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= 0007.0140.p
         (167 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313235|ref|YP_003777327.1| 2,3-dihydroxybiphenyl dioxygena...    54   5e-09

>gi|300313235|ref|YP_003777327.1| 2,3-dihydroxybiphenyl dioxygenase
           [Herbaspirillum seropedicae SmR1]
          Length = 165

 Score = 54.3 bits (129), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 40/122 (32%), Positives = 59/122 (48%), Gaps = 10/122 (8%)

Query: 11  HVGIHVTDMDRSRAFYRDVLKLTITDMDPVSGATFFSSRPEEEHHELLL----APGRTVK 66
           H+ + V D   S  +Y DVL +T+T         F S    ++HH++ L     P + V 
Sbjct: 23  HLALFVKDPHGSAPWYEDVLGMTVTAR--AERWVFLSF--GKKHHDIALIRVEEPSQAV- 77

Query: 67  RGEVLVQQVSFRC-NTLEEVIYFYKRLLEADAEIEQVVTHGNAIGVYFFDPDGNRCEVYW 125
           RGEV +Q         +EE    Y  LL    EI ++  H    G+YF DPDG+R E ++
Sbjct: 78  RGEVNMQHYGLEVEGDMEEFRRLYGMLLAKGIEIFKITDHKVGYGIYFHDPDGHRFEFFF 137

Query: 126 DT 127
           +T
Sbjct: 138 ET 139


  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
   0.320    0.137    0.397 

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: 458,173
Number of extensions: 16188
Number of successful extensions: 54
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 53
Number of HSP's successfully gapped: 1
Length of query: 167
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 88
Effective length of database: 1,245,805
Effective search space: 109630840
Effective search space used: 109630840
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: 127 (53.5 bits)