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= 0028.0220.p
         (281 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 ...   429   e-121

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

 Score =  429 bits (1102), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 196/236 (83%), Positives = 219/236 (92%)

Query: 36  AAECSKVVISADSDYAPLHWYDGKRLTGASIEIATRALSALNIPYEVRYVGPFHRVLKEA 95
           AAEC+++V+SADSDYAPLHWYDGK LTGASIEIATRAL ALNIP+EVRYVGPFHRVLK A
Sbjct: 22  AAECTRLVVSADSDYAPLHWYDGKHLTGASIEIATRALEALNIPFEVRYVGPFHRVLKAA 81

Query: 96  ESGQVAMVSSLKNTPERQSYLAFASVPLFSNPIAVFVARDKRFAYGGWKDLIGKRGAVTL 155
           ESG+VAM++SLK TPERQ YLAF SVPLF NPIAVFVARD+RFAYGGWKDL+GKRGA+TL
Sbjct: 82  ESGEVAMIASLKITPERQQYLAFTSVPLFVNPIAVFVARDRRFAYGGWKDLVGKRGAITL 141

Query: 156 GNQFGGGFDEFLRDNLIIETAQKFYMNFSKLDSGRIDYLITGYYNGVIYLNQNGLADRFM 215
           GNQFGGGFDEF+RDNLIIETAQK YMNF+KLDSGRIDYL+TGYY+G+IYLNQ    DRFM
Sbjct: 142 GNQFGGGFDEFMRDNLIIETAQKTYMNFTKLDSGRIDYLLTGYYSGMIYLNQTQQQDRFM 201

Query: 216 PLRPFVSESDNYIAMSRASPCVKLLPRINAQLEAMQKSGELRAVLQSFETDLRIDT 271
           PLRPFVSE+DNY+A+S+ASPC+K L RINAQLE MQK GELRAVLQ FETDLRI++
Sbjct: 202 PLRPFVSETDNYLALSKASPCIKHLARINAQLETMQKRGELRAVLQKFETDLRIES 257


  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
   0.319    0.135    0.390 

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: 763,859
Number of extensions: 29366
Number of successful extensions: 87
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 87
Number of HSP's successfully gapped: 1
Length of query: 281
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 197
Effective length of database: 1,222,130
Effective search space: 240759610
Effective search space used: 240759610
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 (21.8 bits)
S2: 130 (54.7 bits)