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= 0020.0019.p
         (308 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311165|ref|YP_003775257.1| transcription regulator protein...   270   1e-73
gi|300312614|ref|YP_003776706.1| LysR family transcription regul...    69   7e-13

>gi|300311165|ref|YP_003775257.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 311

 Score =  270 bits (690), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 127/152 (83%), Positives = 138/152 (90%)

Query: 28  RGAREVTLTTDGSKALVYAERMVKLMREMKDDMSDKQVYAGVIRIGVIESIVHSWFPDFL 87
           R AREV LT DGSKALV+AERMVKLMREMK+DMSD++VYAGVIRIGVIESIVHSWFPDFL
Sbjct: 50  RSAREVALTADGSKALVHAERMVKLMREMKEDMSDREVYAGVIRIGVIESIVHSWFPDFL 109

Query: 88  GRVHKMFPRLQIEIASDTTIHLREQFSKGNLDIVLQAEPVAGAHITNLNLCEFPMRWVGS 147
           GR+HK FPRLQIEI SDTTIHL EQFSKGNLD+VLQAE V G  ++NL LCEFPMRWVGS
Sbjct: 110 GRLHKTFPRLQIEIVSDTTIHLHEQFSKGNLDLVLQAEAVIGPQVSNLALCEFPMRWVGS 169

Query: 148 PKLNIGSETLSLSDLATFPIISFARNSGPXGL 179
           PKL+IGSETLSL+DLA FPIISFARNSGP  +
Sbjct: 170 PKLDIGSETLSLADLAAFPIISFARNSGPHAV 201


>gi|300312614|ref|YP_003776706.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 301

 Score = 68.6 bits (166), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 39/149 (26%), Positives = 75/149 (50%), Gaps = 1/149 (0%)

Query: 28  RGAREVTLTTDGSKALVYAERMVKLMREMKDDMSDKQVYAGVIRIGVIESIVHSWFPDFL 87
           R  ++  LT  G +    A +++ + R+++ ++         +RIG IES+VHSW P +L
Sbjct: 50  RREKQFRLTVAGQRFQRLAVKLLDMQRQIRQELGGHSAGPLALRIGSIESVVHSWLPAWL 109

Query: 88  GRVHKMFPRLQIEIASDTTIHLREQFSKGNLDIVLQAEPVAGAHITNLNLCEFPMRWVGS 147
             +   +P   +E+  +T+  L EQ  +G  D+V  +   +   + +  +    M +VG 
Sbjct: 110 QEIRCRYPDFALELTVETSPVLTEQIRRGAQDLVFTSTVGSDTAVRSRLMTPMEMVFVGH 169

Query: 148 PKLNIGSETLSLSDLATFPIISFARNSGP 176
            +   G+ + +L +LA   +I+F R S P
Sbjct: 170 RE-RFGTRSHTLEELAAHDLITFQRGSQP 197


  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    0.134    0.409 

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: 964,753
Number of extensions: 37499
Number of successful extensions: 132
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 137
Number of HSP's successfully gapped: 2
Length of query: 308
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 223
Effective length of database: 1,217,395
Effective search space: 271479085
Effective search space used: 271479085
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: 130 (54.7 bits)