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= 0002.0120.p
         (186 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309781|ref|YP_003773873.1| sugar ABC transporter periplasm...   193   6e-51

>gi|300309781|ref|YP_003773873.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 451

 Score =  193 bits (491), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 92/154 (59%), Positives = 115/154 (74%), Gaps = 1/154 (0%)

Query: 20  AILFSLLCPGFAGADAVSVVNIATTNNPDMLVLQRLSSVFEKSHPDIRLNWHVMDEGVLR 79
           A + +L   G A A+ V++ NIA+ NNPDM+ LQ+L+  FEK++PDI+L W  M+E VLR
Sbjct: 22  AAISTLFAAGLAQAEPVTL-NIASINNPDMIELQKLAPAFEKANPDIKLRWVTMEESVLR 80

Query: 80  ERVTTDITTSGGKFDLMTIGLMSTPLWAEQGWLLPMDDLPSGYDVDDLLKPVRAGLSSKG 139
           +R+TTDI T+ G+FDLMTIG    P+WA++GWL PM  LP+ YD  DL+KPVR GLS  G
Sbjct: 81  QRLTTDIATNSGQFDLMTIGAYEAPIWAKKGWLAPMTGLPADYDEADLIKPVREGLSVDG 140

Query: 140 KLYALPFYAESSMTYYRKDLFAQKKLVXAASPAF 173
           KLYALPFYAESSMTYYRKDLF QKKL     P +
Sbjct: 141 KLYALPFYAESSMTYYRKDLFEQKKLTMPQRPTW 174


  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
   0.322    0.136    0.431 

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: 616,333
Number of extensions: 24341
Number of successful extensions: 70
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 71
Number of HSP's successfully gapped: 1
Length of query: 186
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 106
Effective length of database: 1,241,070
Effective search space: 131553420
Effective search space used: 131553420
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 128 (53.9 bits)