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= 0228.0023.p
         (186 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311760|ref|YP_003775852.1| transcription regulator protein...   167   5e-43
gi|300311726|ref|YP_003775818.1| AraC family transcription regul...   152   2e-38

>gi|300311760|ref|YP_003775852.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 319

 Score =  167 bits (423), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 100/182 (54%), Positives = 118/182 (64%), Gaps = 23/182 (12%)

Query: 17  PVKLPNGEFRLGLADAPAEVRMLLGHCTFGSPDAALLVSLRGFGSPDA---------ALL 67
           P  LP+G + LG  + PAEV+++ GHC F SPD+ LLVSL     PD          A L
Sbjct: 96  PPLLPDGRYHLGTPEGPAEVQLVAGHCVFESPDSVLLVSLL----PDLVVVRAHTRLATL 151

Query: 68  VSL--------RPAREVVLSRLLEVLLIEALRSTAG--TDAPPGLLRGLSDERLAVAIRC 117
           V L        RPAREVVL+RLLEVLLIEALRS+      A PGLLRGL+D RLA AIR 
Sbjct: 152 VQLVGDESRAQRPAREVVLARLLEVLLIEALRSSNDPTVAASPGLLRGLADVRLAQAIRA 211

Query: 118 MHDNPTRPWTVAQLAKEAALSRSAFFERFSNAVGAAPMEYLLAWRMALAKNLLRTSKNGV 177
           +H  P + W V +LA+ AALSRS+FFERF   VG  PM+YLLAWRMALAK LL  +   +
Sbjct: 212 LHAQPAQDWNVPRLARVAALSRSSFFERFRREVGLTPMDYLLAWRMALAKRLLLRADGSI 271

Query: 178 AE 179
           AE
Sbjct: 272 AE 273


>gi|300311726|ref|YP_003775818.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 304

 Score =  152 bits (383), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 94/195 (48%), Positives = 119/195 (61%), Gaps = 16/195 (8%)

Query: 3   SSLAPSTPDDLVTMPVKLPNG-EFRLGLADAPAEVRMLLGHCTFGSPDAALLVSL----- 56
           SS  P+ P  L   P K+P G E R G      ++R L G   FG  D +LLVSL     
Sbjct: 77  SSFVPAPPVHLD--PNKVPEGLELRYGEQTGQPDMRSLGGSFEFGCADPSLLVSLLPKVV 134

Query: 57  RGFGSPDAALLVSL--------RPAREVVLSRLLEVLLIEALRSTAGTDAPPGLLRGLSD 108
              GS   + LV +        +P  E +LSRL E+LL+EA+RS+  T APPGLLRGL D
Sbjct: 135 HVQGSTRLSQLVQMVGEEASGGKPGSEFMLSRLAEMLLVEAMRSSTSTSAPPGLLRGLGD 194

Query: 109 ERLAVAIRCMHDNPTRPWTVAQLAKEAALSRSAFFERFSNAVGAAPMEYLLAWRMALAKN 168
           ERLAVA++ MH    + W+VAQLA+ AALSRS+FFERF+  +G APM YLLAWRM +A+ 
Sbjct: 195 ERLAVALKHMHARIEQRWSVAQLARIAALSRSSFFERFTRTLGVAPMAYLLAWRMEIARE 254

Query: 169 LLRTSKNGVAEXGCR 183
           LLR  +  V+E   R
Sbjct: 255 LLRRGELSVSEIAER 269


  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    0.393 

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: 550,771
Number of extensions: 20044
Number of successful extensions: 63
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 59
Number of HSP's successfully gapped: 3
Length of query: 186
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 106
Effective length of database: 1,241,070
Effective search space: 131553420
Effective search space used: 131553420
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: 128 (53.9 bits)