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= 0031.0023.p
         (288 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313268|ref|YP_003777360.1| transcription regulator protein...   588   e-169
gi|300310394|ref|YP_003774486.1| AraC family transcription regul...    63   3e-11
gi|300313081|ref|YP_003777173.1| transcription regulator protein...    58   7e-10

>gi|300313268|ref|YP_003777360.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 288

 Score =  588 bits (1516), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 287/288 (99%), Positives = 287/288 (99%)

Query: 1   MSDERKKAYQARFERVLDHIEAHLHAPLEVEQLANVAHFSRFHFQRQFADFTGVGVARYI 60
           MSDERKKAYQARFERVLDHIEAHLHAPLEVEQLANVAHFSRFHFQRQFADFTGVGVARYI
Sbjct: 1   MSDERKKAYQARFERVLDHIEAHLHAPLEVEQLANVAHFSRFHFQRQFADFTGVGVARYI 60

Query: 61  LLMRLKHASLQLAFQPQRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFRRAPDWPSWH 120
           LLMRLKHASLQLAFQPQRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFRRAPDWPSWH
Sbjct: 61  LLMRLKHASLQLAFQPQRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFRRAPDWPSWH 120

Query: 121 ERFVFRIPERKVDVQVEITHVEPIRIALLAHRGPVNALNATVAQFIAWRKASGLSPVERC 180
           ERFVFRIPERKVDVQVEITHVEPIRIALLAHRGPVN LNATVAQFIAWRKASGLSPVERC
Sbjct: 121 ERFVFRIPERKVDVQVEITHVEPIRIALLAHRGPVNGLNATVAQFIAWRKASGLSPVERC 180

Query: 181 RTFGLAWDNPDTTPPEQFRFGICGELEGDLPGNAQGVVESLIPGGRCARVRHVGAHERLG 240
           RTFGLAWDNPDTTPPEQFRFGICGELEGDLPGNAQGVVESLIPGGRCARVRHVGAHERLG
Sbjct: 181 RTFGLAWDNPDTTPPEQFRFGICGELEGDLPGNAQGVVESLIPGGRCARVRHVGAHERLG 240

Query: 241 DSIYPLYRQWLPESGEELRDFPLYFHYLNLLPDTPPGELLTDIYLPLK 288
           DSIYPLYRQWLPESGEELRDFPLYFHYLNLLPDTPPGELLTDIYLPLK
Sbjct: 241 DSIYPLYRQWLPESGEELRDFPLYFHYLNLLPDTPPGELLTDIYLPLK 288


>gi|300310394|ref|YP_003774486.1| AraC family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 294

 Score = 63.2 bits (152), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 35/101 (34%), Positives = 49/101 (48%)

Query: 13  FERVLDHIEAHLHAPLEVEQLANVAHFSRFHFQRQFADFTGVGVARYILLMRLKHASLQL 72
             R + ++  HL   +  + LA++   +   F R F   TG  + RY   +R+  A L L
Sbjct: 183 LNRAIAYLREHLTDDIGEQDLADMVGQNLSSFSRAFKRHTGTTLVRYKNQLRVDLACLAL 242

Query: 73  AFQPQRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFRRA 113
             +PQ RI DI  E GF N  +F R F    G SPS+FR  
Sbjct: 243 LTRPQARITDICYETGFSNLSNFNRHFHKIKGMSPSEFRNT 283


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

 Score = 58.2 bits (139), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 41/101 (40%), Positives = 48/101 (47%), Gaps = 1/101 (0%)

Query: 12  RFERVLDHIEAHLHAPLEVEQLANVAHFSRFHFQRQFADFTGVGVARYILLMRLKHASLQ 71
           R  R L     HLH  L V+ LA VA  SR  F R FA  TG   AR I  MR + A L+
Sbjct: 212 RIRRALGFAREHLHQALTVDLLAEVACLSRRQFDRAFAAETGQTPARAIEQMRAEAARLR 271

Query: 72  LAFQPQRRIIDIALEAGFENPESFTRAFRSAFGQSPSQFRR 112
           +  Q Q  +  IA   GF + +   RA    FGQ P   RR
Sbjct: 272 IE-QSQDTLESIARATGFGDADRMRRACLRLFGQPPQAMRR 311


  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
   0.324    0.141    0.444 

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: 1,020,553
Number of extensions: 45705
Number of successful extensions: 185
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 195
Number of HSP's successfully gapped: 3
Length of query: 288
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 204
Effective length of database: 1,222,130
Effective search space: 249314520
Effective search space used: 249314520
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: 130 (54.7 bits)