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= 0004.0151.p
         (212 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312563|ref|YP_003776655.1| transcription regulator protein...   231   4e-62
gi|300310688|ref|YP_003774780.1| transcription regulator protein...   159   2e-40
gi|300309825|ref|YP_003773917.1| TetR family transcription regul...    54   9e-09

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

 Score =  231 bits (588), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 113/200 (56%), Positives = 149/200 (74%), Gaps = 3/200 (1%)

Query: 11  MRKKSEERRQAIIDVAAEIFNEIGFDRASMAEISARLGGSKATLYNYFSSKEEIFLQVMK 70
           MRKKSEERRQA+ID+AAE+FNEIGF+ ASMAEISAR+GGSKATLYNYF+SKEEIF++VM 
Sbjct: 1   MRKKSEERRQAMIDIAAEVFNEIGFEAASMAEISARIGGSKATLYNYFNSKEEIFVEVMI 60

Query: 71  QQAGMQFESLFAILIEDDGSSDMRDTLRLFANKYLHLILSPEVIAVRRLLYYNAERSDLG 130
           +Q G QFE LF  L  +D   D++  L   A  YL ++  PE++AV+RL  Y A +S+LG
Sbjct: 61  KQVGCQFEELFMALRNED---DVKGGLLRLARHYLRVVFRPEIVAVKRLGIYYAGKSNLG 117

Query: 131 CMYYENGPKRGWLVISEFMKRAMDRGDLREADPWLTAIQFRVLVEAEWAEGRILGVITSM 190
            + YE GPKRGW  I+EF++  M+ G L   DPWL A+Q+R L+EAEW E R+L V+T +
Sbjct: 118 PLLYERGPKRGWTRIAEFLQAKMEEGKLHRTDPWLAAMQYRGLMEAEWMEVRMLNVVTDI 177

Query: 191 PPAKIKASVERSLEAFFRIY 210
              ++ AS +R++EAF  +Y
Sbjct: 178 AEDQLDASAQRAVEAFLYLY 197


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

 Score =  159 bits (401), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 83/202 (41%), Positives = 124/202 (61%), Gaps = 2/202 (0%)

Query: 11  MRKKSEERRQAIIDVAAEIFNEIGFDRASMAEISARLGGSKATLYNYFSSKEEIFLQVMK 70
           MR K+ ERR AI+  AAE+F E GF+ ASMA ISAR+GGSK TLY+YF SKEE+F+ V  
Sbjct: 1   MRVKTAERRDAILAAAAEVFLEEGFEGASMAGISARIGGSKGTLYSYFKSKEELFVAVTH 60

Query: 71  QQAGMQFESLFAILIEDDGSSDMRDTLRLFANKYLHLILSPEVIAVRRLLYYNAERSDLG 130
           +QA  Q E   A L +D G  D++ TL++F  K +  +     +   R++   + RSD+G
Sbjct: 61  EQAKKQMEPALAALEKDTG--DLQKTLQVFGEKAVSFLCQESTLQTHRMIVAESGRSDIG 118

Query: 131 CMYYENGPKRGWLVISEFMKRAMDRGDLREADPWLTAIQFRVLVEAEWAEGRILGVITSM 190
             ++E+GPK G   I+ F+ R M  G L++ADP L  +Q   L++ E  +  +LG+ +++
Sbjct: 119 RRFHESGPKLGMERIAAFLSRQMQAGRLKQADPMLATLQLCALLDCETVKPMMLGLESAI 178

Query: 191 PPAKIKASVERSLEAFFRIYGV 212
              ++K  V R++E F   Y V
Sbjct: 179 SRPRMKRMVGRAVETFLAAYAV 200


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

 Score = 53.9 bits (128), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 74/160 (46%), Gaps = 8/160 (5%)

Query: 4   PQWQRNYMRKKSEERRQAIIDVAAEIFNEIGFDRASMAEISARLGGSKATLYNYFSSKEE 63
           P+W+R     + ++R Q ++  A ++F E G+    + +++A+ G SK TLY YF SKE 
Sbjct: 8   PRWER-----RKQDRPQELLAAALQLFVERGYAATRLEDVAAQAGVSKGTLYLYFDSKES 62

Query: 64  IFLQVMKQQAGMQFESLFAILIEDDGSSDMRDTLRLFANKYLHLILSPEVIAVRRL-LYY 122
           +F  V++       +   A +   DG +   D LR     +        +  + +L L  
Sbjct: 63  LFKSVVRAHMLPLLDEAEARVDSHDGHT--ADLLRELILGWWQGASRSGLKGIAKLMLAE 120

Query: 123 NAERSDLGCMYYENGPKRGWLVISEFMKRAMDRGDLREAD 162
           +    +L   Y+E    RG   +   ++R M RG+ R  D
Sbjct: 121 SGNFPELARFYHEEITSRGDATLVRVLERGMARGEFRPLD 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
   0.323    0.136    0.396 

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: 596,058
Number of extensions: 21666
Number of successful extensions: 79
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 77
Number of HSP's successfully gapped: 3
Length of query: 212
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 131
Effective length of database: 1,236,335
Effective search space: 161959885
Effective search space used: 161959885
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 (22.0 bits)
S2: 128 (53.9 bits)