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= 0078.0006.p
         (156 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309388|ref|YP_003773480.1| periplasmic binding protein [He...   184   4e-48

>gi|300309388|ref|YP_003773480.1| periplasmic binding protein
           [Herbaspirillum seropedicae SmR1]
          Length = 374

 Score =  184 bits (466), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 88/150 (58%), Positives = 125/150 (83%)

Query: 1   MEIPYLNNLQPGPLQSGLIVVVAAVLAILLAMIVHRIGIVLLRRLVRNRPFTTNATHIAF 60
           +++ +L N+  GPL+SGLIV+  A++A+++A+ +HR+GI ++RRL R RPFTT AT + F
Sbjct: 3   IDLDFLYNMNEGPLRSGLIVLGVALVAVVVAVFLHRVGIAVVRRLARGRPFTTTATEVTF 62

Query: 61  RASQVCVVLFAVRLVLTAAPDDTPGLRSLSYVSTVALIVALTWCVMKCIESISTTITQLN 120
            AS+ CV+LF +RLVLT APD+TPGL S+SY++++ LI+ALTW +++C++S+S T+  LN
Sbjct: 63  SASRTCVILFMLRLVLTGAPDNTPGLTSISYLTSIGLILALTWFLIRCVKSVSLTVINLN 122

Query: 121 PYDVADNLKARRILTQTRVLTRSAYFIXGL 150
           PYDVADNLKARRILTQTRVL+RSAYFI  +
Sbjct: 123 PYDVADNLKARRILTQTRVLSRSAYFIIAM 152


  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
   0.328    0.139    0.401 

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: 317,453
Number of extensions: 7756
Number of successful extensions: 27
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 27
Number of HSP's successfully gapped: 1
Length of query: 156
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 78
Effective length of database: 1,250,540
Effective search space: 97542120
Effective search space used: 97542120
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 126 (53.1 bits)