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= 0001.3995.p
         (178 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313414|ref|YP_003777506.1| phenylacetic acid degradation p...   281   2e-77

>gi|300313414|ref|YP_003777506.1| phenylacetic acid degradation
           protein [Herbaspirillum seropedicae SmR1]
          Length = 181

 Score =  281 bits (720), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 133/169 (78%), Positives = 145/169 (85%)

Query: 10  EVLQAQIWAWLEAIPDPEIPVISVVDLGIVRAVEVSDEDAAAARCTVVITPTYSGCPAMG 69
           + L+A+IW WLEA+PDPEIPV+SVVDLGIVR VE+    A  ARCTVVITPTYSGCPAMG
Sbjct: 13  DALKARIWDWLEAVPDPEIPVLSVVDLGIVREVEIEAAGAVDARCTVVITPTYSGCPAMG 72

Query: 70  VIAQDIGVALKQQGLAQVTIRTQLAPAWNTDWMSEKGRRNLKQYGIAPPAQQVIDISSIH 129
           VIA+DI   L+++GLAQV IR QLAPAW+TDWMSEKGR NL+QYGIAPPAQQVIDI  I 
Sbjct: 73  VIAEDITTVLQEKGLAQVAIRIQLAPAWSTDWMSEKGRHNLRQYGIAPPAQQVIDIRGIQ 132

Query: 130 LKRHAAPQVPCPRCGSMHTVCVSQFGSTSCKALYQCKDCREPFDYFKAH 178
           LK HAA QV CP CGS  TVCVSQFGSTSCKALYQCKDCREPFDYFKAH
Sbjct: 133 LKHHAAAQVDCPHCGSSRTVCVSQFGSTSCKALYQCKDCREPFDYFKAH 181


  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
   0.322    0.133    0.421 

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: 528,749
Number of extensions: 19008
Number of successful extensions: 57
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 57
Number of HSP's successfully gapped: 1
Length of query: 178
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 99
Effective length of database: 1,245,805
Effective search space: 123334695
Effective search space used: 123334695
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 (21.9 bits)
S2: 127 (53.5 bits)