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= 0015.0359.p
         (129 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312334|ref|YP_003776426.1| transcription regulator protein...   121   2e-29
gi|300309921|ref|YP_003774013.1| LysR family transcription regul...    92   1e-20
gi|300312196|ref|YP_003776288.1| LysR family transcription regul...    82   1e-17
gi|300313065|ref|YP_003777157.1| LysR family transcription regul...    77   4e-16
gi|300311929|ref|YP_003776021.1| LysR family transcription regul...    71   3e-14

>gi|300312334|ref|YP_003776426.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 302

 Score =  121 bits (303), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 53/109 (48%), Positives = 79/109 (72%)

Query: 1   MDKLKQIEAFVLVVDKGSLAAAALEDKVTPVMMGRRIDALEKRLGTKLMHRTTRHLTLTE 60
           MD+ KQI  F  V  +GSL+AAA  + + P M+GRR+DALE+RLG KL+ RTTR + LT 
Sbjct: 1   MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60

Query: 61  QGSVFLDHCRKLLEQMDTAEKSIAEGRHKATGHLVVSTPAAYGRLHVAP 109
           +G+ FL+ C+++L  ++ AE +++E   +A+G L++S PA +GR HVAP
Sbjct: 61  EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAP 109


>gi|300309921|ref|YP_003774013.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 299

 Score = 92.0 bits (227), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 43/109 (39%), Positives = 71/109 (65%)

Query: 1   MDKLKQIEAFVLVVDKGSLAAAALEDKVTPVMMGRRIDALEKRLGTKLMHRTTRHLTLTE 60
           M+KL++IE F+ V D GS   AA    ++   + R +  LE RLG++LM RTTR L+LTE
Sbjct: 1   MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60

Query: 61  QGSVFLDHCRKLLEQMDTAEKSIAEGRHKATGHLVVSTPAAYGRLHVAP 109
            G+++L+ C++++  ++ A+  ++ G  K TG L ++ P  +G LH+AP
Sbjct: 61  AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAP 109


>gi|300312196|ref|YP_003776288.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 308

 Score = 82.0 bits (201), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 40/109 (36%), Positives = 63/109 (57%)

Query: 1   MDKLKQIEAFVLVVDKGSLAAAALEDKVTPVMMGRRIDALEKRLGTKLMHRTTRHLTLTE 60
           MDKL+ ++ FV VV+ GS  AA      +   + R++  LE+ LG +L+HRTTR L+LT+
Sbjct: 1   MDKLQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTD 60

Query: 61  QGSVFLDHCRKLLEQMDTAEKSIAEGRHKATGHLVVSTPAAYGRLHVAP 109
           +G V+   C++LLE +   E  +     +A G L +  P  +G   +AP
Sbjct: 61  EGRVYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAP 109


>gi|300313065|ref|YP_003777157.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 301

 Score = 77.4 bits (189), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 39/104 (37%), Positives = 60/104 (57%)

Query: 1   MDKLKQIEAFVLVVDKGSLAAAALEDKVTPVMMGRRIDALEKRLGTKLMHRTTRHLTLTE 60
           M +L+ +  FV   D GSL+AAA +  VTP +    +  LE  LG +L+ R+TR L LT 
Sbjct: 1   MIRLEDLAIFVCAADNGSLSAAARQHDVTPAVASAAMKRLEGELGARLLARSTRSLRLTP 60

Query: 61  QGSVFLDHCRKLLEQMDTAEKSIAEGRHKATGHLVVSTPAAYGR 104
            G  +L H R +L +++    ++A GR    G+L +S P+ +GR
Sbjct: 61  DGERYLQHARNVLAEVNAGRDAVAHGRRVIGGNLSLSAPSDFGR 104


>gi|300311929|ref|YP_003776021.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 304

 Score = 71.2 bits (173), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 43/106 (40%), Positives = 59/106 (55%), Gaps = 4/106 (3%)

Query: 3   KLKQIEAFVLVVDKGSLAAAALEDKVTPVMMGRRIDALEKRLGTKLMHRTTRHLTLTEQG 62
           +L  IE F    + GS  AAA    +TP  + R I  LE RLG +L  RTTR + LT +G
Sbjct: 8   QLGSIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQIRLTREG 67

Query: 63  SVFLDHCRKLLEQMDTAEKSIAEGRHKATGHLV---VSTPAAYGRL 105
            ++ D C++ LEQ+  AE+ I  G+ K    L+   V TP A+ RL
Sbjct: 68  ELYRDQCQQALEQIADAER-ILTGQQKVPSGLLRISVGTPYAHYRL 112


  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
   0.325    0.135    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: 306,380
Number of extensions: 9092
Number of successful extensions: 96
Number of sequences better than 1.0e-08: 24
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 24
Length of query: 129
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 54
Effective length of database: 1,264,745
Effective search space: 68296230
Effective search space used: 68296230
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: 125 (52.8 bits)