRRCFFI 240


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.329    0.143    0.428 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 593,932
Number of extensions: 19953
Number of successful extensions: 143
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 143
Number of HSP's successfully gapped: 1
Length of query: 245
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 162
Effective length of database: 1,226,865
Effective search space: 198752130
Effective search space used: 198752130
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 129 (54.3 bits)