BLASTP 2.2.21 [Jun-14-2009]

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= 0002.0277.p         (156 letters)

Database: COGmodified 
           192,987 sequences; 59,019,183 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AGc2651 [K] COG2207 AraC-type DNA-binding domain-containing prot...    93   2e-19
SMa1749 [K] COG2207 AraC-type DNA-binding domain-containing prot...    71   7e-13
PA0780 [K] COG2207 AraC-type DNA-binding domain-containing prote...    70   1e-12
RSp0044 [K] COG4977 Transcriptional regulator containing an amid...    66   2e-11
PA3220 [K] COG2207 AraC-type DNA-binding domain-containing prote...    66   3e-11

>AGc2651 [K] COG2207 AraC-type DNA-binding domain-containing proteins Atu
           Agrobacterium tumefaciens strain C58 (Cereon)
          Length = 252

 Score = 93.2 bits (230), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 54/117 (46%), Positives = 70/117 (59%), Gaps = 1/117 (0%)

Query: 34  PLLLEAL-TAMPQRHSRLHGLLLRIDAAPGQVWTAARMARVANLSASRLHALFKSELGRT 92
           PLL+++L         RL  L   + A P   WT   +A  A++S SRLHALF  E G +
Sbjct: 132 PLLVDSLANERADIRKRLRWLGAVVGAEPFFPWTIDMLAACASISESRLHALFIEEFGLS 191

Query: 93  PQEWLSDVRLRFVQDALAGSDTPLAELALRAGYSDQSALTRAMRRTTGMTPAAYRRE 149
           P  WL  +R+  V   L  S  P+AE+ALR+G+SDQ+ALTRA+R   G TPAAYRR 
Sbjct: 192 PHRWLVGLRMDKVCTLLRESSLPIAEIALRSGFSDQTALTRALRNAVGETPAAYRRN 248


>SMa1749 [K] COG2207 AraC-type DNA-binding domain-containing proteins Sme
           Sinorhizobium meliloti
          Length = 299

 Score = 71.2 bits (173), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 47/140 (33%), Positives = 73/140 (52%), Gaps = 8/140 (5%)

Query: 23  VLPESVVRHCTPLLLEALTAMPQR------HSRLHGLLLRIDAAPGQVWTAARMARVANL 76
           V  ES++      LL+  T   +R       ++++ L+  IDA      + A MA V  L
Sbjct: 161 VYAESLIGSIIAGLLDIPTEREERAGGRLTQAQINKLVSHIDALGDYRMSVADMAAVVGL 220

Query: 77  SASRLHALFKSELGRTPQEWLSDVRLRFVQDALAGSDTPLAELALRAGYSDQSALTRAMR 136
           S S   ++FK  +G TP +W    R+   +  L  SD P+A +A + G++DQ+ LT+  R
Sbjct: 221 SESWFASVFKQTMGITPLQWQLAKRVELTKKLLGESDLPVASIAAQLGFADQAHLTKVFR 280

Query: 137 RTTGMTPAAYRREHRREHRQ 156
           +  G TPAA+RR   R+ RQ
Sbjct: 281 QIVGETPAAWRR--MRQFRQ 298


>PA0780 [K] COG2207 AraC-type DNA-binding domain-containing proteins Pae
           Pseudomonas aeruginosa
          Length = 250

 Score = 70.5 bits (171), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 39/83 (46%), Positives = 49/83 (59%)

Query: 66  TAARMARVANLSASRLHALFKSELGRTPQEWLSDVRLRFVQDALAGSDTPLAELALRAGY 125
           T A +A+VA LS S  HA FK  +G TP ++L  VRL      L  S  PL  +A   G+
Sbjct: 167 TVAELAQVACLSPSHFHAQFKDSVGLTPHQYLLKVRLDCAARLLRESRLPLVRIAEECGF 226

Query: 126 SDQSALTRAMRRTTGMTPAAYRR 148
           S QSALT AMRR  G+TP + R+
Sbjct: 227 SSQSALTTAMRRYLGLTPKSLRK 249


>RSp0044 [K] COG4977 Transcriptional regulator containing an amidase domain
           and an AraC-type DNA-binding HTH domain Rso Ralstonia
           solanacearum
          Length = 387

 Score = 66.2 bits (160), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 38/104 (36%), Positives = 57/104 (54%)

Query: 44  PQRHSRLHGLLLRIDAAPGQVWTAARMARVANLSASRLHALFKSELGRTPQEWLSDVRLR 103
           P  H ++   +L ++   G+      +A   +LSA +L  LFK+E G++PQ +   VRLR
Sbjct: 229 PATHPKVKRAILLMEQHIGRPLPLEELAHKLDLSARQLERLFKAETGKSPQTFAKQVRLR 288

Query: 104 FVQDALAGSDTPLAELALRAGYSDQSALTRAMRRTTGMTPAAYR 147
                L  SD  +A++A   G++D S L R  R+  GM PAAYR
Sbjct: 289 TAAWLLTSSDRGVADIAFSCGFADASHLGREFRKQFGMPPAAYR 332


>PA3220 [K] COG2207 AraC-type DNA-binding domain-containing proteins Pae
           Pseudomonas aeruginosa
          Length = 254

 Score = 66.2 bits (160), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 43/102 (42%), Positives = 57/102 (55%), Gaps = 3/102 (2%)

Query: 50  LHGLLLRIDAAPGQVWTAARMARVANLSASRLHALFKSELGRTPQEWLSDVRLRFVQDAL 109
           L   L R  A P QV   A +AR+A LS +R H+LF +E G+TP ++    RL    + L
Sbjct: 152 LDAYLDRHAAHPLQV---ADLARLAGLSVARFHSLFLAETGQTPMDYARSRRLHQAHELL 208

Query: 110 AGSDTPLAELALRAGYSDQSALTRAMRRTTGMTPAAYRREHR 151
             S   + E+A R GY+ QSA T A+ R  G+TP   RRE R
Sbjct: 209 LESSLAVGEIAARVGYASQSAFTAALVREFGVTPRQLRRESR 250