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= 0036.0006.p
         (180 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300314029|ref|YP_003778121.1| permease [Herbaspirillum serope...   205   1e-54

>gi|300314029|ref|YP_003778121.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 310

 Score =  205 bits (522), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 101/126 (80%), Positives = 113/126 (89%)

Query: 1   MNYTPGRLMAYVCLALSMSMVGAYVALTKPLAAALPVFLLAWLRFGIGAAAMLRWLKKPA 60
           M+YTP R M Y CL LSMS+VGAYVALTKPLAA LPVFLLAWLRFGIGA AMLRWLKKPA
Sbjct: 1   MSYTPSRPMGYGCLILSMSLVGAYVALTKPLAAMLPVFLLAWLRFGIGAVAMLRWLKKPA 60

Query: 61  NEAPLTPRTRLLVFLESFLGNFLFTICMISGVSMTSAVSAGVIMSVIPAVVALMSWIFLR 120
           +E PL+ ++R LVFLESFLGNFLFT+CMI+GVSMT+AVSAGVIMS IPAVVA+MSWIFL+
Sbjct: 61  SEQPLSTQSRWLVFLESFLGNFLFTLCMITGVSMTNAVSAGVIMSAIPAVVAVMSWIFLK 120

Query: 121 ERIGAR 126
           E+I  R
Sbjct: 121 EKISLR 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
   0.327    0.137    0.404 

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: 424,693
Number of extensions: 14242
Number of successful extensions: 96
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 2
Length of query: 180
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 101
Effective length of database: 1,245,805
Effective search space: 125826305
Effective search space used: 125826305
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: 127 (53.5 bits)