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= 0254.0003.p
         (175 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313419|ref|YP_003777511.1| phenylacetic acid degradation p...   241   3e-65

>gi|300313419|ref|YP_003777511.1| phenylacetic acid degradation
           protein [Herbaspirillum seropedicae SmR1]
          Length = 158

 Score =  241 bits (614), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 115/151 (76%), Positives = 131/151 (86%), Gaps = 3/151 (1%)

Query: 13  PAVALNPEEAQALAEATAKSMYARDNATQALGMKIHEVRPGYARLSMLVRSDMLNGHASC 72
           P+  ++P   QALAEAT ++MY RDNA+QALGMKI E+ PG AR+SMLVRSDMLNGHA+C
Sbjct: 9   PSTEMDP---QALAEATVQAMYPRDNASQALGMKILEIAPGRARMSMLVRSDMLNGHATC 65

Query: 73  HGGFIFALADSAFAFSCNSRNQATVASGCSIEYLAPGAVNDVLTAEAIEQSLAGRTGVYD 132
           HGGFIFALADS FAF+CNSRN  TVASGCSIEY+AP   ND+L AEA E+SLAGRTGVYD
Sbjct: 66  HGGFIFALADSTFAFACNSRNLNTVASGCSIEYVAPALRNDMLIAEAQERSLAGRTGVYD 125

Query: 133 ITVTNQDGKRIALFRGKSYRIKGEVIAGLDA 163
           ITV+NQDGK IALFRGKSYRI+GEVI+GL A
Sbjct: 126 ITVSNQDGKTIALFRGKSYRIRGEVISGLQA 156


  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
   0.317    0.128    0.354 

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: 434,093
Number of extensions: 15356
Number of successful extensions: 60
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 60
Number of HSP's successfully gapped: 1
Length of query: 175
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 96
Effective length of database: 1,245,805
Effective search space: 119597280
Effective search space used: 119597280
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 127 (53.5 bits)