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= 0020.0088.p
         (345 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309734|ref|YP_003773826.1| transcription regulator protein...   699   0.0  
gi|300311835|ref|YP_003775927.1| AraC family ethanolamine operon...    65   9e-12
gi|300312312|ref|YP_003776404.1| AraC family ethanolamine operon...    61   1e-10
gi|300313240|ref|YP_003777332.1| AraC family transcription regul...    56   3e-09

>gi|300309734|ref|YP_003773826.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 345

 Score =  699 bits (1803), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 341/345 (98%), Positives = 343/345 (99%)

Query: 1   MPLSAFLIESRIKNQASFSALGSSTKVDLSDPHHADTFLRTTGVKIENLNAPHATVQYEG 60
           MPLSAFLIESRIKNQASFSALGSSTKVDLSDPHHADTFLRTTGVKIENLNAPHATVQYEG
Sbjct: 1   MPLSAFLIESRIKNQASFSALGSSTKVDLSDPHHADTFLRTTGVKIENLNAPHATVQYEG 60

Query: 61  EYFLLPEGGLYRSMTASGWVMLSIPEAEGYSLYIPRSGELHWRAAEGLIHCRSGSAIMLD 120
           EYFLLPEGGLYRSMTASGWVMLSIPEAEGYSLYIPRSGELHWRAAEGLIHCRSGSAIMLD
Sbjct: 61  EYFLLPEGGLYRSMTASGWVMLSIPEAEGYSLYIPRSGELHWRAAEGLIHCRSGSAIMLD 120

Query: 121 LARMQQLASLGSSSGTGFFFSMHCMTHNLSQLLEAPVHRQLRFQSPLVHDAHVLAPLASL 180
           LARMQQLASLGSSSGTGFFFSMHCMTHNLSQLLEAPVHRQLRFQSPLVHDAHVLAPLASL
Sbjct: 121 LARMQQLASLGSSSGTGFFFSMHCMTHNLSQLLEAPVHRQLRFQSPLVHDAHVLAPLASL 180

Query: 181 GELIAEGLGGSAPLKNAPLAMANLLQAASYLILHNLPHNHSHALTRRPPAPAPRQIKRAV 240
           GELIAEGLGGSAPLKNAPLAMANLLQAASYLILHNLPHNHSHALTRRPPAPAPRQIKRAV
Sbjct: 181 GELIAEGLGGSAPLKNAPLAMANLLQAASYLILHNLPHNHSHALTRRPPAPAPRQIKRAV 240

Query: 241 EFIMARLSAPITLADIAAHAAISVRSLQSGFRRYKEMTPMEFLRTQRLGRVREDLLDPAV 300
           EFIMARLSAPITLADIAAHAAISVRSLQSGFRRYKEMTPMEFLRTQRLGRVREDLLDPAV
Sbjct: 241 EFIMARLSAPITLADIAAHAAISVRSLQSGFRRYKEMTPMEFLRTQRLGRVREDLLDPAV 300

Query: 301 PADIQHIALSWGFTHLYLFMRYYKKQFGESPQATLARRTVEWTGS 345
           PADIQHIALSWGFTHLYLFMRYYKKQFGESPQATLARR  +W+GS
Sbjct: 301 PADIQHIALSWGFTHLYLFMRYYKKQFGESPQATLARRAAKWSGS 345


>gi|300311835|ref|YP_003775927.1| AraC family ethanolamine operon
           transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 332

 Score = 64.7 bits (156), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 54/109 (49%), Gaps = 3/109 (2%)

Query: 234 RQIKRAVEFIMARLSAPITLADIAAHAAISVRSLQSGFRRYKEMTPMEFLRTQRLGRVRE 293
           R +  A EF MA   +P+T+  +     +S R+LQ  F     M+PM +LR+ RL  VR 
Sbjct: 222 RIVNDAREFAMAHQDSPVTVPMLCEAVHVSRRTLQYCFEDVLGMSPMSYLRSLRLNGVRR 281

Query: 294 DLL---DPAVPADIQHIALSWGFTHLYLFMRYYKKQFGESPQATLARRT 339
            L           I  IA +WGF +   F   YKK FG++P A L  RT
Sbjct: 282 ALCHGDGRQAVGSIGDIAAAWGFANFSQFSCDYKKLFGQTPSAMLQART 330


>gi|300312312|ref|YP_003776404.1| AraC family ethanolamine operon
           transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 358

 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 33/87 (37%), Positives = 47/87 (54%), Gaps = 3/87 (3%)

Query: 252 TLADIAAHAAISVRSLQSGFRRYKEMTPMEFLRTQRLGRVREDLLD---PAVPADIQHIA 308
           T+  +AAH  +S R LQ+ F     +  +EF+R +RL +VR+ L++     +   I  IA
Sbjct: 252 TMTQVAAHLGVSRRHLQTCFNTSVGIPAIEFVRAERLNQVRKALVEARRAGLEVSIGDIA 311

Query: 309 LSWGFTHLYLFMRYYKKQFGESPQATL 335
             WGF HL  F   Y+  FGE P  TL
Sbjct: 312 ADWGFWHLSRFAADYRDMFGELPSKTL 338


>gi|300313240|ref|YP_003777332.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 328

 Score = 56.2 bits (134), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 34/89 (38%), Positives = 47/89 (52%), Gaps = 2/89 (2%)

Query: 252 TLADIAAHAAISVRSLQSGFRRYKEMTPMEFLRTQRLGRVREDLLDPA-VPADIQHIALS 310
           ++ ++     +S R++Q+ F+   E TP+ +LR  RL  VR +LL      A I  IA  
Sbjct: 235 SIFEVCQRLQVSRRTVQNSFQTVAETTPLNYLRCVRLNGVRRELLSTTHQEASIGDIASR 294

Query: 311 WGFTHLYLFMRYYKKQFGESPQATLARRT 339
           WGF HL  F   Y+  FGE P  T ARR 
Sbjct: 295 WGFFHLSHFAEDYQALFGELPSQT-ARRV 322


  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    0.134    0.399 

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: 990,129
Number of extensions: 38482
Number of successful extensions: 127
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 129
Number of HSP's successfully gapped: 5
Length of query: 345
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 259
Effective length of database: 1,212,660
Effective search space: 314078940
Effective search space used: 314078940
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 (21.9 bits)
S2: 131 (55.1 bits)