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= 0012.0061.p
         (185 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...   140   8e-35
gi|300312603|ref|YP_003776695.1| TRP repressor binding protein [...    69   3e-13

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

 Score =  140 bits (352), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 84/190 (44%), Positives = 120/190 (63%), Gaps = 10/190 (5%)

Query: 2   NISIVFDSGYGHTEKLAQSVARGVEEVAGAHATLVPLAA-GSV---DWAAIAASDAIIFG 57
            ++IV+ SGYGHT+K A++V  G   VAGA+  L+ ++A G++    WA++ A+DAIIFG
Sbjct: 3   KVAIVYHSGYGHTKKQAEAVQAGAAGVAGANVELIAISAEGTITDEQWASLDAADAIIFG 62

Query: 58  SPTYNGTISARFKQFMEDSTRQAWIPQTWRNKVAAGFTNSGALHGDKLNSLVTLALFAAQ 117
           SPTY GT+S +FK+F + S++  W  Q W++KV A FTNS  ++GDKL++L  L     Q
Sbjct: 63  SPTYMGTVSWQFKKFADASSKH-WFSQKWKDKVGAAFTNSATMNGDKLSTLHYLFTLGMQ 121

Query: 118 HGMLWTGVDLFPGKSG----DELNRIGGWLGAMAQS-DDAPAEITPGASDLATAAYLGKR 172
           H M+W G  L P  S     +++N +G + G MAQS  D+  E  P   DL TA   G R
Sbjct: 122 HSMIWVGTGLMPANSKAAQRNDINFVGSFSGLMAQSPSDSSPEEGPLPGDLETAKLFGAR 181

Query: 173 VAEVAAQFAR 182
           V E AA+F +
Sbjct: 182 VVETAARFKK 191


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

 Score = 68.6 bits (166), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 63/206 (30%), Positives = 92/206 (44%), Gaps = 36/206 (17%)

Query: 2   NISIVFDSGYGHTEKLAQSVARGVEEVAGAHATLVPLAAGS-----------------VD 44
            I +++ S +G T KLA+ +A+GVE V G  A L  + A S                 V+
Sbjct: 18  TILVLYYSRHGATRKLAELIAQGVESVPGCDARLRTVPAVSTVAEAVEPDVPASGAPYVE 77

Query: 45  WAAIAASDAIIFGSPTYNGTISARFKQFMEDSTRQAWIPQTWRNKVAAGFTNSGALHGDK 104
            + +   D +  GSPT  G ++A  K F  D T   W+      K A  FT++G+LHG +
Sbjct: 78  ASDLEECDGLALGSPTRFGNMAAAMKYFW-DGTAPQWLSGALTGKPACVFTSTGSLHGGQ 136

Query: 105 LNSLVTLALFAAQHGMLWTGV-----DLFPGKSGDELNRIGGWLGAMAQ---SDDAPAEI 156
             +L+++ +    HGML  G+     +L    SG        W G       SDD     
Sbjct: 137 EATLLSMMIPLLHHGMLLVGLPYSHPELMNTHSGGTPYGASHWAGVNGNQPLSDD----- 191

Query: 157 TPGASDLATAAYLGKRVAEVAAQFAR 182
              +  LA A  LGKR+AE A +  R
Sbjct: 192 ---SRTLAIA--LGKRLAENAIKLRR 212


  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    0.130    0.390 

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: 598,587
Number of extensions: 23408
Number of successful extensions: 108
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 105
Number of HSP's successfully gapped: 2
Length of query: 185
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 105
Effective length of database: 1,241,070
Effective search space: 130312350
Effective search space used: 130312350
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: 128 (53.9 bits)