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= 0012.0174.p
         (214 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310688|ref|YP_003774780.1| transcription regulator protein...    75   5e-15
gi|300312563|ref|YP_003776655.1| transcription regulator protein...    70   1e-13
gi|300309821|ref|YP_003773913.1| transcription regulator protein...    59   3e-10
gi|300309825|ref|YP_003773917.1| TetR family transcription regul...    55   4e-09

>gi|300310688|ref|YP_003774780.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 201

 Score = 75.1 bits (183), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 56/193 (29%), Positives = 92/193 (47%), Gaps = 1/193 (0%)

Query: 19  ERRRQILDAARQLFLEHGYGDTSMDRIAEKAEVARRTVYNQFKSKEALFEAMVQEIWSHF 78
           ERR  IL AA ++FLE G+   SM  I+ +   ++ T+Y+ FKSKE LF A+  E     
Sbjct: 7   ERRDAILAAAAEVFLEEGFEGASMAGISARIGGSKGTLYSYFKSKEELFVAVTHEQAKKQ 66

Query: 79  PVLDITSDEESLADPRAGLLRVGHAVANFWITDESVAFLRMVIAEGGRFPSLLKTFLELG 138
               + + E+   D +  L   G    +F   + ++   RM++AE GR   + + F E G
Sbjct: 67  MEPALAALEKDTGDLQKTLQVFGEKAVSFLCQESTLQTHRMIVAESGR-SDIGRRFHESG 125

Query: 139 KGPAMAAVTHYLLKLTKKKLLDISDTKLATRQFLGMIDEPLLWVRVVGLNEKYTAKQRSV 198
               M  +  +L +  +   L  +D  LAT Q   ++D   +   ++GL    +  +   
Sbjct: 126 PKLGMERIAAFLSRQMQAGRLKQADPMLATLQLCALLDCETVKPMMLGLESAISRPRMKR 185

Query: 199 IVENAVDMFLGFY 211
           +V  AV+ FL  Y
Sbjct: 186 MVGRAVETFLAAY 198


>gi|300312563|ref|YP_003776655.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 200

 Score = 70.5 bits (171), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 55/197 (27%), Positives = 93/197 (47%), Gaps = 4/197 (2%)

Query: 19  ERRRQILDAARQLFLEHGYGDTSMDRIAEKAEVARRTVYNQFKSKEALF-EAMVQEIWSH 77
           ERR+ ++D A ++F E G+   SM  I+ +   ++ T+YN F SKE +F E M++++   
Sbjct: 7   ERRQAMIDIAAEVFNEIGFEAASMAEISARIGGSKATLYNYFNSKEEIFVEVMIKQVGCQ 66

Query: 78  FPVLDITSDEESLADPRAGLLRVGHAVANFWITDESVAFLRMVIAEGGRFPSLLKTFLEL 137
           F  L +    E   D + GLLR+           E VA  R+ I   G+  +L     E 
Sbjct: 67  FEELFMALRNED--DVKGGLLRLARHYLRVVFRPEIVAVKRLGIYYAGK-SNLGPLLYER 123

Query: 138 GKGPAMAAVTHYLLKLTKKKLLDISDTKLATRQFLGMIDEPLLWVRVVGLNEKYTAKQRS 197
           G       +  +L    ++  L  +D  LA  Q+ G+++   + VR++ +       Q  
Sbjct: 124 GPKRGWTRIAEFLQAKMEEGKLHRTDPWLAAMQYRGLMEAEWMEVRMLNVVTDIAEDQLD 183

Query: 198 VIVENAVDMFLGFYRPR 214
              + AV+ FL  Y+PR
Sbjct: 184 ASAQRAVEAFLYLYQPR 200


>gi|300309821|ref|YP_003773913.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 211

 Score = 58.9 bits (141), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 37/96 (38%), Positives = 51/96 (53%), Gaps = 4/96 (4%)

Query: 19  ERRRQILDAARQLFLEHGYGDTSMDRIAEKAEVARRTVYNQFKSKEALFEAMVQEIWSHF 78
           E R +ILDAA Q+F E G   TS+  +A+ AEV R  +Y  FK+K  LF+AM + +    
Sbjct: 11  ETRSRILDAAEQVFHERGVSQTSLADVAKAAEVTRGAIYWHFKNKSDLFDAMCERV--RL 68

Query: 79  PVLDITSDEES--LADPRAGLLRVGHAVANFWITDE 112
           P+  +  +  S  + DP    LR G  V     TDE
Sbjct: 69  PMEAVLEENASPQVEDPLGQFLRSGVYVLTMAATDE 104


>gi|300309825|ref|YP_003773917.1| TetR family transcription
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 209

 Score = 55.1 bits (131), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 44/131 (33%), Positives = 71/131 (54%), Gaps = 21/131 (16%)

Query: 19  ERRRQ-----ILDAARQLFLEHGYGDTSMDRIAEKAEVARRTVYNQFKSKEALFEAMVQE 73
           ERR+Q     +L AA QLF+E GY  T ++ +A +A V++ T+Y  F SKE+LF+++V+ 
Sbjct: 11  ERRKQDRPQELLAAALQLFVERGYAATRLEDVAAQAGVSKGTLYLYFDSKESLFKSVVR- 69

Query: 74  IWSH-FPVLDITSDEESLADPRAG----LLRVGHAVANFWITDESVAF---LRMVIAEGG 125
             +H  P+LD   + E+  D   G    LLR    +  +W            ++++AE G
Sbjct: 70  --AHMLPLLD---EAEARVDSHDGHTADLLR--ELILGWWQGASRSGLKGIAKLMLAESG 122

Query: 126 RFPSLLKTFLE 136
            FP L + + E
Sbjct: 123 NFPELARFYHE 133


  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
   0.322    0.137    0.391 

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: 587,043
Number of extensions: 20394
Number of successful extensions: 81
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 82
Number of HSP's successfully gapped: 4
Length of query: 214
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 133
Effective length of database: 1,236,335
Effective search space: 164432555
Effective search space used: 164432555
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 (21.9 bits)
S2: 128 (53.9 bits)