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= 0003.0043.p
         (632 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309978|ref|YP_003774070.1| membrane transport protein [Her...    95   2e-20

>gi|300309978|ref|YP_003774070.1| membrane transport protein
           [Herbaspirillum seropedicae SmR1]
          Length = 683

 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 59/176 (33%), Positives = 96/176 (54%), Gaps = 7/176 (3%)

Query: 63  RNRTATDYYTAGGGIGPIRNGLAIAGDYLSAAAFLGVSGLIALYGYDGIAYLIGFFVAFI 122
           R     +YY AG  + P+ NG+A A D++SAA F+ ++G + L G+DG+AY++G+   + 
Sbjct: 62  RTSDVPEYYVAGRRVPPLFNGMATAADWISAATFISLAGGLYLQGFDGLAYILGWTGGYC 121

Query: 123 PVLLLVAEPCRNLGRYTLGDVLAYRNSFRS-------TKVAAAVSSIIVAVFYMVPQIVG 175
            V LL+A   R  G+YT+ D LA R   R         ++ A  ++I+++  Y+V QI G
Sbjct: 122 LVALLIAPYLRKFGQYTIADFLAARYPGRPGSQGVNVIRILAVAATILISFTYVVAQIYG 181

Query: 176 GAVILRALIGIPYEISVLAVGILMLTYVVFGGMRATTSVQVIKAILLISSCFVLVI 231
             +I     GI + I +      +L     GGMRA T  QV + I+++ +  + VI
Sbjct: 182 VGLITSRFTGIDFSIGIFLGLASILVCSFLGGMRAITWTQVAQYIIILLAYLIPVI 237



 Score = 75.1 bits (183), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 64/247 (25%), Positives = 122/247 (49%), Gaps = 33/247 (13%)

Query: 292 LSLGLALVLGTAAMPHILMRFFTVPDAKTARSSVLWAMLAIGVCHLLI----------VF 341
           L+L   L+LGTAA+PHILMR++T P    AR+SV W +  I + +L +          ++
Sbjct: 381 LALVFCLMLGTAALPHILMRYYTTPTVAGARTSVFWTLFFIMLIYLTVPALTVLVKYDIY 440

Query: 342 IGFAAAHYVGAKAIVVLDKGGNLAAPMLA-------QFLGGGADSLAGNFMLAFVAAVA- 393
                + Y      V      +   P+++         +  G  S+ G+ ++  +  +A 
Sbjct: 441 TSLVGSSYSHLPDWVYYWANMDKLNPLVSITDLNRDGLVQLGEISMDGDIIVLAMPEIAG 500

Query: 394 -------------FATIVAVVAGLTLAAASALAHDVYVGAIRNGRATEQEQVRAARVATL 440
                         A  ++   GL L  ++AL+HDVY   + +  A+ Q++V  +++  L
Sbjct: 501 LPYFVSGLVAAGGLAAALSTADGLLLTISNALSHDVYYKVV-DPSASTQKRVTISKLLLL 559

Query: 441 MMAVICVVCGILAKGQNVAHLVGLGYAVAASANLPALLMTLYWKRCSTAGVLAGVIGGTT 500
           ++A++      L  G ++  +VG  +++AAS   PAL++ ++WKR + AG +AG++ G  
Sbjct: 560 VVALLAAYAASLKPG-DILSMVGAAFSLAASTLFPALVLGVFWKRANQAGAIAGILCGFL 618

Query: 501 LSIVLVL 507
           + +  +L
Sbjct: 619 MCVYYML 625


  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    0.138    0.392 

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: 1,685,798
Number of extensions: 66733
Number of successful extensions: 357
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 356
Number of HSP's successfully gapped: 2
Length of query: 632
Length of database: 1,619,870
Length adjustment: 91
Effective length of query: 541
Effective length of database: 1,188,985
Effective search space: 643240885
Effective search space used: 643240885
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: 133 (55.8 bits)