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= 0003.0025.p
         (287 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...   137   9e-34

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

 Score =  137 bits (345), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 101/271 (37%), Positives = 142/271 (52%), Gaps = 25/271 (9%)

Query: 33  LASLAAAGALLAIAVIAPAQAQEAAPAAPDANASPLHLAGNIGIVSQYVFRGTTQTNQKP 92
           +  L  A A+ A  V   A+A++A P            + N  +VS Y +RG TQT   P
Sbjct: 1   MKKLILATAIAASFVSTVARAEDAKPDN--------EFSFNAAVVSDYRYRGLTQTRFDP 52

Query: 93  ALQGGFDLTHD-NGLYAGVWMSNISWISDTNPAAS------ASLEADLYGGWKPALTDWL 145
           ALQ G D TH+  GLYAG W++NI WI D    AS        +E D+YGG +  +    
Sbjct: 53  ALQVGADYTHNPTGLYAGTWLTNIKWIKDAGAVASPPVNTKGDIEWDIYGGKRGDIGGGF 112

Query: 146 TGDIGVLHYAYPGSYPA--GMTKPDTTEVYLGVDAKWIAFKYSYSTGNTFGNADTRGSTY 203
           T D+G L+Y YPG+  A  G    +T E+Y  V      FKYS S  N FG A+++ S Y
Sbjct: 113 TYDVGGLYYYYPGNTLADSGAKNANTFELYGQVGYGPGYFKYSQSLTNLFGAANSKYSQY 172

Query: 204 ADLSVTHELFAGITGLAHIGRQRYTGSNASNLSYTDWKLGLTR---DFSGYVLGLAWTGS 260
            DL    E + G+    H+G Q   G N +  SYTDWK+G+++   D +G  LGLA+ G+
Sbjct: 173 FDLGANIETYYGVILGLHVGHQNVRG-NPNQFSYTDWKIGVSKTFDDLAGITLGLAYVGT 231

Query: 261 NAPDAGYTLRG----KNIGSNQWIASVNKSF 287
           +  D   T       KN+G N ++ S++K+F
Sbjct: 232 DLKDGVTTTPASDGLKNVGKNGFVFSLSKTF 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
   0.315    0.131    0.401 

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: 926,238
Number of extensions: 40457
Number of successful extensions: 95
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 90
Number of HSP's successfully gapped: 2
Length of query: 287
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 203
Effective length of database: 1,222,130
Effective search space: 248092390
Effective search space used: 248092390
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: 130 (54.7 bits)