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= 0031.0116.p
         (114 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...   131   1e-32
gi|300313797|ref|YP_003777889.1| AraC family transcription regul...    70   3e-14
gi|300311952|ref|YP_003776044.1| AraC family transcription regul...    56   6e-10
gi|300313807|ref|YP_003777899.1| AraC family transcription regul...    53   5e-09

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

 Score =  131 bits (330), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 64/90 (71%), Positives = 75/90 (83%)

Query: 21  YLQGHCCDRIALDTLAQLAGVGRYQLIRQFRAQFGMTPHALQLDMRINLARDFLRRGASL 80
           +LQ HC   ++LD LA++AG+GRYQLIRQFR ++GMTPHALQLDM+I  AR  L++GAS 
Sbjct: 188 HLQQHCRRSVSLDELAEVAGMGRYQLIRQFRRRYGMTPHALQLDMKIRQARTLLQQGASA 247

Query: 81  ADVAYRTGFADQSHFHRIFKSRVAATPAQY 110
           AD AY TGFADQSHFHR FKSRVAATP QY
Sbjct: 248 ADAAYDTGFADQSHFHRAFKSRVAATPLQY 277


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

 Score = 70.5 bits (171), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 36/94 (38%), Positives = 51/94 (54%), Gaps = 1/94 (1%)

Query: 18  VRDYLQGHCCDRIALDTLAQLAGVGRYQLIRQFRAQFGMTPHALQLDMRINLARDFLRRG 77
           VRD++  H   R++L  +A  +G+ R    R F+  FG++PHA     RI LA   L  G
Sbjct: 196 VRDFMLSHLAQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQQQRIALACRLLHEG 255

Query: 78  A-SLADVAYRTGFADQSHFHRIFKSRVAATPAQY 110
             S+  +A   GF+DQSHF R+FK      PA +
Sbjct: 256 GKSMTTIALECGFSDQSHFSRVFKQVQGMGPAAW 289


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

 Score = 56.2 bits (134), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 32/97 (32%), Positives = 51/97 (52%)

Query: 15  LQSVRDYLQGHCCDRIALDTLAQLAGVGRYQLIRQFRAQFGMTPHALQLDMRINLARDFL 74
           L   R  L+    +  ++D LAQ  G+ + +L   FRA  G T HA   ++R++ A   L
Sbjct: 218 LLQARQLLEQRYAESWSVDRLAQAVGLNQKKLQAGFRAMAGRTVHAHLRELRLHAAAAML 277

Query: 75  RRGASLADVAYRTGFADQSHFHRIFKSRVAATPAQYQ 111
             G  +AD A   GF++ SHF + F+     TP+Q++
Sbjct: 278 AEGMGVADTALAVGFSNLSHFSKSFRQTHGVTPSQWK 314


>gi|300313807|ref|YP_003777899.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 299

 Score = 53.1 bits (126), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 26/83 (31%), Positives = 46/83 (55%), Gaps = 1/83 (1%)

Query: 30  IALDTLAQLAGVGRYQLIRQFRAQFGMTPHALQLDMRINLARDFLRRGA-SLADVAYRTG 88
           +++  +A+   +     +R F+A  G TPH   +  R+ +A+ +LR    +LA++A    
Sbjct: 213 VSIPEIARECNMSASYFLRAFKASTGHTPHQWLMVQRVEMAQQYLRSTQLTLAEIALACD 272

Query: 89  FADQSHFHRIFKSRVAATPAQYQ 111
           F DQSHF R+F   V +TP  ++
Sbjct: 273 FYDQSHFSRVFSQVVGSTPGAWR 295


  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
   0.330    0.140    0.418 

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: 354,216
Number of extensions: 12571
Number of successful extensions: 94
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 104
Number of HSP's successfully gapped: 5
Length of query: 114
Length of database: 1,619,870
Length adjustment: 73
Effective length of query: 41
Effective length of database: 1,274,215
Effective search space: 52242815
Effective search space used: 52242815
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 124 (52.4 bits)