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= 0196.0007.p
         (163 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...   132   1e-32
gi|300313797|ref|YP_003777889.1| AraC family transcription regul...    66   1e-12
gi|300311952|ref|YP_003776044.1| AraC family transcription regul...    57   7e-10
gi|300313807|ref|YP_003777899.1| AraC family transcription regul...    56   1e-09

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

 Score =  132 bits (332), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 70/125 (56%), Positives = 86/125 (68%), Gaps = 3/125 (2%)

Query: 38  LIAALCELFDICREAGVEMHQARTAD---LQSVRDYLQEHCCHKIALDTLAQLAGVGRYQ 94
           +I  L E+  +C EA        T D   L     +LQ+HC   ++LD LA++AG+GRYQ
Sbjct: 153 VITCLQEIMLLCAEACAHDAAPLTEDAHGLGRAYAHLQQHCRRSVSLDELAEVAGMGRYQ 212

Query: 95  LIRQFRAQFGMTPHALQLDMRINLARDFLRHGVALAEVAYRTGFADQSHFHRIFKSRVAA 154
           LIRQFR ++GMTPHALQLDM+I  AR  L+ G + A+ AY TGFADQSHFHR FKSRVAA
Sbjct: 213 LIRQFRRRYGMTPHALQLDMKIRQARTLLQQGASAADAAYDTGFADQSHFHRAFKSRVAA 272

Query: 155 TPAQY 159
           TP QY
Sbjct: 273 TPLQY 277


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

 Score = 66.2 bits (160), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 34/94 (36%), Positives = 51/94 (54%), Gaps = 1/94 (1%)

Query: 67  VRDYLQEHCCHKIALDTLAQLAGVGRYQLIRQFRAQFGMTPHALQLDMRINLARDFLRH- 125
           VRD++  H   +++L  +A  +G+ R    R F+  FG++PHA     RI LA   L   
Sbjct: 196 VRDFMLSHLAQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQQQRIALACRLLHEG 255

Query: 126 GVALAEVAYRTGFADQSHFHRIFKSRVAATPAQY 159
           G ++  +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 = 57.0 bits (136), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 31/97 (31%), Positives = 52/97 (53%)

Query: 64  LQSVRDYLQEHCCHKIALDTLAQLAGVGRYQLIRQFRAQFGMTPHALQLDMRINLARDFL 123
           L   R  L++      ++D LAQ  G+ + +L   FRA  G T HA   ++R++ A   L
Sbjct: 218 LLQARQLLEQRYAESWSVDRLAQAVGLNQKKLQAGFRAMAGRTVHAHLRELRLHAAAAML 277

Query: 124 RHGVALAEVAYRTGFADQSHFHRIFKSRVAATPAQYQ 160
             G+ +A+ 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 = 56.2 bits (134), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 35/117 (29%), Positives = 56/117 (47%), Gaps = 6/117 (5%)

Query: 50  REAGVEMHQARTADLQSVRD-----YLQEHCCHKIALDTLAQLAGVGRYQLIRQFRAQFG 104
           R  G      RTA L  + +      L E     +++  +A+   +     +R F+A  G
Sbjct: 179 RYGGAPAPTLRTAPLSRLHEERAKMMLLEKVKGNVSIPEIARECNMSASYFLRAFKASTG 238

Query: 105 MTPHALQLDMRINLARDFLRHG-VALAEVAYRTGFADQSHFHRIFKSRVAATPAQYQ 160
            TPH   +  R+ +A+ +LR   + LAE+A    F DQSHF R+F   V +TP  ++
Sbjct: 239 HTPHQWLMVQRVEMAQQYLRSTQLTLAEIALACDFYDQSHFSRVFSQVVGSTPGAWR 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
   0.329    0.138    0.421 

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: 489,049
Number of extensions: 17810
Number of successful extensions: 120
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 131
Number of HSP's successfully gapped: 5
Length of query: 163
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 85
Effective length of database: 1,250,540
Effective search space: 106295900
Effective search space used: 106295900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 127 (53.5 bits)