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= 0002.0192.p
         (210 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309821|ref|YP_003773913.1| transcription regulator protein...   346   7e-97
gi|300310692|ref|YP_003774784.1| transcription regulator protein...    60   1e-10
gi|300309825|ref|YP_003773917.1| TetR family transcription regul...    57   1e-09

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

 Score =  346 bits (888), Expect = 7e-97,   Method: Compositional matrix adjust.
 Identities = 163/208 (78%), Positives = 182/208 (87%)

Query: 1   MARSTKEEALETRSRILDAAEQVFYERGVSHTSLADVAKAADVTRGAIYWHFKNKSDLFD 60
           MARSTKEEALETRSRILDAAEQVF+ERGVS TSLADVAKAA+VTRGAIYWHFKNKSDLFD
Sbjct: 1   MARSTKEEALETRSRILDAAEQVFHERGVSQTSLADVAKAAEVTRGAIYWHFKNKSDLFD 60

Query: 61  AMCERVRLPMEAIMEANADERVTDPLGEFIKGGVYVLRQAATDPRCRKVFDIIFNKCEFV 120
           AMCERVRLPMEA++E NA  +V DPLG+F++ GVYVL  AATD RCR+VFDIIFNKCEF 
Sbjct: 61  AMCERVRLPMEAVLEENASPQVEDPLGQFLRSGVYVLTMAATDERCRRVFDIIFNKCEFA 120

Query: 121 DHNDPILMRQRECKMQGMLRMEQILANAISRGQLPPNLNIRRACLMAHAMFSGLLADWFF 180
           D +DPIL+RQREC + GMLR+EQIL NA++RGQLP  L+IR ACLM HA FSGLL DWFF
Sbjct: 121 DAHDPILIRQRECHVDGMLRLEQILGNAVARGQLPATLDIRLACLMTHATFSGLLTDWFF 180

Query: 181 SPDSFDLELEAESVLTACIHAIKTAPTL 208
           SPDSFDL  E E VL A +HA+KTAP+L
Sbjct: 181 SPDSFDLVSEGERVLAASMHALKTAPSL 208


>gi|300310692|ref|YP_003774784.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 204

 Score = 60.1 bits (144), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 37/127 (29%), Positives = 62/127 (48%)

Query: 28  GVSHTSLADVAKAADVTRGAIYWHFKNKSDLFDAMCERVRLPMEAIMEANADERVTDPLG 87
           GV  T+L  VA +A +TRGA+YWHF +K  L  A+ E +R P E   + +A     +PLG
Sbjct: 23  GVRATTLEHVAASAALTRGAVYWHFPDKKALVTAVFEEMRWPFELGEDLSAYHACDNPLG 82

Query: 88  EFIKGGVYVLRQAATDPRCRKVFDIIFNKCEFVDHNDPILMRQRECKMQGMLRMEQILAN 147
              +     +RQ   D R R+  +I+       +  + + +R     ++ +  +  ++  
Sbjct: 83  LLREVLWLQMRQGVADLRQRRRMEIVLRYRGTPELPEELSLRLETMILRAVSELTAVINI 142

Query: 148 AISRGQL 154
           A  RG L
Sbjct: 143 AYERGTL 149


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

 Score = 56.6 bits (135), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 58/217 (26%), Positives = 93/217 (42%), Gaps = 21/217 (9%)

Query: 1   MARSTKEEALETRSR-----ILDAAEQVFYERGVSHTSLADVAKAADVTRGAIYWHFKNK 55
           M+ S KE   E R +     +L AA Q+F ERG + T L DVA  A V++G +Y +F +K
Sbjct: 1   MSASAKEPRWERRKQDRPQELLAAALQLFVERGYAATRLEDVAAQAGVSKGTLYLYFDSK 60

Query: 56  SDLFDAMCERVRLPMEAIMEANADE---RVTDPLGEFIKGGVYVLRQAATDPRCRKVFDI 112
             LF ++     LP+    EA  D       D L E I G      Q A+    + +  +
Sbjct: 61  ESLFKSVVRAHMLPLLDEAEARVDSHDGHTADLLRELILG----WWQGASRSGLKGIAKL 116

Query: 113 IFNKCEFVDHNDPILMR--QRECKMQGMLRMEQILANAISRGQLPPNLNIRRACLMAHAM 170
           +  +      N P L R    E   +G   + ++L   ++RG+  P        ++A  +
Sbjct: 117 MLAES----GNFPELARFYHEEITSRGDATLVRVLERGMARGEFRPLDAHALKKVIAAPI 172

Query: 171 FSGLLADWFFSP---DSFDLELEAESVLTACIHAIKT 204
              +L D   +P      D      S++  C+H +K 
Sbjct: 173 MMLMLWDQSLAPCAIAPIDSAAYLASLIDLCVHGLKA 209


  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
   0.324    0.135    0.403 

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: 581,942
Number of extensions: 21022
Number of successful extensions: 78
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: 210
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 129
Effective length of database: 1,236,335
Effective search space: 159487215
Effective search space used: 159487215
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 128 (53.9 bits)