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= 0034.0073.p
         (206 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311773|ref|YP_003775865.1| two component response regulato...   233   6e-63
gi|300311909|ref|YP_003776001.1| response regulator consisting o...    83   2e-17
gi|300314013|ref|YP_003778105.1| two component response regulato...    64   7e-12
gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcrip...    59   2e-10
gi|300312042|ref|YP_003776134.1| response regulatory protein [He...    56   2e-09

>gi|300311773|ref|YP_003775865.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 178

 Score =  233 bits (595), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 114/119 (95%), Positives = 116/119 (97%)

Query: 1   MPADRLLLIIEDDAAFARTLGRSFERRGYTVLLAASQEEAAAHLKEHSPGYAVVDLKLGG 60
           MPADRLLLIIEDDAAFARTLGRSFERRGYTVLLAASQEEAA HL++H PGYAVVDLKLGG
Sbjct: 1   MPADRLLLIIEDDAAFARTLGRSFERRGYTVLLAASQEEAAQHLQQHRPGYAVVDLKLGG 60

Query: 61  NASGLACVQMLHAHDEAMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIEAAFGH 119
           NASGLACVQMLHAHDE MLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIEAAFGH
Sbjct: 61  NASGLACVQMLHAHDEDMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIEAAFGH 119


>gi|300311909|ref|YP_003776001.1| response regulator consisting of a
           CheY-like receiver domain and a Fis-type HTH domain
           [Herbaspirillum seropedicae SmR1]
          Length = 182

 Score = 82.8 bits (203), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/112 (44%), Positives = 65/112 (58%), Gaps = 1/112 (0%)

Query: 8   LIIEDDAAFARTLGRSFERRGYTVLLAASQEEAAAHLKEHSPGYAVVDLKLGGNASGLAC 67
           LI++D+  FA TL RS  RRG+   +A S E A    +     YA +DL+L  + SGL  
Sbjct: 6   LILDDNDVFAGTLARSLARRGFRATVAHSGEAALEAARRERFDYATIDLQLEKD-SGLQW 64

Query: 68  VQMLHAHDEAMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIEAAFGH 119
           V  L        ++VLTG+ASI T V+AIK GA  YLAKP+N D I +A  H
Sbjct: 65  VSPLRQALPHARLLVLTGYASIATTVQAIKSGADNYLAKPANVDSILSALSH 116


>gi|300314013|ref|YP_003778105.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 228

 Score = 64.3 bits (155), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 36/108 (33%), Positives = 59/108 (54%), Gaps = 1/108 (0%)

Query: 7   LLIIEDDAAFARTLGRSFERRGYTVLLAASQEEAAAHLKEHSPGYAVVDLKLGGNASGLA 66
           +L++EDD   +R L R+ ERRG+ V   A    A +H+K+      V+DL + G   GL 
Sbjct: 3   ILLVEDDIDMSRALLRALERRGFQVTHCADGISALSHIKDGIGDLVVLDLNIPG-LDGLH 61

Query: 67  CVQMLHAHDEAMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIE 114
            +Q + + D    ++VLT   ++   V  +  GA  YLAKP + D+++
Sbjct: 62  LLQRIRSQDIGTPVIVLTARGAVGDRVVGLNAGADDYLAKPFDLDELD 109


>gi|300312425|ref|YP_003776517.1| nitrogen assimilation
           transcription activator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 500

 Score = 59.3 bits (142), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 32/105 (30%), Positives = 58/105 (55%), Gaps = 1/105 (0%)

Query: 7   LLIIEDDAAFARTLGRSFERRGYTVLLAASQEEAAAHLKEHSPGYAVVDLKLGGNASGLA 66
           + I++DD +    L ++  R        +S  +A A L+  +P   V D+++ G ASGL 
Sbjct: 4   IWIVDDDESIRWVLEKALARENLATQSFSSARDAIAALQNGTPQVLVSDIRMPG-ASGLE 62

Query: 67  CVQMLHAHDEAMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTD 111
            +Q + A    + ++++T F+ + +AV A + GA +YLAKP + D
Sbjct: 63  LLQTVKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVD 107


>gi|300312042|ref|YP_003776134.1| response regulatory protein
           [Herbaspirillum seropedicae SmR1]
          Length = 450

 Score = 55.8 bits (133), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 57/121 (47%), Gaps = 6/121 (4%)

Query: 7   LLIIEDDAAFARTLGRSFERRGYTVLLAASQEEAAAHLKEHSPGYAVVDLKL----GGNA 62
           LLI+EDD    + L  S +   Y VL+A  +E A A ++ H P    +DL L     G +
Sbjct: 8   LLIVEDDPGLQKQLRWSLD--AYEVLVAGDRESALAMVRRHEPAVVTMDLGLPPDPDGAS 65

Query: 63  SGLACVQMLHAHDEAMLIVVLTGFASITTAVEAIKLGACQYLAKPSNTDDIEAAFGHXFF 122
            G A +Q + A      +++LTG      AV+AI +GA  +  KP   + +       F+
Sbjct: 66  EGFATLQQVLALAPDTKVIMLTGNQDHAHAVKAISMGAYDFHQKPCIDETLRLVVQRAFY 125

Query: 123 F 123
            
Sbjct: 126 L 126


  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
   0.325    0.139    0.431 

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: 534,276
Number of extensions: 18787
Number of successful extensions: 147
Number of sequences better than 1.0e-08: 9
Number of HSP's gapped: 155
Number of HSP's successfully gapped: 9
Length of query: 206
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 125
Effective length of database: 1,236,335
Effective search space: 154541875
Effective search space used: 154541875
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)