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= 0001.0096.p
         (259 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309429|ref|YP_003773521.1| membrane protein [Herbaspirillu...   453   e-129

>gi|300309429|ref|YP_003773521.1| membrane protein [Herbaspirillum
           seropedicae SmR1]
          Length = 262

 Score =  453 bits (1166), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 240/262 (91%), Positives = 247/262 (94%), Gaps = 3/262 (1%)

Query: 1   MKKLILATAIAASFVSTVARAEDAKPDNELTFNAAVVNDYRYRGLTQTRFDPALQVGADY 60
           MKKLILATAIAASFVSTVARAEDAKPDNE +FNAAVV+DYRYRGLTQTRFDPALQVGADY
Sbjct: 1   MKKLILATAIAASFVSTVARAEDAKPDNEFSFNAAVVSDYRYRGLTQTRFDPALQVGADY 60

Query: 61  THNPTGLYAGTWLTNIKWIKDAGTLAG--TDTKGDVEWDIYGGKRGDIGGGFTYDVGGLA 118
           THNPTGLYAGTWLTNIKWIKDAG +A    +TKGD+EWDIYGGKRGDIGGGFTYDVGGL 
Sbjct: 61  THNPTGLYAGTWLTNIKWIKDAGAVASPPVNTKGDIEWDIYGGKRGDIGGGFTYDVGGLY 120

Query: 119 YYYPGNTL-DKVAKNANTFELYGQVGYGPGYFKYSQSLTNLFGAANSKYSQYFDLGANIE 177
           YYYPGNTL D  AKNANTFELYGQVGYGPGYFKYSQSLTNLFGAANSKYSQYFDLGANIE
Sbjct: 121 YYYPGNTLADSGAKNANTFELYGQVGYGPGYFKYSQSLTNLFGAANSKYSQYFDLGANIE 180

Query: 178 TYYGVILGLHVGHQNVRGNPNQLSYTDWKIGLSKTFDQAAGITLGLAYVGTDLKDGVSTT 237
           TYYGVILGLHVGHQNVRGNPNQ SYTDWKIG+SKTFD  AGITLGLAYVGTDLKDGV+TT
Sbjct: 181 TYYGVILGLHVGHQNVRGNPNQFSYTDWKIGVSKTFDDLAGITLGLAYVGTDLKDGVTTT 240

Query: 238 PASDGFKNVGKNGFVVSLSKTF 259
           PASDG KNVGKNGFV SLSKTF
Sbjct: 241 PASDGLKNVGKNGFVFSLSKTF 262


  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
   0.316    0.136    0.411 

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: 845,420
Number of extensions: 35762
Number of successful extensions: 102
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 100
Number of HSP's successfully gapped: 1
Length of query: 259
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 176
Effective length of database: 1,226,865
Effective search space: 215928240
Effective search space used: 215928240
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 129 (54.3 bits)