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= 0001.1162.p
         (201 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...   316   7e-88
gi|300312563|ref|YP_003776655.1| transcription regulator protein...   149   1e-37
gi|300309825|ref|YP_003773917.1| TetR family transcription regul...    60   8e-11

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

 Score =  316 bits (810), Expect = 7e-88,   Method: Compositional matrix adjust.
 Identities = 152/200 (76%), Positives = 176/200 (88%)

Query: 1   MRVKTEAKREAILTAAAEVFKESGFEGASMAEISARIGGSKGTLYAYFKSKEELFVGVMH 60
           MRVKT  +R+AIL AAAEVF E GFEGASMA ISARIGGSKGTLY+YFKSKEELFV V H
Sbjct: 1   MRVKTAERRDAILAAAAEVFLEEGFEGASMAGISARIGGSKGTLYSYFKSKEELFVAVTH 60

Query: 61  QEAKKEIEPAFDALDNQRGDLETTLRMFGEKAVSFLCQTSSLQTRRMILAESGRSDIGRR 120
           ++AKK++EPA  AL+   GDL+ TL++FGEKAVSFLCQ S+LQT RMI+AESGRSDIGRR
Sbjct: 61  EQAKKQMEPALAALEKDTGDLQKTLQVFGEKAVSFLCQESTLQTHRMIVAESGRSDIGRR 120

Query: 121 FHEEGPKQGLQRMAAFMKKQMDAGKLRQGDPMLATRQLWALLDCETVTPMMLGLETSISR 180
           FHE GPK G++R+AAF+ +QM AG+L+Q DPMLAT QL ALLDCETV PMMLGLE++ISR
Sbjct: 121 FHESGPKLGMERIAAFLSRQMQAGRLKQADPMLATLQLCALLDCETVKPMMLGLESAISR 180

Query: 181 PRLKRMVGRAVETFMAAYAV 200
           PR+KRMVGRAVETF+AAYAV
Sbjct: 181 PRMKRMVGRAVETFLAAYAV 200


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

 Score =  149 bits (377), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 84/201 (41%), Positives = 122/201 (60%), Gaps = 1/201 (0%)

Query: 1   MRVKTEAKREAILTAAAEVFKESGFEGASMAEISARIGGSKGTLYAYFKSKEELFVGVMH 60
           MR K+E +R+A++  AAEVF E GFE ASMAEISARIGGSK TLY YF SKEE+FV VM 
Sbjct: 1   MRKKSEERRQAMIDIAAEVFNEIGFEAASMAEISARIGGSKATLYNYFNSKEEIFVEVMI 60

Query: 61  QEAKKEIEPAFDALDNQRGDLETTLRMFGEKAVSFLCQTSSLQTRRMILAESGRSDIGRR 120
           ++   + E  F AL N+  D++  L       +  + +   +  +R+ +  +G+S++G  
Sbjct: 61  KQVGCQFEELFMALRNE-DDVKGGLLRLARHYLRVVFRPEIVAVKRLGIYYAGKSNLGPL 119

Query: 121 FHEEGPKQGLQRMAAFMKKQMDAGKLRQGDPMLATRQLWALLDCETVTPMMLGLETSISR 180
            +E GPK+G  R+A F++ +M+ GKL + DP LA  Q   L++ E +   ML + T I+ 
Sbjct: 120 LYERGPKRGWTRIAEFLQAKMEEGKLHRTDPWLAAMQYRGLMEAEWMEVRMLNVVTDIAE 179

Query: 181 PRLKRMVGRAVETFMAAYAVR 201
            +L     RAVE F+  Y  R
Sbjct: 180 DQLDASAQRAVEAFLYLYQPR 200


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

 Score = 60.5 bits (145), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 46/144 (31%), Positives = 72/144 (50%), Gaps = 9/144 (6%)

Query: 12  ILTAAAEVFKESGFEGASMAEISARIGGSKGTLYAYFKSKEELFVGVMHQE---AKKEIE 68
           +L AA ++F E G+    + +++A+ G SKGTLY YF SKE LF  V+         E E
Sbjct: 21  LLAAALQLFVERGYAATRLEDVAAQAGVSKGTLYLYFDSKESLFKSVVRAHMLPLLDEAE 80

Query: 69  PAFDALDNQRGDLETTLRMFGEKAVSFLCQTSSLQ-TRRMILAESGR-SDIGRRFHEEGP 126
              D+ D    DL   L +   +  S     S L+   +++LAESG   ++ R +HEE  
Sbjct: 81  ARVDSHDGHTADLLRELILGWWQGAS----RSGLKGIAKLMLAESGNFPELARFYHEEIT 136

Query: 127 KQGLQRMAAFMKKQMDAGKLRQGD 150
            +G   +   +++ M  G+ R  D
Sbjct: 137 SRGDATLVRVLERGMARGEFRPLD 160


  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    0.132    0.365 

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: 547,609
Number of extensions: 20297
Number of successful extensions: 81
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 80
Number of HSP's successfully gapped: 3
Length of query: 201
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 120
Effective length of database: 1,236,335
Effective search space: 148360200
Effective search space used: 148360200
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: 128 (53.9 bits)