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= 0351.0002.p
         (104 letters)

Database: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

C4TU04.1 C4TU04_YERKR Transcriptional regulator, AraC family           80   5e-14
A4F0D3.1 A4F0D3_9RHOB Helix-turn-helix, AraC type:ThiJ/PfpI            80   5e-14
A9CGY9.1 A9CGY9_AGRT5 Transcriptional regulator, AraC family           80   7e-14
Q2K081.1 Q2K081_RHIEC Probable transcriptional regulator protein...    79   1e-13
B3Q185.1 B3Q185_RHIE6 Probable transcriptional regulator protein...    79   1e-13

>C4TU04.1 C4TU04_YERKR Transcriptional regulator, AraC family
          Length = 323

 Score = 80.5 bits (197), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 41/101 (40%), Positives = 62/101 (61%), Gaps = 2/101 (1%)

Query: 1   LQKAVSLINEHFTEPLLVSNLAAAVGYSVQHFQRLFLQEYGITPHRYLQNLRLERALQLI 60
           L++    I EHF +PLL+S+LA   G S  HF R+F Q  G+ PH+++  +RL RA QL+
Sbjct: 222 LKRVKEYIGEHFVQPLLLSDLAEQAGLSEFHFARMFKQSTGLAPHQFVLKVRLSRAEQLL 281

Query: 61  RENADIPVQEIALNLGMET-NYFIRVFRNTYGCTPGTMRKR 100
           + +  +P+  IAL  G  + ++F   F+  YG TP  MR+R
Sbjct: 282 KYSM-MPLIHIALECGFSSASHFSNCFKAAYGVTPSLMRQR 321


>A4F0D3.1 A4F0D3_9RHOB Helix-turn-helix, AraC type:ThiJ/PfpI
          Length = 339

 Score = 80.5 bits (197), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 41/99 (41%), Positives = 67/99 (67%), Gaps = 2/99 (2%)

Query: 1   LQKAVSLINEHFTEPLLVSNLAAAVGYSVQHFQRLFLQEYGITPHRYLQNLRLERALQLI 60
           LQ+A++L+ ++  EPL V+ +AA +G SV+  +RLFL+  G +P R+ +  RLE    L+
Sbjct: 237 LQQAINLMLDNLEEPLSVNTIAAIIGLSVRQVERLFLRYLGTSPVRFYRMERLELGRSLV 296

Query: 61  RENADIPVQEIALNLGMET-NYFIRVFRNTYGCTPGTMR 98
            E+ ++P+ EIAL  G ++ + FI++FRN +G TP T R
Sbjct: 297 -EDTNMPITEIALACGFKSLSSFIKLFRNNFGATPITFR 334


>A9CGY9.1 A9CGY9_AGRT5 Transcriptional regulator, AraC family
          Length = 295

 Score = 79.7 bits (195), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 41/99 (41%), Positives = 58/99 (58%), Gaps = 1/99 (1%)

Query: 1   LQKAVSLINEHFTEPLLVSNLAAAVGYSVQHFQRLFLQEYGITPHRYLQNLRLERALQLI 60
           LQ+ +S I+ H  E L VS+LAA  G S  HF R+F    G+ P  ++   RL RA +L+
Sbjct: 186 LQQVLSYIDSHLGERLSVSDLAAVAGLSRAHFSRIFTASEGLPPAEFVLQRRLRRAAKLL 245

Query: 61  RENADIPVQEIALNLGMET-NYFIRVFRNTYGCTPGTMR 98
              A+IP++E+++  G E  NYF +VFR  YG  P   R
Sbjct: 246 TTAANIPIKEVSVLCGFEDPNYFSKVFRRLYGINPSEFR 284


>Q2K081.1 Q2K081_RHIEC Probable transcriptional regulator protein, AraC
           family
          Length = 280

 Score = 79.0 bits (193), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 40/99 (40%), Positives = 58/99 (58%), Gaps = 1/99 (1%)

Query: 1   LQKAVSLINEHFTEPLLVSNLAAAVGYSVQHFQRLFLQEYGITPHRYLQNLRLERALQLI 60
           +Q  +  IN +  +PL VS LAA VG S  HF R F +  G+ P  ++   RL+RA++L+
Sbjct: 170 MQPVIDHINANLDKPLPVSELAAIVGLSRAHFSRSFAESEGVPPAEFVLQQRLQRAVKLL 229

Query: 61  RENADIPVQEIALNLGME-TNYFIRVFRNTYGCTPGTMR 98
            +   +PV+E+A+  G E  NYF +VFR  YG  P   R
Sbjct: 230 TKADFLPVKEVAIMCGFEDANYFSKVFRRVYGTNPTEFR 268


>B3Q185.1 B3Q185_RHIE6 Probable transcriptional regulator protein, AraC
           family
          Length = 291

 Score = 79.0 bits (193), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 40/99 (40%), Positives = 58/99 (58%), Gaps = 1/99 (1%)

Query: 1   LQKAVSLINEHFTEPLLVSNLAAAVGYSVQHFQRLFLQEYGITPHRYLQNLRLERALQLI 60
           +Q  +  IN +  +PL VS LAA VG S  HF R F +  G+ P  ++   RL+RA++L+
Sbjct: 181 MQPVIDHINANLDKPLPVSELAAIVGLSRAHFSRSFAESEGVPPAEFVLQQRLQRAVKLL 240

Query: 61  RENADIPVQEIALNLGME-TNYFIRVFRNTYGCTPGTMR 98
            +   +PV+E+A+  G E  NYF +VFR  YG  P   R
Sbjct: 241 TKADFLPVKEVAIMCGFEDANYFSKVFRRVYGTNPTEFR 279


  Database: pfamseq
    Posted date:  Aug 5, 2010  3:22 PM
  Number of letters in database: 3,060,696,203
  Number of sequences in database:  9,421,015
  
Lambda     K      H
   0.325    0.139    0.406 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 9421015
Number of Hits to DB: 566,492,910
Number of extensions: 18409715
Number of successful extensions: 85097
Number of sequences better than 1.0e-05: 1736
Number of HSP's gapped: 88697
Number of HSP's successfully gapped: 1736
Length of query: 104
Length of database: 3,060,696,203
Length adjustment: 72
Effective length of query: 32
Effective length of database: 2,382,383,123
Effective search space: 76236259936
Effective search space used: 76236259936
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 (21.6 bits)
S2: 126 (53.1 bits)