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= 0037.0086.p
         (173 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310576|ref|YP_003774668.1| transcription regulator protein...   266   7e-73
gi|300311726|ref|YP_003775818.1| AraC family transcription regul...    67   6e-13
gi|300311694|ref|YP_003775786.1| AraC family transcription regul...    58   4e-10
gi|300313797|ref|YP_003777889.1| AraC family transcription regul...    57   9e-10

>gi|300310576|ref|YP_003774668.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 255

 Score =  266 bits (680), Expect = 7e-73,   Method: Compositional matrix adjust.
 Identities = 134/173 (77%), Positives = 153/173 (88%), Gaps = 1/173 (0%)

Query: 1   VVDLAPDAVGSLQLEALAQRPFLPLSRAAGKLVEFMAVALSDTRPAGNTLQHWVPLLLDA 60
           V+DLAP  V +LQLE LAQRPFLPLS AAGKLVEFMAV+L+  R +   LQHWVPLLLD 
Sbjct: 82  VLDLAPATVNALQLEQLAQRPFLPLSVAAGKLVEFMAVSLAQARSSPAMLQHWVPLLLDT 141

Query: 61  LTQQ-PQALSRLRLMLARVEARAEHPWTVAQMAELAAISPSRLHEWFRAELDTSPRAWLA 119
           L Q+ PQALSRLR M+A+VEA+  HPWTVAQMAE AAISPSRLHEWFRAELD+SPRAWLA
Sbjct: 142 LAQRTPQALSRLRRMMAQVEAQVAHPWTVAQMAEAAAISPSRLHEWFRAELDSSPRAWLA 201

Query: 120 EVRVARACQLLRTSSLPLAQIAQRCGYGDQSALTHALRKLRGTTPSAYRKSYL 172
           EVR+A+ACQLLRTS+LPLAQ+AQRCGY DQSALTHA+R+LRG TP++YRK+YL
Sbjct: 202 EVRMAQACQLLRTSALPLAQVAQRCGYADQSALTHAMRRLRGVTPASYRKNYL 254


>gi|300311726|ref|YP_003775818.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 304

 Score = 67.4 bits (163), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 49/136 (36%), Positives = 68/136 (50%), Gaps = 14/136 (10%)

Query: 32  LVEFMAVALSDTRPAGNTLQHWVPLLLDALTQQPQALSRLRLMLARVEARAEHPWTVAQM 91
           LVE M  + S + P G         LL  L  +     RL + L  + AR E  W+VAQ+
Sbjct: 172 LVEAMRSSTSTSAPPG---------LLRGLGDE-----RLAVALKHMHARIEQRWSVAQL 217

Query: 92  AELAAISPSRLHEWFRAELDTSPRAWLAEVRVARACQLLRTSSLPLAQIAQRCGYGDQSA 151
           A +AA+S S   E F   L  +P A+L   R+  A +LLR   L +++IA+R GYG  SA
Sbjct: 218 ARIAALSRSSFFERFTRTLGVAPMAYLLAWRMEIARELLRRGELSVSEIAERTGYGSTSA 277

Query: 152 LTHALRKLRGTTPSAY 167
            + A  +  G  P  Y
Sbjct: 278 FSVAFTRQVGQPPGLY 293


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

 Score = 58.2 bits (139), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 29/90 (32%), Positives = 45/90 (50%), Gaps = 3/90 (3%)

Query: 83  EHPWTVAQMAELA---AISPSRLHEWFRAELDTSPRAWLAEVRVARACQLLRTSSLPLAQ 139
           EH  +   M+E A   ++S       F+ E   +P  +L ++R+  AC  L+ + LP+ +
Sbjct: 264 EHMSSSINMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLYLKETDLPIEK 323

Query: 140 IAQRCGYGDQSALTHALRKLRGTTPSAYRK 169
           IA+RCG      L    RK  G +P  YRK
Sbjct: 324 IARRCGLVSGEHLARLFRKHHGVSPGEYRK 353


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

 Score = 57.0 bits (136), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 25/81 (30%), Positives = 45/81 (55%)

Query: 87  TVAQMAELAAISPSRLHEWFRAELDTSPRAWLAEVRVARACQLLRTSSLPLAQIAQRCGY 146
           ++A++A  + +S +     F+     SP AWL + R+A AC+LL      +  IA  CG+
Sbjct: 209 SLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQQQRIALACRLLHEGGKSMTTIALECGF 268

Query: 147 GDQSALTHALRKLRGTTPSAY 167
            DQS  +   ++++G  P+A+
Sbjct: 269 SDQSHFSRVFKQVQGMGPAAW 289


  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
   0.321    0.130    0.388 

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: 554,274
Number of extensions: 20680
Number of successful extensions: 116
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 118
Number of HSP's successfully gapped: 4
Length of query: 173
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 94
Effective length of database: 1,245,805
Effective search space: 117105670
Effective search space used: 117105670
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 127 (53.5 bits)