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= 0003.0062.p
         (191 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312868|ref|YP_003776960.1| tryptophan repressor binding pr...   329   1e-91
gi|300312603|ref|YP_003776695.1| TRP repressor binding protein [...    57   7e-10

>gi|300312868|ref|YP_003776960.1| tryptophan repressor binding
           protein [Herbaspirillum seropedicae SmR1]
          Length = 191

 Score =  329 bits (843), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 168/191 (87%), Positives = 179/191 (93%)

Query: 1   MSKVAIVYHSGYGHTKKQAEAVQAGAASAAGATVDLIAINAEGNITDADWATLDAADAII 60
           M+KVAIVYHSGYGHTKKQAEAVQAGAA  AGA V+LIAI+AEG ITD  WA+LDAADAII
Sbjct: 1   MTKVAIVYHSGYGHTKKQAEAVQAGAAGVAGANVELIAISAEGTITDEQWASLDAADAII 60

Query: 61  FGSPTYMGSVSWQFKKFADATSKPWFTQKWKDKIGAGFTNSATMNGDKLSTLHYLFTLGM 120
           FGSPTYMG+VSWQFKKFADA+SK WF+QKWKDK+GA FTNSATMNGDKLSTLHYLFTLGM
Sbjct: 61  FGSPTYMGTVSWQFKKFADASSKHWFSQKWKDKVGAAFTNSATMNGDKLSTLHYLFTLGM 120

Query: 121 QQSMIWVGTGLMPSNSKAAQRNDINFVGSFSGLMAQSPSDSSPDEGPLPGDLETAKLFGK 180
           Q SMIWVGTGLMP+NSKAAQRNDINFVGSFSGLMAQSPSDSSP+EGPLPGDLETAKLFG 
Sbjct: 121 QHSMIWVGTGLMPANSKAAQRNDINFVGSFSGLMAQSPSDSSPEEGPLPGDLETAKLFGA 180

Query: 181 RVAETTAQFKK 191
           RV ET A+FKK
Sbjct: 181 RVVETAARFKK 191


>gi|300312603|ref|YP_003776695.1| TRP repressor binding protein
           [Herbaspirillum seropedicae SmR1]
          Length = 214

 Score = 57.4 bits (137), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 34/138 (24%), Positives = 63/138 (45%), Gaps = 13/138 (9%)

Query: 4   VAIVYHSGYGHTKKQAEAVQAGAASAAGATVDLIAINAEGNITDA-------------DW 50
           + ++Y+S +G T+K AE +  G  S  G    L  + A   + +A             + 
Sbjct: 19  ILVLYYSRHGATRKLAELIAQGVESVPGCDARLRTVPAVSTVAEAVEPDVPASGAPYVEA 78

Query: 51  ATLDAADAIIFGSPTYMGSVSWQFKKFADATSKPWFTQKWKDKIGAGFTNSATMNGDKLS 110
           + L+  D +  GSPT  G+++   K F D T+  W +     K    FT++ +++G + +
Sbjct: 79  SDLEECDGLALGSPTRFGNMAAAMKYFWDGTAPQWLSGALTGKPACVFTSTGSLHGGQEA 138

Query: 111 TLHYLFTLGMQQSMIWVG 128
           TL  +    +   M+ VG
Sbjct: 139 TLLSMMIPLLHHGMLLVG 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
   0.314    0.127    0.377 

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: 497,031
Number of extensions: 17503
Number of successful extensions: 43
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 42
Number of HSP's successfully gapped: 2
Length of query: 191
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 111
Effective length of database: 1,241,070
Effective search space: 137758770
Effective search space used: 137758770
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 128 (53.9 bits)