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= 0001.3312.p
         (372 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312642|ref|YP_003776734.1| transmembrane protein [Herbaspi...   454   e-129

>gi|300312642|ref|YP_003776734.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 363

 Score =  454 bits (1168), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 249/379 (65%), Positives = 287/379 (75%), Gaps = 23/379 (6%)

Query: 1   MNDQPDLPDSAAQPPSTPPQAPANFATTLRDSADHSAPQGFSFSGSGSEYFRIWIVNLLL 60
           MN+  DLP  A     TPP     F+T L ++A    P+ FSFSG G EYFRIWIVNLLL
Sbjct: 1   MNEPSDLPSQA-----TPP-----FSTVL-NTAAPVKPEAFSFSGRGGEYFRIWIVNLLL 49

Query: 61  SIVTLGIYSAWAKVRRLRYFYDNTSVAGASFDYHGNPIAILKGRIIAVVVMGLYQLAAAF 120
           SIVTLGIYSAWAKVRRLRYFYDNTSVAG SFDYHGNPIAILKGRIIAVV++ +Y  A A 
Sbjct: 50  SIVTLGIYSAWAKVRRLRYFYDNTSVAGGSFDYHGNPIAILKGRIIAVVLLAVYNFAGAA 109

Query: 121 NIVLGLIAAIAMAVAGPWLIWRSLQFKLYNTSYRGIRFGFLGSAGGVFKNFFLWPLLASL 180
           + +LGL AA+ + +AGPWL+WRSLQFKLYNTSYRGIRFGF GS GG  +NF +WP+LAS+
Sbjct: 110 SPLLGLAAALLLVLAGPWLLWRSLQFKLYNTSYRGIRFGFRGSLGGAARNFLMWPMLASI 169

Query: 181 SVGLLAPLAYQRFKRYQHGQSRFGATQFDFTAKPGAFYKVFLIAFGIWLVGFLAAMAALV 240
           S+GLLAPLAYQRFKRYQH ++RFGAT F F    GAFYK FLI      +G       ++
Sbjct: 170 SLGLLAPLAYQRFKRYQHSEARFGATHFSFHGSVGAFYKTFLIG-----LGLWLGGIIVI 224

Query: 241 AVGYFHISLSVMLPHG-------LPIIIALYAWTFALYPLLMTQLQNLVWNSTRLGEHGF 293
            VG+  I+L  M+  G       + +++ALYAWTF   PL MT LQNLVWN+TRLGEH F
Sbjct: 225 FVGFGGITLIQMVHAGTTAVFSLMLMVLALYAWTFLALPLWMTLLQNLVWNNTRLGEHRF 284

Query: 294 KSTMRWQRVVFIFITNLLGIAFTLGLYTPFAQIRMMRYRIESLALLPGGSLDEFLAASEP 353
           +S MRW R  FI  TN+LG+ FTLGLYTPFAQIRMMRYRIESL LLP  SLD+F+A+SE 
Sbjct: 285 QSDMRWGRTAFIVFTNVLGVVFTLGLYTPFAQIRMMRYRIESLTLLPASSLDDFVASSEA 344

Query: 354 PGSATGEGLGDLLDFDLSM 372
            GSATGEGLGDLLDFDLSM
Sbjct: 345 HGSATGEGLGDLLDFDLSM 363


  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    0.141    0.442 

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: 1,104,316
Number of extensions: 45166
Number of successful extensions: 241
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 235
Number of HSP's successfully gapped: 1
Length of query: 372
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 285
Effective length of database: 1,207,925
Effective search space: 344258625
Effective search space used: 344258625
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)