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= 0011.0104.p
         (300 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309921|ref|YP_003774013.1| LysR family transcription regul...   123   2e-29
gi|300312196|ref|YP_003776288.1| LysR family transcription regul...    69   7e-13
gi|300311458|ref|YP_003775550.1| LysR family transcription regul...    65   7e-12
gi|300313922|ref|YP_003778014.1| LysR family transcription regul...    61   1e-10
gi|300313746|ref|YP_003777838.1| LysR family transcription regul...    60   2e-10

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

 Score =  123 bits (308), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 59/66 (89%), Positives = 61/66 (92%)

Query: 1  LNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTP 60
          +NKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLT 
Sbjct: 1  MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60

Query: 61 KPAPSI 66
            A  +
Sbjct: 61 AGALYL 66


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

 Score = 68.6 bits (166), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 34/61 (55%), Positives = 44/61 (72%)

Query: 1  LNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTP 60
          ++KL+ ++ F+AV + GSFV A +  G SK AVSR V ELE  LG RL+ RTTRRLSLT 
Sbjct: 1  MDKLQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTD 60

Query: 61 K 61
          +
Sbjct: 61 E 61


>gi|300311458|ref|YP_003775550.1| LysR family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 303

 Score = 65.1 bits (157), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 43/60 (71%)

Query: 1  LNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTP 60
          +++L+ +  F  V + GSFV+AAE L IS A  +R + +LEA LG+RL+ R+TRRLSLT 
Sbjct: 1  MDRLQSMRVFAKVVEQGSFVRAAELLDISNAVATRFIADLEAHLGTRLLNRSTRRLSLTE 60


>gi|300313922|ref|YP_003778014.1| LysR family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 308

 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 31/60 (51%), Positives = 42/60 (70%)

Query: 1  LNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTP 60
          +++L  ++ F+ V D GS   AAE L +S+  VSR V ELE  +G+RL+ RTTRRLSLTP
Sbjct: 1  MDRLMAMQVFVTVVDSGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60


>gi|300313746|ref|YP_003777838.1| LysR family transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 299

 Score = 60.5 bits (145), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 29/61 (47%), Positives = 44/61 (72%)

Query: 1  LNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTP 60
          +++L  I  F  V + G+F +AA++L +  A +S+ V ELEA LG RL+QRTTRR+S+TP
Sbjct: 1  MDQLLAIRAFARVVEAGNFTRAADSLDMPNATLSKLVRELEAHLGVRLLQRTTRRVSVTP 60

Query: 61 K 61
          +
Sbjct: 61 E 61


  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    0.126    0.432 

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: 535,624
Number of extensions: 11931
Number of successful extensions: 181
Number of sequences better than 1.0e-08: 10
Number of HSP's gapped: 181
Number of HSP's successfully gapped: 10
Length of query: 300
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 215
Effective length of database: 1,217,395
Effective search space: 261739925
Effective search space used: 261739925
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: 130 (54.7 bits)