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= 0001.4123.p
         (364 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313550|ref|YP_003777642.1| ABC transporter permease [Herba...   662   0.0  

>gi|300313550|ref|YP_003777642.1| ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 364

 Score =  662 bits (1708), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 345/364 (94%), Positives = 359/364 (98%)

Query: 1   MADRMSFPLRLELRGAPSQTMTYLSPVIAIIATLLLGALLFLALGKDPLAGLKVFLVDPF 60
           MA+R+SFPLRLELRGAPS+TMTYLSPVIAI+ATLLLGALLFLALGKDPLAGLKVFL+DPF
Sbjct: 1   MAERLSFPLRLELRGAPSRTMTYLSPVIAIVATLLLGALLFLALGKDPLAGLKVFLIDPF 60

Query: 61  NGKRAISELLLKSVPLILCALGLVVCFRASIWNIGAEGQFTVGALCSGAMLVWLDVPGHG 120
           NGKRAISELLLKSVPLILCALGL VCFRASIWNIGAEGQFTVGALCSGAMLVWLDVPGHG
Sbjct: 61  NGKRAISELLLKSVPLILCALGLAVCFRASIWNIGAEGQFTVGALCSGAMLVWLDVPGHG 120

Query: 121 ISGGMGLVLMVLAGIVGGALWAAITAFLRDHFNANEILVSLMLTYVAQLLLMWAVNGPLK 180
           +SGGMGLVLM++AG++GGALWAAITAFLRD FNANEILVSLMLTYVAQLLLMWAVNGPLK
Sbjct: 121 VSGGMGLVLMIVAGVIGGALWAAITAFLRDQFNANEILVSLMLTYVAQLLLMWAVNGPLK 180

Query: 181 DPNGMNFPQSKVFSSEFMLPMLMSGTRLHVGFAVTLVAAVLMAIFMMRSLRGFSLMVGGV 240
           DPNGMNFPQSKVFSSEFMLP L+SGTRLH+GFAV +VAAVLMAIFMMRSLRGFSLMVGGV
Sbjct: 181 DPNGMNFPQSKVFSSEFMLPTLISGTRLHIGFAVAIVAAVLMAIFMMRSLRGFSLMVGGV 240

Query: 241 APHAARYAGFSARSALWVSLLISGAFAGLAGAFEIAGPIGQLLPSVSPGYGFAAIIVAFI 300
           APHAARYAGFSARSALWVSLLISGAFAGLAGAFEIAGPIGQLLPSVSPGYGFAAIIVAFI
Sbjct: 241 APHAARYAGFSARSALWVSLLISGAFAGLAGAFEIAGPIGQLLPSVSPGYGFAAIIVAFI 300

Query: 301 GRLHPIGAILGGLIMSLLYLGGELAQSRLGLPSAITGVFQGMLLFLLLACDTLIDYRLVW 360
           GRLHPIGAILGGLIMSLLYLGGELAQSRLGLPSAITGVFQGMLLFLLLACDTLIDYRL W
Sbjct: 301 GRLHPIGAILGGLIMSLLYLGGELAQSRLGLPSAITGVFQGMLLFLLLACDTLIDYRLAW 360

Query: 361 HKKV 364
           +KKV
Sbjct: 361 NKKV 364


  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    0.144    0.437 

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: 1,066,344
Number of extensions: 42731
Number of successful extensions: 277
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 278
Number of HSP's successfully gapped: 3
Length of query: 364
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 278
Effective length of database: 1,212,660
Effective search space: 337119480
Effective search space used: 337119480
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: 131 (55.1 bits)