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= 0029.0081.p
         (112 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310870|ref|YP_003774962.1| transcription regulator protein...   219   3e-59
gi|300309900|ref|YP_003773992.1| transcription regulator protein...    86   6e-19
gi|300309909|ref|YP_003774001.1| transcription regulator protein...    63   5e-12

>gi|300310870|ref|YP_003774962.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 112

 Score =  219 bits (559), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 110/112 (98%), Positives = 110/112 (98%)

Query: 1   MKENMSGCSVEESMRLLGGRWRLLLVSYLLEGPKRFNDLRRDVPGISQRMLTLDLRALEN 60
           MKENMSGCSVEESMRLLGGRWRLLLVSYLLEGPKRFNDLRRDVPGISQRMLTLDLRALEN
Sbjct: 1   MKENMSGCSVEESMRLLGGRWRLLLVSYLLEGPKRFNDLRRDVPGISQRMLTLDLRALEN 60

Query: 61  AGLVKRTVYPTSPVRVEYEVTEDGKRLEPVVKVMKEFGLWLKERDAVRVGND 112
           AGLVKRTVYPTSPVRVEYEVTEDGKRLEPVVKVMKEFGLWLKERD VRV ND
Sbjct: 61  AGLVKRTVYPTSPVRVEYEVTEDGKRLEPVVKVMKEFGLWLKERDPVRVAND 112


>gi|300309900|ref|YP_003773992.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 132

 Score = 86.3 bits (212), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 45/91 (49%), Positives = 63/91 (69%), Gaps = 2/91 (2%)

Query: 7   GCSVE-ESMRLLGGRWRLLLVSYLLEGPKRFNDLRRDVPGISQRMLTLDLRALENAGLVK 65
           GC V  E +  +G +W L +++ L  G +RFN+L+R++ GISQRMLTL LR LE  GL+ 
Sbjct: 19  GCRVTREILDRVGDKWSLYIIATLANGTRRFNELKREIDGISQRMLTLTLRGLERDGLIT 78

Query: 66  RTVYPTSPVRVEYEVTEDGKRL-EPVVKVMK 95
           RT+YPT P RV+YE+T  G  L  PV+ ++K
Sbjct: 79  RTIYPTIPPRVDYELTALGMTLWGPVMSLVK 109


>gi|300309909|ref|YP_003774001.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 124

 Score = 63.2 bits (152), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 34/87 (39%), Positives = 48/87 (55%)

Query: 5   MSGCSVEESMRLLGGRWRLLLVSYLLEGPKRFNDLRRDVPGISQRMLTLDLRALENAGLV 64
           ++ C   + + LL  +W LL++  L E   R  +LRR + G+S++ML   LR LE  GLV
Sbjct: 17  LADCPARDVLALLAEKWTLLVLHALSEKTYRTAELRRRIGGVSEKMLIQALRRLEQHGLV 76

Query: 65  KRTVYPTSPVRVEYEVTEDGKRLEPVV 91
            R  Y T P  VEY +T  G  L  +V
Sbjct: 77  SRMSYQTVPPHVEYSLTPLGVSLSSIV 103


  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
   0.319    0.138    0.404 

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: 290,301
Number of extensions: 9527
Number of successful extensions: 33
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 33
Number of HSP's successfully gapped: 4
Length of query: 112
Length of database: 1,619,870
Length adjustment: 73
Effective length of query: 39
Effective length of database: 1,274,215
Effective search space: 49694385
Effective search space used: 49694385
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 (21.7 bits)
S2: 124 (52.4 bits)