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= 0190.0018.p
         (345 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309384|ref|YP_003773476.1| transcription regulator protein...   172   5e-44
gi|300309660|ref|YP_003773752.1| LysR family transcription regul...    69   8e-13
gi|300311458|ref|YP_003775550.1| LysR family transcription regul...    61   1e-10
gi|300313017|ref|YP_003777109.1| LysR family transcription regul...    55   7e-09

>gi|300309384|ref|YP_003773476.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 302

 Score =  172 bits (435), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 79/130 (60%), Positives = 104/130 (80%)

Query: 14  APALLAQHPAPTHPRDLAAMPWLAIPQFYRRDITLKNTVTGEVTEVAFQPRLSSDSLYAL 73
           AP++LA  P P HP DLA +PW+AIP FYRR++TL +  TGE  +V+F+P+L +DSLYAL
Sbjct: 162 APSVLAGRPMPRHPADLAELPWIAIPAFYRREVTLTHAHTGEQRQVSFRPQLVTDSLYAL 221

Query: 74  TNAAVEGVGLLLGSAWLLAEHIEQGRLVPLLPEWEAAPLPVSIIYPYARFYPARLRYFVD 133
            N AV G+G+ +GS+W+L E +  GRLV LLP+W+ APLPV ++YPYARF PARLR+F+D
Sbjct: 222 RNTAVAGLGVAVGSSWVLNEDVAAGRLVQLLPDWQPAPLPVCLLYPYARFQPARLRHFID 281

Query: 134 TMREAMPAAV 143
           TM+EAMPA V
Sbjct: 282 TMKEAMPAVV 291


>gi|300309660|ref|YP_003773752.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 337

 Score = 68.6 bits (166), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 42/140 (30%), Positives = 68/140 (48%), Gaps = 5/140 (3%)

Query: 14  APALLAQHPAPTHPRDLAAMPWLAIPQFYRRD---ITLKNTVTGEVTEVAFQPRLSSDSL 70
           APA L +H  P    DL      A+  F  R    I     V G   EV    +L+ +  
Sbjct: 168 APAYLERHGVPHTIEDLQQHK--AVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEA 225

Query: 71  YALTNAAVEGVGLLLGSAWLLAEHIEQGRLVPLLPEWEAAPLPVSIIYPYARFYPARLRY 130
            A    A++G G++    +++  HI++GRLV +L +W+ AP+P+S++Y + R    ++R 
Sbjct: 226 DAYVECALQGFGMVQAPLYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRA 285

Query: 131 FVDTMREAMPAAVXRKALAL 150
           FVD + E        KA  +
Sbjct: 286 FVDWVAELFATCPLHKACTM 305


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

 Score = 60.8 bits (146), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 38/127 (29%), Positives = 66/127 (51%), Gaps = 1/127 (0%)

Query: 14  APALLAQHPAPTHPRDLAAMPWLAIPQFYRRDITLKNTVTGEVTEVAFQPRLSSDSLYAL 73
           +PA +A+  AP  P DL+    L     Y R     NT  G V +V    ++ S+S   L
Sbjct: 169 SPAYIARQGAPEQPEDLSRHNCLNFSHEYLRHHWHVNT-NGGVLDVPIVSKVVSNSGVLL 227

Query: 74  TNAAVEGVGLLLGSAWLLAEHIEQGRLVPLLPEWEAAPLPVSIIYPYARFYPARLRYFVD 133
            + A+ G+G++L  ++ L + +  GRLV +LP ++   + +S++YP  R   A++R F +
Sbjct: 228 RDLALAGMGIVLRPSYSLGDDLRSGRLVQVLPGFDMGQVIMSMVYPSRRLLSAKVRSFAE 287

Query: 134 TMREAMP 140
            +    P
Sbjct: 288 FISARFP 294


>gi|300313017|ref|YP_003777109.1| LysR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 305

 Score = 55.5 bits (132), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 36/124 (29%), Positives = 59/124 (47%)

Query: 12  ARAPALLAQHPAPTHPRDLAAMPWLAIPQFYRRDITLKNTVTGEVTEVAFQPRLSSDSLY 71
           A AP  LA    P    DLA    L        +    +   G    +  +  + S+   
Sbjct: 167 AAAPGYLAARGTPRTLDDLAQHDLLVYSHAKEPNRLHLSGRDGSQRTLEIKSLMQSNDGQ 226

Query: 72  ALTNAAVEGVGLLLGSAWLLAEHIEQGRLVPLLPEWEAAPLPVSIIYPYARFYPARLRYF 131
            +  AA+EG+G+L+   +++ + I  GRLVP+L EW+   L ++I Y   +  PAR+R F
Sbjct: 227 IIRAAALEGLGILIQPNYIIYDDIVAGRLVPVLDEWDLPRLSINIAYQGRKHLPARVRVF 286

Query: 132 VDTM 135
           +D +
Sbjct: 287 IDFL 290


  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    0.136    0.422 

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: 929,714
Number of extensions: 34621
Number of successful extensions: 179
Number of sequences better than 1.0e-08: 6
Number of HSP's gapped: 179
Number of HSP's successfully gapped: 6
Length of query: 345
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 259
Effective length of database: 1,212,660
Effective search space: 314078940
Effective search space used: 314078940
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 (22.0 bits)
S2: 131 (55.1 bits)