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= 0002.0055.p
         (258 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313358|ref|YP_003777450.1| multidrug ABC transporter perme...    62   3e-11

>gi|300313358|ref|YP_003777450.1| multidrug ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 254

 Score = 62.4 bits (150), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 59/238 (24%), Positives = 106/238 (44%), Gaps = 13/238 (5%)

Query: 14  FYPIWRRNFLVWRKLMAASIIGNIAEPLITLIAFGYGLGSILKEIDGIPYIHYLASGSIC 73
           F  ++ +  L + K+   +I   I   L+ L+ FG+ L   ++   G+ Y  +L  G + 
Sbjct: 4   FRTLFYKEILRFWKVATQTITAPIVTALLYLLIFGHVLQDRVQVYPGVNYTGFLVPGLVM 63

Query: 74  MSVMTAASFEALYSAYSRMSVQRTWDALMNAPLALDDIVLAELLWSATKSLFSGVAILCV 133
           MSV+  A F    S+  +  +      ++  PL+  ++    +L +  + L  G  +  V
Sbjct: 64  MSVLQNA-FANSSSSLIQSKITGNLVFVLLTPLSHWELFGGYVLAAVVRGLMVGAGVFVV 122

Query: 134 MFALGIGLHPQVLLVPPVLFL------AGMTFGALGLITNALAKGYDFFTYYFTLVLTPM 187
               G      +  V P+  L      AG+  G +GLI    A+ +D    +   ++ P+
Sbjct: 123 TVWFG-----HLDFVAPLWILVFALLGAGI-LGTMGLIAGIWAEKFDQLAAFQNFLIVPL 176

Query: 188 TFLSGVYYPVAQLPSWLQTVSQFLPLSAAVNLVRPLVLGGWPQAPLLDLAVLAFYCCA 245
           TFL+GV+Y +  LP + Q VS F P    ++  R    G    AP+  L ++A +  A
Sbjct: 177 TFLAGVFYSIHSLPPFWQAVSHFNPFFYMIDGFRYGFFGQSDIAPMTSLGIVAVFFVA 234


  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
   0.330    0.143    0.452 

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: 763,480
Number of extensions: 29560
Number of successful extensions: 113
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 112
Number of HSP's successfully gapped: 1
Length of query: 258
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 175
Effective length of database: 1,226,865
Effective search space: 214701375
Effective search space used: 214701375
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 (21.9 bits)
S2: 129 (54.3 bits)