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= 0031.0055.p
         (80 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC t...   156   3e-40
gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC t...    97   4e-22
gi|300310682|ref|YP_003774774.1| amino acid ABC transporter perm...    94   3e-21

>gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 346

 Score =  156 bits (394), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 79/80 (98%), Positives = 79/80 (98%)

Query: 1   MSTIFYDSGFLIGLKGFVAATIGALASFPAAAGGALLVGLLESFSSFWASDFKEVIVFLA 60
           MSTIFYDSGFLIGLKGFVAATIGALASFPAAAGGALLVGLLESFSSFWASDFKEVIVFLA
Sbjct: 267 MSTIFYDSGFLIGLKGFVAATIGALASFPAAAGGALLVGLLESFSSFWASDFKEVIVFLA 326

Query: 61  LLPILLWRSLVTPAHDEDEE 80
           LLPILLWRSLV PAHDEDEE
Sbjct: 327 LLPILLWRSLVIPAHDEDEE 346


>gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC
           transporter permease [Herbaspirillum seropedicae SmR1]
          Length = 350

 Score = 96.7 bits (239), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 48/79 (60%), Positives = 61/79 (77%), Gaps = 2/79 (2%)

Query: 2   STIFYDSGFLIGLKGFVAATIGALASFPAAAGGALLVGLLESFSSFWASDFKEVIVFLAL 61
           + + Y+SGF+I LKGFV A  G LAS+P AA G++ VGL+ESFSSFWAS +KE+IVF  +
Sbjct: 273 TIVNYESGFIIALKGFVGAIFGGLASYPIAALGSVSVGLIESFSSFWASAYKELIVFTVI 332

Query: 62  LPILLWRSLVTPAHDEDEE 80
           +PILLWRSL +  H  DEE
Sbjct: 333 IPILLWRSLTS--HHIDEE 349


>gi|300310682|ref|YP_003774774.1| amino acid ABC transporter
           permease [Herbaspirillum seropedicae SmR1]
          Length = 344

 Score = 93.6 bits (231), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 52/80 (65%), Positives = 66/80 (82%), Gaps = 1/80 (1%)

Query: 1   MSTIFYDSGFLIGLKGFVAATIGALASFPAAAGGALLVGLLESFSSFWASDFKEVIVFLA 60
           ++TI+YDSGFLI LKGFV + IG L S+P AA GAL +GL+ESFS+FWAS +KE+IVF+ 
Sbjct: 266 ITTIYYDSGFLISLKGFVGSIIGGLVSYPLAAAGALAIGLIESFSTFWASAYKEIIVFVL 325

Query: 61  LLPILLWRSLVTPAHDEDEE 80
           ++PILLWRSL T  H E+EE
Sbjct: 326 IIPILLWRSLTT-RHVEEEE 344


  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
   0.325    0.141    0.421 

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: 190,702
Number of extensions: 3887
Number of successful extensions: 25
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 24
Number of HSP's successfully gapped: 4
Length of query: 80
Length of database: 1,619,870
Length adjustment: 51
Effective length of query: 29
Effective length of database: 1,378,385
Effective search space: 39973165
Effective search space used: 39973165
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: 123 (52.0 bits)