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= 0001.3553.p
         (126 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312930|ref|YP_003777022.1| transmembrane protein [Herbaspi...   216   4e-58

>gi|300312930|ref|YP_003777022.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 126

 Score =  216 bits (551), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 118/126 (93%), Positives = 123/126 (97%)

Query: 1   MTLADWCILIAGLMPVLTIAVAKYGRRDFDNAEPRAWLDQQTGLRRRADYAHRNHFEAFP 60
           MTL+ WCILIAGLMPVLTIAVAKYGRRDFDNAEPRAWLD+QTG+RRRADYAHRNHFEAFP
Sbjct: 1   MTLSYWCILIAGLMPVLTIAVAKYGRRDFDNAEPRAWLDKQTGVRRRADYAHRNHFEAFP 60

Query: 61  FFAAAVLVAQQVGAPQAQIDIAALVFIAARILYTVLYLTDKPSARSAVWIVGYLSVIALF 120
           FFAAAVLVAQQVGAPQ QIDIAALVFIAARILYT LYL+DKPSARSAVWI+GYLSVIALF
Sbjct: 61  FFAAAVLVAQQVGAPQGQIDIAALVFIAARILYTALYLSDKPSARSAVWIIGYLSVIALF 120

Query: 121 VIAARA 126
           VIAARA
Sbjct: 121 VIAARA 126


  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
   0.331    0.139    0.426 

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: 335,469
Number of extensions: 9681
Number of successful extensions: 35
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 35
Number of HSP's successfully gapped: 1
Length of query: 126
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 51
Effective length of database: 1,264,745
Effective search space: 64501995
Effective search space used: 64501995
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 125 (52.8 bits)