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= 0077.0012.p
         (184 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311850|ref|YP_003775942.1| AraC family transcription regul...    97   8e-22
gi|300313912|ref|YP_003778004.1| AraC family transcription regul...    74   6e-15
gi|300311694|ref|YP_003775786.1| AraC family transcription regul...    64   1e-11
gi|300313081|ref|YP_003777173.1| transcription regulator protein...    63   1e-11
gi|300312798|ref|YP_003776890.1| AraC family transcription regul...    62   3e-11

>gi|300311850|ref|YP_003775942.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 343

 Score = 97.1 bits (240), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 46/86 (53%), Positives = 61/86 (70%)

Query: 98  HITDVLERXFLSPRNFARVYKQETGRTPAKAVEIFRLEASRRLLEESDHNLDRIAVLCGF 157
           H+ ++  R  +SPR FAR+Y  ETGRTPA+ VE+ RLEA+RR LEE+   L RIA   G+
Sbjct: 242 HVENLAHRAGMSPRTFARLYVAETGRTPARTVELMRLEAARRALEETRLPLKRIASQAGY 301

Query: 158 GDEERMRVTFHRHLGVAPRDYRKRFA 183
           G+E+ +R  F R LGV+P  YR+RFA
Sbjct: 302 GEEQNLRRVFLRQLGVSPGQYRERFA 327


>gi|300313912|ref|YP_003778004.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 313

 Score = 73.9 bits (180), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 37/82 (45%), Positives = 53/82 (64%)

Query: 99  ITDVLERXFLSPRNFARVYKQETGRTPAKAVEIFRLEASRRLLEESDHNLDRIAVLCGFG 158
           + ++ E+  LS R F RV+  ETG++PAKA+E  RLEA+R ++E+S H L+ +A   GF 
Sbjct: 228 VEELAEQANLSARQFTRVFTSETGQSPAKAIEGLRLEAARLMIEQSRHPLEVVARETGFR 287

Query: 159 DEERMRVTFHRHLGVAPRDYRK 180
           D   MR  F R  GVAP+  R+
Sbjct: 288 DRRHMREVFLRGFGVAPQSMRR 309


>gi|300311694|ref|YP_003775786.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 375

 Score = 63.5 bits (153), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 32/89 (35%), Positives = 53/89 (59%)

Query: 93  MPGSPHITDVLERXFLSPRNFARVYKQETGRTPAKAVEIFRLEASRRLLEESDHNLDRIA 152
           M  S ++++  +   +S RNF R +K+ETG TP   +   R+EA+   L+E+D  +++IA
Sbjct: 266 MSSSINMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLYLKETDLPIEKIA 325

Query: 153 VLCGFGDEERMRVTFHRHLGVAPRDYRKR 181
             CG    E +   F +H GV+P +YRK+
Sbjct: 326 RRCGLVSGEHLARLFRKHHGVSPGEYRKK 354


>gi|300313081|ref|YP_003777173.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 330

 Score = 63.2 bits (152), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/81 (45%), Positives = 47/81 (58%), Gaps = 1/81 (1%)

Query: 104 ERXFLSPRNFARVYKQETGRTPAKAVEIFRLEASRRLLEESDHNLDRIAVLCGFGDEERM 163
           E   LS R F R +  ETG+TPA+A+E  R EA+R  +E+S   L+ IA   GFGD +RM
Sbjct: 235 EVACLSRRQFDRAFAAETGQTPARAIEQMRAEAARLRIEQSQDTLESIARATGFGDADRM 294

Query: 164 RVTFHRHLGVAPRDYRKRFAR 184
           R    R  G  P+  R R AR
Sbjct: 295 RRACLRLFGQPPQAMR-RLAR 314


>gi|300312798|ref|YP_003776890.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 335

 Score = 62.0 bits (149), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 30/85 (35%), Positives = 50/85 (58%)

Query: 99  ITDVLERXFLSPRNFARVYKQETGRTPAKAVEIFRLEASRRLLEESDHNLDRIAVLCGFG 158
           +  + ER  +SPRNFAR + +E G+ P + V   R++ + R LE++  +++RIA   G  
Sbjct: 249 VNALAERAAMSPRNFARRFLREVGKPPGQYVLELRIDHACRHLEKTGWSIERIAERSGLK 308

Query: 159 DEERMRVTFHRHLGVAPRDYRKRFA 183
           + + +   F +HLG+ P  YR R A
Sbjct: 309 NADTLHRVFRQHLGMTPAQYRARLA 333


  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
   0.323    0.140    0.416 

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: 609,496
Number of extensions: 24340
Number of successful extensions: 108
Number of sequences better than 1.0e-08: 6
Number of HSP's gapped: 108
Number of HSP's successfully gapped: 6
Length of query: 184
Length of database: 1,619,870
Length adjustment: 80
Effective length of query: 104
Effective length of database: 1,241,070
Effective search space: 129071280
Effective search space used: 129071280
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 127 (53.5 bits)