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= 0026.0038.p
         (269 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313159|ref|YP_003777251.1| AraC family transcription regul...   540   e-155
gi|300313797|ref|YP_003777889.1| AraC family transcription regul...    59   5e-10
gi|300311952|ref|YP_003776044.1| AraC family transcription regul...    57   2e-09

>gi|300313159|ref|YP_003777251.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 280

 Score =  540 bits (1391), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 265/269 (98%), Positives = 265/269 (98%)

Query: 1   MPALQHFWRDPALPFLEGRRATGSLSCYAPHTHDSFSIGIVDAGHSIFALAEHSQPIAPG 60
           MPALQHFWRDPALPFLEGRRATGSLSCYAPHTHDSFSIGIVDAGHSIFALAEHSQPIAPG
Sbjct: 12  MPALQHFWRDPALPFLEGRRATGSLSCYAPHTHDSFSIGIVDAGHSIFALAEHSQPIAPG 71

Query: 61  DVVLVRAGDVHCCNPADLQCWSYRMFHIEHAWLRALLAETPATRGLPERMRSQVLRSPQA 120
           DVVLVRAGDVHCCNPADLQCWSYRMFHIEH WL  LLAETPATRGLPERMRSQVLRSPQA
Sbjct: 72  DVVLVRAGDVHCCNPADLQCWSYRMFHIEHGWLSTLLAETPATRGLPERMRSQVLRSPQA 131

Query: 121 VQLLDRMTLALDHDASERVAEVITCLQEIMLLCAEACAHDAAPLTEDAHRLGRAYAHLQQ 180
           VQLLDRMTLALDHDASERVAEVITCLQEIMLLCAEACAHDAAPLTEDAH LGRAYAHLQQ
Sbjct: 132 VQLLDRMTLALDHDASERVAEVITCLQEIMLLCAEACAHDAAPLTEDAHGLGRAYAHLQQ 191

Query: 181 HCRRSVSLDELAEVAGMGRYQLIRQFRRRYGMTPHALQLDMKIRQARTLLQQGASAADAA 240
           HCRRSVSLDELAEVAGMGRYQLIRQFRRRYGMTPHALQLDMKIRQARTLLQQGASAADAA
Sbjct: 192 HCRRSVSLDELAEVAGMGRYQLIRQFRRRYGMTPHALQLDMKIRQARTLLQQGASAADAA 251

Query: 241 YDTGFADQSHFHRAFKSRVAATPLQYTRR 269
           YDTGFADQSHFHRAFKSRVAATPLQYTRR
Sbjct: 252 YDTGFADQSHFHRAFKSRVAATPLQYTRR 280


>gi|300313797|ref|YP_003777889.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 294

 Score = 58.5 bits (140), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 33/90 (36%), Positives = 48/90 (53%), Gaps = 1/90 (1%)

Query: 181 HCRRSVSLDELAEVAGMGRYQLIRQFRRRYGMTPHALQLDMKIRQA-RTLLQQGASAADA 239
           H  + +SL E+A  +G+ R    R F++ +G++PHA     +I  A R L + G S    
Sbjct: 203 HLAQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQQQRIALACRLLHEGGKSMTTI 262

Query: 240 AYDTGFADQSHFHRAFKSRVAATPLQYTRR 269
           A + GF+DQSHF R FK      P  + RR
Sbjct: 263 ALECGFSDQSHFSRVFKQVQGMGPAAWLRR 292


>gi|300311952|ref|YP_003776044.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 322

 Score = 57.0 bits (136), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 55/104 (52%)

Query: 165 TEDAHRLGRAYAHLQQHCRRSVSLDELAEVAGMGRYQLIRQFRRRYGMTPHALQLDMKIR 224
           T +  +L +A   L+Q    S S+D LA+  G+ + +L   FR   G T HA   ++++ 
Sbjct: 212 TREQRQLLQARQLLEQRYAESWSVDRLAQAVGLNQKKLQAGFRAMAGRTVHAHLRELRLH 271

Query: 225 QARTLLQQGASAADAAYDTGFADQSHFHRAFKSRVAATPLQYTR 268
            A  +L +G   AD A   GF++ SHF ++F+     TP Q+ +
Sbjct: 272 AAAAMLAEGMGVADTALAVGFSNLSHFSKSFRQTHGVTPSQWKQ 315


  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
   0.326    0.134    0.420 

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: 875,557
Number of extensions: 35758
Number of successful extensions: 237
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 247
Number of HSP's successfully gapped: 4
Length of query: 269
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 185
Effective length of database: 1,222,130
Effective search space: 226094050
Effective search space used: 226094050
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 130 (54.7 bits)