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= 0001.3684.p
         (268 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...   124   6e-30

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

 Score =  124 bits (312), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 96/262 (36%), Positives = 136/262 (51%), Gaps = 20/262 (7%)

Query: 23  VIAPAQAQESVAAAPAAAAADTSASPLHLTGNIGVVSQYVFRGTTQTNQKPALQGGFDLN 82
           ++A A A   V+     A A+ +      + N  VVS Y +RG TQT   PALQ G D  
Sbjct: 5   ILATAIAASFVSTV---ARAEDAKPDNEFSFNAAVVSDYRYRGLTQTRFDPALQVGADYT 61

Query: 83  HD-NGLYAGVWLSNVSWISDGNPAAS------ASLEADLYGGWKPALNDWLSGDIGVLHY 135
           H+  GLYAG WL+N+ WI D    AS        +E D+YGG +  +    + D+G L+Y
Sbjct: 62  HNPTGLYAGTWLTNIKWIKDAGAVASPPVNTKGDIEWDIYGGKRGDIGGGFTYDVGGLYY 121

Query: 136 AYPGSY--PTNMTKPDTTELYLGVDAKWIAFKYSYSTGDTFGNAGTSGTTYADLSVNHEL 193
            YPG+    +     +T ELY  V      FKYS S  + FG A +  + Y DL  N E 
Sbjct: 122 YYPGNTLADSGAKNANTFELYGQVGYGPGYFKYSQSLTNLFGAANSKYSQYFDLGANIET 181

Query: 194 FAGINGLAHIGRQHYTGPNASSLSYTDWKLGLSR---DYSGYVLGLAYTGSNAPNAGYII 250
           + G+    H+G Q+  G N +  SYTDWK+G+S+   D +G  LGLAY G++  +     
Sbjct: 182 YYGVILGLHVGHQNVRG-NPNQFSYTDWKIGVSKTFDDLAGITLGLAYVGTDLKDGVTTT 240

Query: 251 RG----KNIGGNQWVASINKSF 268
                 KN+G N +V S++K+F
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
   0.314    0.131    0.397 

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: 862,306
Number of extensions: 40270
Number of successful extensions: 88
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 82
Number of HSP's successfully gapped: 2
Length of query: 268
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 184
Effective length of database: 1,222,130
Effective search space: 224871920
Effective search space used: 224871920
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 130 (54.7 bits)