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= 0002.0099.p
         (354 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312452|ref|YP_003776544.1| permease [Herbaspirillum serope...   680   0.0  

>gi|300312452|ref|YP_003776544.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 354

 Score =  680 bits (1755), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 349/354 (98%), Positives = 350/354 (98%)

Query: 1   MSSFSSPTPTNKTSAWLKPLLFVLVAAVGLYYVKWSPYYAKSFVAADKHSIGASILANAP 60
           MSSFSSPTPTNKTSAWLK LLF LVAAVGLYYVKWSPYYAKSFVAADKHSIGASILANAP
Sbjct: 1   MSSFSSPTPTNKTSAWLKTLLFALVAAVGLYYVKWSPYYAKSFVAADKHSIGASILANAP 60

Query: 61  AAPWSAALEYAEIYFLAIWKAAVLGIVLGSLVQVLIPRDWLLRMFGRAGLGATLRGGLFA 120
           AAPWSAALEYAEIYFLAIWKAAVLGIVLGSLVQVLIPRDWLLRMFGRAGLG+TLRGGLFA
Sbjct: 61  AAPWSAALEYAEIYFLAIWKAAVLGIVLGSLVQVLIPRDWLLRMFGRAGLGSTLRGGLFA 120

Query: 121 LPGMMCSCCAAPVVAGMRRQQVSVGAALAFWIANPVLNPATLVFMGFVLGWHFAALRLVA 180
           LPGMMCSCCAAPVVAGMRRQQVSVGAALAFWIANPVLNPATLVFMGFVLGWHFAALRLVA
Sbjct: 121 LPGMMCSCCAAPVVAGMRRQQVSVGAALAFWIANPVLNPATLVFMGFVLGWHFAALRLVA 180

Query: 181 GILLVLGVALIAQRVAQSETLPQAAMDALAATEYEPLEDGRHFLVRWGSKLWQLFWTTAP 240
           GILLVLGVALIAQRVAQSETLPQAAMDALAA EYEPLEDGRHFLVRWGSKLWQLFWTTAP
Sbjct: 181 GILLVLGVALIAQRVAQSETLPQAAMDALAAAEYEPLEDGRHFLVRWGSKLWQLFWTTAP 240

Query: 241 VYIVAVLALGAARVWLFPQVDAAMGNSLLWIVALAVVGTLFVIPTAAEIPIVQSMLSLGM 300
           VYIVAVLALGAARVWLFPQVD AMGNSLLWIVALAVVGTLFVIPTAAEIPIVQSMLSLGM
Sbjct: 241 VYIVAVLALGAARVWLFPQVDVAMGNSLLWIVALAVVGTLFVIPTAAEIPIVQSMLSLGM 300

Query: 301 GVGPAVALLMTLPSISLPSLLMLRHSFTSRVLTTVTLLTMLIGAASGLAAVALL 354
           GVGPAVALLMTLPSISLPSLLMLRHSFTSRVLTTVTLLTMLIGAASGLAAVALL
Sbjct: 301 GVGPAVALLMTLPSISLPSLLMLRHSFTSRVLTTVTLLTMLIGAASGLAAVALL 354


  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
   0.327    0.137    0.425 

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: 899,949
Number of extensions: 31916
Number of successful extensions: 198
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 198
Number of HSP's successfully gapped: 1
Length of query: 354
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 268
Effective length of database: 1,212,660
Effective search space: 324992880
Effective search space used: 324992880
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 (21.7 bits)
S2: 131 (55.1 bits)