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= 0214.0027.p
         (131 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312482|ref|YP_003776574.1| LysR family transcription regul...   197   3e-52
gi|300313689|ref|YP_003777781.1| LysR family transcription regul...   106   6e-25
gi|300313657|ref|YP_003777749.1| LysR family transcription regul...    99   8e-23

>gi|300312482|ref|YP_003776574.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 303

 Score =  197 bits (500), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 93/133 (69%), Positives = 114/133 (85%), Gaps = 2/133 (1%)

Query: 1   VLLLMRKGHPLSRFKSVTLSQLRPYPLALPEQDTTLRQLFDLACSRQQLVFEPVLTSNYI 60
           + L+MRK HPL+RF+ +++ QL+PYP+ALP+  TTLRQLFD+ACSRQQ+V EPV+TSNYI
Sbjct: 170 IALIMRKDHPLARFRQISVGQLKPYPMALPDPTTTLRQLFDIACSRQQVVIEPVMTSNYI 229

Query: 61  QTLHNYLLEGDALSLTGEVTVRYR--QDVLTMVPISDRALDGRYVEVQTLSGRTLPRIVE 118
           Q+LHNY+L+ DALS+TGEVTVRYR     LTM PI D   DGR+VEVQTL+GRTLPR VE
Sbjct: 230 QSLHNYVLDNDALSITGEVTVRYRIATGELTMRPIRDCPADGRFVEVQTLAGRTLPRSVE 289

Query: 119 IFLDYLLAELNKD 131
           IFLDYL+AEL+KD
Sbjct: 290 IFLDYLVAELSKD 302


>gi|300313689|ref|YP_003777781.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 307

 Score =  106 bits (265), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 57/133 (42%), Positives = 85/133 (63%), Gaps = 3/133 (2%)

Query: 1   VLLLMRKGHPLSRFKSVTLSQLRPYPLALPEQDTTLRQLFDLACSRQQLVFEPVLTSNYI 60
           V  LM++ HPL+    + LS L PYPLALPE  TT+RQLFD+ACS + L+F PV TS+ +
Sbjct: 165 VFALMKRDHPLASRTLLALSDLSPYPLALPEVGTTVRQLFDIACSMRGLLFSPVFTSHSL 224

Query: 61  QTLHNYLLEG-DALSLTGEVTV--RYRQDVLTMVPISDRALDGRYVEVQTLSGRTLPRIV 117
             ++ +     D ++L G +TV  R  +D + +V +++  L  R V+VQT++GR LP  V
Sbjct: 225 GAVYRFTTRSPDTVALGGFLTVHERAEEDGMILVAMAESELHQRTVQVQTMAGRKLPPAV 284

Query: 118 EIFLDYLLAELNK 130
             F D+L+A L +
Sbjct: 285 AAFSDFLIAALRQ 297


>gi|300313657|ref|YP_003777749.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 333

 Score = 99.4 bits (246), Expect = 8e-23,   Method: Compositional matrix adjust.
 Identities = 46/128 (35%), Positives = 79/128 (61%), Gaps = 2/128 (1%)

Query: 1   VLLLMRKGHPLSRFKSVTLSQLRPYPLALPEQDTTLRQLFDLACSRQQLVFEPVLTSNYI 60
           +L +M   H L+  K V+LS+L PYPLA+P++  T+R+L D  CSR+ ++ EP L ++ I
Sbjct: 200 ILAVMHPAHELAHRKQVSLSELAPYPLAMPKKTITMRRLIDACCSRRNVLLEPTLAADSI 259

Query: 61  QTLHNYLLEGDALSLTGEVTVR--YRQDVLTMVPISDRALDGRYVEVQTLSGRTLPRIVE 118
             L  +++ G  +  +  + +R   R+  L  +PI D+ ++   +E+Q+L+GRTLP    
Sbjct: 260 SALLCFVMAGQGIGFSAALPIRKLVREGKLAALPIRDKDMNTLQLEIQSLAGRTLPDAAR 319

Query: 119 IFLDYLLA 126
            FL+ L+A
Sbjct: 320 AFLNALIA 327


  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
   0.323    0.140    0.394 

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: 371,536
Number of extensions: 12947
Number of successful extensions: 34
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 31
Number of HSP's successfully gapped: 3
Length of query: 131
Length of database: 1,619,870
Length adjustment: 75
Effective length of query: 56
Effective length of database: 1,264,745
Effective search space: 70825720
Effective search space used: 70825720
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 125 (52.8 bits)