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= 0012.0112.p
         (250 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313413|ref|YP_003777505.1| phenylacetic acid degradation p...   390   e-110

>gi|300313413|ref|YP_003777505.1| phenylacetic acid degradation
           protein [Herbaspirillum seropedicae SmR1]
          Length = 250

 Score =  390 bits (1001), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 186/250 (74%), Positives = 208/250 (83%)

Query: 1   MSDKATYVRRLGDNALILSQRLSEWCGKGPALEEDMALTNVALDLIGQARLWLSYAAELE 60
           M+ K  YVRRLGDN L+LSQRL+EWCGKGPALEEDMAL NV+LDLIGQARLWLSYAAELE
Sbjct: 1   MTQKTDYVRRLGDNVLVLSQRLTEWCGKGPALEEDMALINVSLDLIGQARLWLSYAAELE 60

Query: 61  AAGRNEDQLAFLRDAHQFSNVLLVEQPNGNYADTLVRQFFFDAAHYFLLEALTTSTDPRI 120
             GRNEDQLAFLRDAHQF N+LLVE PNG+YADTL RQF FD  HYFLLE L  S+D RI
Sbjct: 61  GQGRNEDQLAFLRDAHQFHNLLLVELPNGSYADTLARQFLFDVWHYFLLEGLCQSSDARI 120

Query: 121 AGIAQKSIKEVTYHVRRSGDLIVRLGDGTELSHRMVQQAVDYLWPYTGELFSSDAADLAM 180
           A IAQK  KEVTYHVRRS DL++RLGDGTE SHR +Q A+D LW YTGELF +DA D AM
Sbjct: 121 AEIAQKCFKEVTYHVRRSTDLMIRLGDGTEDSHRRMQAAIDALWMYTGELFVADALDQAM 180

Query: 181 QQEGVAPAPDAIRAQWLQHVQEILTEATLQTPPADAWMQSGGKQGKHTEHLGFLLAEMQF 240
           Q++GVA A   ++ +W QHV ++L EATL+ PPA  WMQSGGK G+HTEHLG+LLAEMQF
Sbjct: 181 QEQGVATALGEVQQKWTQHVTDVLLEATLKVPPAGLWMQSGGKAGRHTEHLGYLLAEMQF 240

Query: 241 LQRAYPGATW 250
           LQRAYPGA W
Sbjct: 241 LQRAYPGAQW 250


  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
   0.319    0.133    0.398 

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: 826,191
Number of extensions: 33489
Number of successful extensions: 118
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 118
Number of HSP's successfully gapped: 1
Length of query: 250
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 167
Effective length of database: 1,226,865
Effective search space: 204886455
Effective search space used: 204886455
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: 129 (54.3 bits)