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= 0009.0181.p
         (122 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309957|ref|YP_003774049.1| chemotaxis histidine kinase [He...   157   3e-40
gi|300312286|ref|YP_003776378.1| signal-transducing histidine ki...    55   1e-09
gi|300312396|ref|YP_003776488.1| chemotaxis CheA protein [Herbas...    54   3e-09
gi|300311033|ref|YP_003775125.1| chemotaxis histidine kinase [He...    54   4e-09

>gi|300309957|ref|YP_003774049.1| chemotaxis histidine kinase
           [Herbaspirillum seropedicae SmR1]
          Length = 725

 Score =  157 bits (396), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 78/103 (75%), Positives = 88/103 (85%)

Query: 1   MKKDAARDALVQEARELLVAMEAALLQIESDGASRDAINAIFRAAHTIKGSAGLFAFDSI 60
           M KD+AR A+VQEARELLVAMEAALLQ E +G SRD+I+AIFRAAHTIKGSAGLFAFDSI
Sbjct: 1   MSKDSARHAMVQEARELLVAMEAALLQTEMEGPSRDSIHAIFRAAHTIKGSAGLFAFDSI 60

Query: 61  VSFTHLLENVLEKVRNGIVKLDDGMMSLLLNCGDYMGELVDAI 103
           V FTH LE+VLE+VR   + LD  +MSLLL C DY+GELVDAI
Sbjct: 61  VQFTHHLEHVLERVREERLALDSHLMSLLLQCSDYIGELVDAI 103


>gi|300312286|ref|YP_003776378.1| signal-transducing histidine
           kinase CheA protein [Herbaspirillum seropedicae SmR1]
          Length = 697

 Score = 55.5 bits (132), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/82 (32%), Positives = 44/82 (53%)

Query: 21  MEAALLQIESDGASRDAINAIFRAAHTIKGSAGLFAFDSIVSFTHLLENVLEKVRNGIVK 80
           ME  LL +       + +NA+FRAAH+IKG +  F    I   TH+LE++L+++R G + 
Sbjct: 1   MEKLLLAVNVASPDPEDLNAVFRAAHSIKGGSSTFGLTDIAEVTHVLESLLDRIRQGQMA 60

Query: 81  LDDGMMSLLLNCGDYMGELVDA 102
           L    +   L   D +  ++D 
Sbjct: 61  LTSEHVDAFLAAKDVLKSMLDG 82


>gi|300312396|ref|YP_003776488.1| chemotaxis CheA protein
          [Herbaspirillum seropedicae SmR1]
          Length = 638

 Score = 54.3 bits (129), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 29/68 (42%), Positives = 39/68 (57%)

Query: 10 LVQEARELLVAMEAALLQIESDGASRDAINAIFRAAHTIKGSAGLFAFDSIVSFTHLLEN 69
           V EA EL   +E  LL +E      + +NA+FRA HTIKG AG     ++VS  HL EN
Sbjct: 9  FVVEALELATNVEEHLLTLERHPDDLEILNAVFRAFHTIKGGAGFVNLPAMVSACHLTEN 68

Query: 70 VLEKVRNG 77
          + + +R G
Sbjct: 69 LFDALRTG 76


>gi|300311033|ref|YP_003775125.1| chemotaxis histidine kinase
           [Herbaspirillum seropedicae SmR1]
          Length = 837

 Score = 53.9 bits (128), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 28/97 (28%), Positives = 51/97 (52%)

Query: 7   RDALVQEARELLVAMEAALLQIESDGASRDAINAIFRAAHTIKGSAGLFAFDSIVSFTHL 66
           RD  + E R+LL  +   L+Q+E      + + ++FR  HT+KG++GLF    +    H 
Sbjct: 5   RDQFILETRDLLQGISEKLMQLEDAPEHVELLESLFRMVHTLKGNSGLFDVPEMTRVLHA 64

Query: 67  LENVLEKVRNGIVKLDDGMMSLLLNCGDYMGELVDAI 103
            E++++ VR   V   + +   LL+  D++  L D +
Sbjct: 65  CEDLMDAVRRRQVAYSEVLADRLLDAMDFVAMLCDGL 101


  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    0.137    0.379 

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: 342,589
Number of extensions: 11784
Number of successful extensions: 49
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 49
Number of HSP's successfully gapped: 4
Length of query: 122
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 48
Effective length of database: 1,269,480
Effective search space: 60935040
Effective search space used: 60935040
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 (21.9 bits)
S2: 125 (52.8 bits)