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= 0039.0002.p
         (167 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AGl890 [E] COG0687 Spermidine/putrescine-binding periplasmic pro...    80   1e-15
SMa2209 [E] COG0687 Spermidine/putrescine-binding periplasmic pr...    52   3e-07
mll1024 [E] COG0687 Spermidine/putrescine-binding periplasmic pr...    49   5e-06

>AGl890 [E] COG0687 Spermidine/putrescine-binding periplasmic protein
          Length = 832

 Score = 80.5 bits (197), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 8/94 (8%), Positives = 19/94 (20%), Gaps = 2/94 (2%)

Query: 53  LVISTWGFSEDFFKESVYAPFEKEHNVKIVVEIGNNAERLNKIRQGSSD--VDVVYLSDY 110
                   +   F  S+    +      +           N  +   +            
Sbjct: 26  CPPPAANITRQQFNVSIVVRHKPVLKPVLEPFCLCRLSGRNGGQFIGNILRRAEGGQLSL 85

Query: 111 YAQQAINEGLFETIDRSKIPNLDKIYDIAKAPLG 144
             ++  +   F  I    +    + Y    AP  
Sbjct: 86  GWKEQWDNLDFSHITVGVLSQAYEYYLRKHAPKQ 119


>SMa2209 [E] COG0687 Spermidine/putrescine-binding periplasmic protein
          Length = 340

 Score = 52.4 bits (124), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 47/84 (55%), Gaps = 2/84 (2%)

Query: 53  LVISTWGFSEDFFKESVYAPFEKEHNVKIVVEIGNNAERLNKIRQGSSDVDVVYLSDYYA 112
           L ++TWG S     ++V   FE+EHN +I   +G + + L K R G  DV    L +  A
Sbjct: 27  LRVTTWGGSYQATYQAVAQKFEEEHNCRIEWVVGASPDHLIKARLGQVDVVTNTLLNSIA 86

Query: 113 QQAINEGLFETIDRSKIPNLDKIY 136
            +   EGL++ +D +KIPN+  +Y
Sbjct: 87  GE--KEGLWQKLDPAKIPNMANLY 108


>mll1024 [E] COG0687 Spermidine/putrescine-binding periplasmic protein
          Length = 182

 Score = 48.5 bits (114), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 4/77 (5%), Positives = 11/77 (14%), Gaps = 1/77 (1%)

Query: 63  DFFKESVYAPFEKEHNVKIVVEIGNNAERL-NKIRQGSSDVDVVYLSDYYAQQAINEGLF 121
             +  +                             Q     +   +     +  +     
Sbjct: 36  SSWLFNAKGQLLVTRRALSKKAWPGVWTNSVCGHPQLGESNEDAVIRRCRYELGVEITPP 95

Query: 122 ETIDRSKIPNLDKIYDI 138
           E+I             I
Sbjct: 96  ESIYPDFRYRATDPSGI 112


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.316    0.135    0.389 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 8,411,650
Number of extensions: 275416
Number of successful extensions: 568
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 583
Number of HSP's successfully gapped: 3
Length of query: 167
Length of database: 38,378,431
Length adjustment: 99
Effective length of query: 68
Effective length of database: 26,960,365
Effective search space: 1833304820
Effective search space used: 1833304820
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: 112 (47.8 bits)