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= 0248.0013.p
         (106 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313911|ref|YP_003778003.1| cations and cationic drugs memb...    59   7e-11

>gi|300313911|ref|YP_003778003.1| cations and cationic drugs
           membrane transport protein [Herbaspirillum seropedicae
           SmR1]
          Length = 110

 Score = 58.9 bits (141), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 61/105 (58%)

Query: 2   AWIILVLAGLFEVAWAVGLKYTDGFTRLLPSVATLAAMVVSVGLLALAVKTLPLSTAYAI 61
           A++ L +A + EV     LK + GFTRLLP +  +A   VS   LAL ++T+P S AYAI
Sbjct: 3   AYLSLAIAIVAEVIATTALKSSQGFTRLLPGLIVVAGYGVSFYCLALTLRTMPTSVAYAI 62

Query: 62  WTGIGAVGAVVLGIVLFHESASPARLACLALIIVGIIGLKVVSPE 106
           W+G+G V   +   ++ H+      +A +ALI+ G++ + + S  
Sbjct: 63  WSGVGLVLITLAAWLIHHQRLDWPAVAGIALIVAGVMVINLFSSS 107


  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    0.140    0.418 

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: 254,536
Number of extensions: 7546
Number of successful extensions: 52
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 52
Number of HSP's successfully gapped: 1
Length of query: 106
Length of database: 1,619,870
Length adjustment: 72
Effective length of query: 34
Effective length of database: 1,278,950
Effective search space: 43484300
Effective search space used: 43484300
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: 123 (52.0 bits)