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= 0001.3450.p
         (266 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312841|ref|YP_003776933.1| periplasmic amino acid-binding ...   436   e-124

>gi|300312841|ref|YP_003776933.1| periplasmic amino acid-binding
           protein [Herbaspirillum seropedicae SmR1]
          Length = 265

 Score =  436 bits (1122), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 209/260 (80%), Positives = 228/260 (87%), Gaps = 1/260 (0%)

Query: 1   MQKLLPAIMLVAMTMPLPVA-AADCAKVIISADSDYAPLHWYDGKRLTGASIEIATRALT 59
           M KLL A  L    M  P A AA+C ++++SADSDYAPLHWYDGK LTGASIEIATRAL 
Sbjct: 1   MFKLLSAYALSLAVMIAPAAGAAECTRLVVSADSDYAPLHWYDGKHLTGASIEIATRALE 60

Query: 60  ALKIPYEVRYVGPFHRVLKEAESGEVSMVASLKNTPERQQYLAFTAVPLFRNPIAIFVAR 119
           AL IP+EVRYVGPFHRVLK AESGEV+M+ASLK TPERQQYLAFT+VPLF NPIA+FVAR
Sbjct: 61  ALNIPFEVRYVGPFHRVLKAAESGEVAMIASLKITPERQQYLAFTSVPLFVNPIAVFVAR 120

Query: 120 DKAFAYAGWKDLVGKRGAITLGNQFGGGFDEFMRDHLSIETAQKVYMNFTKLDSGRIDYL 179
           D+ FAY GWKDLVGKRGAITLGNQFGGGFDEFMRD+L IETAQK YMNFTKLDSGRIDYL
Sbjct: 121 DRRFAYGGWKDLVGKRGAITLGNQFGGGFDEFMRDNLIIETAQKTYMNFTKLDSGRIDYL 180

Query: 180 LTGYYSGMIYLNQTGQSERFMALRPFVSETDNYIAMSKASPCVKYLPRLNAQLELMQKRG 239
           LTGYYSGMIYLNQT Q +RFM LRPFVSETDNY+A+SKASPC+K+L R+NAQLE MQKRG
Sbjct: 181 LTGYYSGMIYLNQTQQQDRFMPLRPFVSETDNYLALSKASPCIKHLARINAQLETMQKRG 240

Query: 240 ELRAVLQSFETDLRIDPATA 259
           ELRAVLQ FETDLRI+   A
Sbjct: 241 ELRAVLQKFETDLRIESTAA 260


  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    0.135    0.393 

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: 762,124
Number of extensions: 30451
Number of successful extensions: 97
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 1
Length of query: 266
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 182
Effective length of database: 1,222,130
Effective search space: 222427660
Effective search space used: 222427660
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: 130 (54.7 bits)