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= 0006.0039.p
         (311 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300314041|ref|YP_003778133.1| transporter permease [Herbaspir...   519   e-148

>gi|300314041|ref|YP_003778133.1| transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 311

 Score =  519 bits (1336), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 265/311 (85%), Positives = 285/311 (91%)

Query: 1   MLAIFNIVFPIFSLIFLGWMCRKRRILSTGAASELNRFVIWLALPALLFDSMSRLKPADF 60
           MLAIFNIVFP+FSLIFLGW CRKR ILS GAA+ELNRFVIWLALPALLFDSMSRL  ADF
Sbjct: 1   MLAIFNIVFPVFSLIFLGWACRKRNILSGGAATELNRFVIWLALPALLFDSMSRLSAADF 60

Query: 61  ANLRFIAVFAIGVAVVFLITAALRLRQKAAAPDVIIDSLGSSYANTGFIGIPLCYLAFGS 120
           ANLRFIAVFA+  A+VFL+TA LR R++AAA D+IIDSLGS+YAN GFIGIPLCYLAFG 
Sbjct: 61  ANLRFIAVFALSTALVFLLTAWLRWRERAAAADIIIDSLGSAYANVGFIGIPLCYLAFGH 120

Query: 121 DGLPPSVIAMVMTACLLFAVAIVLLETCLHAQAAFGQTVAKVGRSLLRNPIMIAPVAGII 180
           DGLPPSVIAMVMTACLLFAVAIVLLETCLHAQA    TVAKVGRSLLRNPIMIAPVAGII
Sbjct: 121 DGLPPSVIAMVMTACLLFAVAIVLLETCLHAQAGLAHTVAKVGRSLLRNPIMIAPVAGII 180

Query: 181 VALSGVAIPPGVQQLFKILGGAAGPCALVSLGLFLAQPVRTAGGSPVWLLVAFKLLLQPA 240
           VA+ G+ +P GVQQLFKILGGAAGPCALVSLGLFLAQPV+   G+ V LLVAFKLLLQPA
Sbjct: 181 VAVFGLPVPSGVQQLFKILGGAAGPCALVSLGLFLAQPVQDRQGASVSLLVAFKLLLQPA 240

Query: 241 VTAVLAYWILPMPRLWADSAVLLAALPIGTGPFMLAELYQREVTAMSRAILYSTTLSLPT 300
           +TAVLAYW+LP+PRLWAD+AVLL+A+PIGTGPFMLAELYQREVTAMSRAIL STTLSLPT
Sbjct: 241 ITAVLAYWLLPLPRLWADAAVLLSAMPIGTGPFMLAELYQREVTAMSRAILVSTTLSLPT 300

Query: 301 IALILAWIAHH 311
           IALILAWIAH 
Sbjct: 301 IALILAWIAHR 311


  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    0.142    0.434 

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: 969,680
Number of extensions: 39762
Number of successful extensions: 208
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 209
Number of HSP's successfully gapped: 2
Length of query: 311
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 226
Effective length of database: 1,217,395
Effective search space: 275131270
Effective search space used: 275131270
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: 130 (54.7 bits)