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= 0114.0001.p
         (124 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312635|ref|YP_003776727.1| sugar ABC transporter periplasm...   231   2e-62

>gi|300312635|ref|YP_003776727.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 443

 Score =  231 bits (588), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 106/123 (86%), Positives = 117/123 (95%)

Query: 1   MQLTQMMAFKHTKYPNAAKAFLQFMMEPDQFNPWMKAAIGYVSQPLKAYEKNPVWTADPK 60
           MQ+TQMM FKHTKYPNAAKAF+QFM EPDQ+NPWMKA+IGYVSQ LKAYEKNP+WT DPK
Sbjct: 320 MQITQMMVFKHTKYPNAAKAFVQFMFEPDQYNPWMKASIGYVSQSLKAYEKNPIWTEDPK 379

Query: 61  ATPYRDAASLMLDHGHAGPLGQASAACLADYVLVDMVAEAASGSKTVQQAIDRAAERAKR 120
           AT YRD+ASLMLDHGH GPLGQASAAC+ADYV+VDMVAEAASG+KTVQQAIDRAA+RAKR
Sbjct: 380 ATVYRDSASLMLDHGHEGPLGQASAACMADYVVVDMVAEAASGAKTVQQAIDRAADRAKR 439

Query: 121 FYK 123
           +YK
Sbjct: 440 YYK 442


  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    0.128    0.383 

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: 370,103
Number of extensions: 13245
Number of successful extensions: 55
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 55
Number of HSP's successfully gapped: 1
Length of query: 124
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 50
Effective length of database: 1,269,480
Effective search space: 63474000
Effective search space used: 63474000
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: 125 (52.8 bits)