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= 0016.0003.p
         (123 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312977|ref|YP_003777069.1| DNA uptake protein [Herbaspiril...   241   1e-65

>gi|300312977|ref|YP_003777069.1| DNA uptake protein [Herbaspirillum
           seropedicae SmR1]
          Length = 123

 Score =  241 bits (615), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 121/123 (98%), Positives = 121/123 (98%)

Query: 1   MFRKSLLFILGFIFSTGLAMAQVDVNKADQAALDGVRGIGPSMSKRILEERQKGGAFKDW 60
           MFRKSLLFILGFIF TGLAMAQVDVNKADQAALDGVRGIGPSMSKRILEERQKGGAFKDW
Sbjct: 1   MFRKSLLFILGFIFCTGLAMAQVDVNKADQAALDGVRGIGPSMSKRILEERQKGGAFKDW 60

Query: 61  GDLEKRVKGIKDKSATKLSGYGLTVNGQSRPGAEAAPTTSSKPGKGPAREAKPMAAEPGG 120
           GDLEKRVKGIKDKSATKLSGYGLTVNGQSRPGAEAA TTSSKPGKGPAREAKPMAAEPGG
Sbjct: 61  GDLEKRVKGIKDKSATKLSGYGLTVNGQSRPGAEAAATTSSKPGKGPAREAKPMAAEPGG 120

Query: 121 NGK 123
           NGK
Sbjct: 121 NGK 123


  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
   0.312    0.133    0.378 

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: 410,843
Number of extensions: 15718
Number of successful extensions: 76
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 76
Number of HSP's successfully gapped: 1
Length of query: 123
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 49
Effective length of database: 1,269,480
Effective search space: 62204520
Effective search space used: 62204520
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 (21.8 bits)
S2: 125 (52.8 bits)