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= 0002.0338.p
         (247 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312856|ref|YP_003776948.1| hypothetical protein Hsero_3561...   292   2e-80

>gi|300312856|ref|YP_003776948.1| hypothetical protein Hsero_3561
           [Herbaspirillum seropedicae SmR1]
          Length = 256

 Score =  292 bits (747), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 153/173 (88%), Positives = 162/173 (93%), Gaps = 2/173 (1%)

Query: 1   MDIKKLQTAVVDALEDVKAQDIKIYDTTHLTSLFDRVAIASGTSNRQTKALAASVRDKVK 60
           MDIKKLQT VVDALEDVKAQ+I+IYDTTHLTSLFDRVAIASGTSNRQTKALAASVRDKVK
Sbjct: 1   MDIKKLQTLVVDALEDVKAQEIRIYDTTHLTSLFDRVAIASGTSNRQTKALAASVRDKVK 60

Query: 61  AKGGHVVSVEGEDTGEWVLVDLGDMIVHIMQPAIRAYYRLEEIWGDKEVKMGAAKRVASS 120
           AKGG+VVSVEGEDTGEWVLVDLGDMIVHIMQPAIR YYRLEEIWGDKEVK+GAAKR  +S
Sbjct: 61  AKGGNVVSVEGEDTGEWVLVDLGDMIVHIMQPAIRTYYRLEEIWGDKEVKLGAAKRTGTS 120

Query: 121 AAAKKASEDEKPA-KIRRTREQAEAVEASQAIDDDE-APKKPARKPRTTSVSS 171
           AAAK+A+ DE PA K RRTR QAEAVEASQA+DDDE APKKPARKPRTTS +S
Sbjct: 121 AAAKRAAADEAPAPKTRRTRAQAEAVEASQALDDDEDAPKKPARKPRTTSATS 173


  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
   0.308    0.121    0.321 

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: 420,952
Number of extensions: 13252
Number of successful extensions: 55
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 56
Number of HSP's successfully gapped: 1
Length of query: 247
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 164
Effective length of database: 1,226,865
Effective search space: 201205860
Effective search space used: 201205860
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 129 (54.3 bits)