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= 0017.0112.p
         (60 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312645|ref|YP_003776737.1| LysR family transcription regul...   105   1e-24
gi|300310906|ref|YP_003774998.1| LysR family transcription regul...    67   4e-13
gi|300313964|ref|YP_003778056.1| LysR family transcription regul...    62   6e-12
gi|300309577|ref|YP_003773669.1| transcription regulator protein...    58   2e-10
gi|300312894|ref|YP_003776986.1| LysR family transcription regul...    54   3e-09

>gi|300312645|ref|YP_003776737.1| LysR family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 287

 Score =  105 bits (261), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 51/58 (87%), Positives = 56/58 (96%)

Query: 1  MHLPLNALRAFEVAARHLSFTSAADELNVTQTAVSMQVKNLEERLGVTLFRRLPRGLA 58
          M+LPLNALRAFEV+ARHLSFT AA+EL+VTQTAVSMQVKNLE+RLGV LFRRLPRGLA
Sbjct: 1  MYLPLNALRAFEVSARHLSFTRAAEELSVTQTAVSMQVKNLEQRLGVALFRRLPRGLA 58


>gi|300310906|ref|YP_003774998.1| LysR family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 300

 Score = 66.6 bits (161), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 35/53 (66%), Positives = 39/53 (73%)

Query: 3  LPLNALRAFEVAARHLSFTSAADELNVTQTAVSMQVKNLEERLGVTLFRRLPR 55
          LPLNA+RAF  AARH SFT AA ELNVT  A+S Q+KNLE  LG+ LF R  R
Sbjct: 6  LPLNAIRAFLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTR 58


>gi|300313964|ref|YP_003778056.1| LysR family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 314

 Score = 62.4 bits (150), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 35/52 (67%), Positives = 39/52 (75%)

Query: 4  PLNALRAFEVAARHLSFTSAADELNVTQTAVSMQVKNLEERLGVTLFRRLPR 55
          PL ALRAFE  AR LSFT+AADEL+VTQ+AVS QV+ LE  L   LF RL R
Sbjct: 6  PLTALRAFEATARLLSFTAAADELHVTQSAVSRQVRILEAHLEQKLFVRLTR 57


>gi|300309577|ref|YP_003773669.1| transcription regulator protein
          [Herbaspirillum seropedicae SmR1]
          Length = 301

 Score = 57.8 bits (138), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 31/54 (57%), Positives = 37/54 (68%)

Query: 4  PLNALRAFEVAARHLSFTSAADELNVTQTAVSMQVKNLEERLGVTLFRRLPRGL 57
          PL +L AFE A RH SFT AA EL++TQ+A+S Q+  LE  LG  LF R PR L
Sbjct: 8  PLPSLIAFEAAMRHGSFTRAAAELHLTQSAISRQIAQLERFLGKKLFLREPRAL 61


>gi|300312894|ref|YP_003776986.1| LysR family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 299

 Score = 53.9 bits (128), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/48 (56%), Positives = 35/48 (72%)

Query: 6  NALRAFEVAARHLSFTSAADELNVTQTAVSMQVKNLEERLGVTLFRRL 53
          ++L AFE AARH SF  AA+EL +T+ A+S Q+  LE  LGVTLF R+
Sbjct: 9  SSLMAFEAAARHGSFARAAEELALTEGAISRQISRLEGFLGVTLFERI 56


  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    0.130    0.351 

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: 149,453
Number of extensions: 3663
Number of successful extensions: 96
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 96
Number of HSP's successfully gapped: 5
Length of query: 60
Length of database: 1,619,870
Length adjustment: 33
Effective length of query: 27
Effective length of database: 1,463,615
Effective search space: 39517605
Effective search space used: 39517605
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 (22.0 bits)
S2: 123 (52.0 bits)