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= 0256.0005.p
         (236 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312111|ref|YP_003776203.1| LysR family transcription regul...   134   5e-33
gi|300312305|ref|YP_003776397.1| LysR family transcription regul...   131   6e-32

>gi|300312111|ref|YP_003776203.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 321

 Score =  134 bits (338), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 64/193 (33%), Positives = 115/193 (59%)

Query: 12  ARRVLLSVETIGLELSEHAQGVRGYVRMVANLSAIVEFLPEDLMAFSQLHEQVRLDLEER 71
           A++ +  VE +  ++ ++  G++GY+R+ AN +A+ EF+PE L  F   H QV + LEER
Sbjct: 70  AQQFMQQVEHLKSDMQQYNNGIKGYIRIFANTTAVTEFMPEILGKFLARHPQVNVALEER 129

Query: 72  PSGSVVKGVQDGWADLGICSGDTETHDLQASLYRRDQLVLVMRDNHALAGSKVVAFADTL 131
            +  +++G+Q+G AD+GI +G  +   LQ   +  D+LVL     H LA +  + F  TL
Sbjct: 130 LNHDILRGIQEGTADIGIVAGPVQGEGLQILNFSTDRLVLATALEHPLADAPSLPFIQTL 189

Query: 132 DFDHVGLHADSSINARTHLAARSSGKSLKMRIHVPGFDAVCRMAQAGMGLGVIPSGVYEA 191
           +++H+GLH  S+++         +G+ LK+RI V  F+A+CRM +  +G+G++P    + 
Sbjct: 190 EYEHIGLHEGSTLHHFLSKIVAENGQRLKLRIQVRSFEAMCRMIETNVGIGILPRSAAQR 249

Query: 192 IGRSLGLTAAPXS 204
             +++ L+    S
Sbjct: 250 HQQTMQLSVVELS 262


>gi|300312305|ref|YP_003776397.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 297

 Score =  131 bits (329), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 75/208 (36%), Positives = 115/208 (55%)

Query: 12  ARRVLLSVETIGLELSEHAQGVRGYVRMVANLSAIVEFLPEDLMAFSQLHEQVRLDLEER 71
           AR +   +E +  EL ++A+G++G++R++ N SA+ EFLPE L  F   H    ++LEE+
Sbjct: 72  ARMMAQQMEQLRDELGQYARGLKGHIRLLCNTSAMTEFLPEVLARFLARHPHTDIELEEK 131

Query: 72  PSGSVVKGVQDGWADLGICSGDTETHDLQASLYRRDQLVLVMRDNHALAGSKVVAFADTL 131
            S  VV+ V DG AD+GI +  T++  LQ   +R+D LV V+   H LA  K +AFA+ L
Sbjct: 132 LSYEVVQAVIDGVADVGIIADSTDSGPLQTYPFRQDHLVAVLSKRHPLARRKSLAFAELL 191

Query: 132 DFDHVGLHADSSINARTHLAARSSGKSLKMRIHVPGFDAVCRMAQAGMGLGVIPSGVYEA 191
             D VGL  DS++       A  +GK L+ R+ +  FD +CRM +  +G+ V+P     A
Sbjct: 192 GEDFVGLSGDSALQQHLSGHATRAGKRLQYRVRLRSFDGICRMVEHQVGVAVLPETAALA 251

Query: 192 IGRSLGLTAAPXSTGIPSASGASCTKAL 219
               + + A P S G        C + L
Sbjct: 252 STPHMDIRAIPLSDGWSRRQLLICVRGL 279


  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
   0.320    0.133    0.387 

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: 703,494
Number of extensions: 29205
Number of successful extensions: 121
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 123
Number of HSP's successfully gapped: 2
Length of query: 236
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 154
Effective length of database: 1,231,600
Effective search space: 189666400
Effective search space used: 189666400
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 (21.8 bits)
S2: 129 (54.3 bits)