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= 0006.0009.p
         (356 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311834|ref|YP_003775926.1| amino acid transporter permease...   629   0.0  

>gi|300311834|ref|YP_003775926.1| amino acid transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 460

 Score =  629 bits (1622), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 314/340 (92%), Positives = 328/340 (96%)

Query: 1   MDSATSSKHAGLKPVLSTLQLWGIAVGLVISGEYFGWSYGWASAGTLGFTVTALFIAAMY 60
           M++++S +   LKPVLSTLQLW IAVGLVISGEYFGWSYGWASAGTLGFTVTALFIAAMY
Sbjct: 1   MNASSSGQGHTLKPVLSTLQLWAIAVGLVISGEYFGWSYGWASAGTLGFTVTALFIAAMY 60

Query: 61  TTFIFSFTELTTSIPHAGGPFAYSKRAFGPTGGYLAGAATLIEFVFAPPAIALAIGAYLN 120
            TFIFSFTELTTSIPHAGGPFAYSKRAFGP GGYLAGAATLIEFVFAPPAIALAIGAYLN
Sbjct: 61  ATFIFSFTELTTSIPHAGGPFAYSKRAFGPVGGYLAGAATLIEFVFAPPAIALAIGAYLN 120

Query: 121 VQFPTVDPKLAALGAYLVFMTLNIVGVQIAATFELCVTLLAIFELLVFMGVVSPGFSLAN 180
           VQFP +DPKLAALGAYLVFMTLNIVGVQIAATFEL VTLLAIFELLVFMGVV+PGFSLAN
Sbjct: 121 VQFPNIDPKLAALGAYLVFMTLNIVGVQIAATFELFVTLLAIFELLVFMGVVAPGFSLAN 180

Query: 181 FTKGGWSGSDSFSLASIPGMFAAIPFAIWFFLAIEGVAMAAEEARDPRRSIPIAYITGIL 240
           FTKGGWSGSD FSLA++PGMFAAIPFAIWFFLAIEGVAMAAEEA+DPRRSIPIAYITGIL
Sbjct: 181 FTKGGWSGSDGFSLAAVPGMFAAIPFAIWFFLAIEGVAMAAEEAKDPRRSIPIAYITGIL 240

Query: 241 TLVVLAIGVMLFAGGAGDWSKLSNINDPLPQAMKLIVGANSNWLHMLVWLGLFGLVASFH 300
           TLVVLAIGVMLFAGGAGDW+KL+NINDPLPQAMKLIVG NSNWLHMLVWLGLFGLVASFH
Sbjct: 241 TLVVLAIGVMLFAGGAGDWTKLANINDPLPQAMKLIVGDNSNWLHMLVWLGLFGLVASFH 300

Query: 301 GIILGYSRQIFALSREAYLPAYFAKVHPRFKTPHRAILAG 340
           GIILGYSRQIFAL+RE YLPAYFA+VHPRFKTPHRAILAG
Sbjct: 301 GIILGYSRQIFALAREGYLPAYFARVHPRFKTPHRAILAG 340


  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
   0.326    0.139    0.429 

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: 1,158,807
Number of extensions: 51356
Number of successful extensions: 204
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 204
Number of HSP's successfully gapped: 3
Length of query: 356
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 270
Effective length of database: 1,212,660
Effective search space: 327418200
Effective search space used: 327418200
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: 40 (21.6 bits)
S2: 131 (55.1 bits)