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= 0097.0003.p
         (87 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SMa0319 [K] COG2207 AraC-type DNA-binding domain-containing prot...    73   1e-13
BH3842 [T] COG4753 Response regulator containing CheY-like recei...    65   3e-11
BH3679 [T] COG4753 Response regulator containing CheY-like recei...    62   3e-10
BH0989 [K] COG2207 AraC-type DNA-binding domain-containing proteins    60   8e-10
mll0736 [K] COG2207 AraC-type DNA-binding domain-containing prot...    60   9e-10

>SMa0319 [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 333

 Score = 73.2 bits (178), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 36/76 (47%), Positives = 47/76 (61%)

Query: 1   MGLSKFHLLRTFSKYVGLTPNEYLNRTRIERAIELLTATDLSIEAIASQVGYSSGSYFIK 60
           +G+S+FH  R F K  GL+P+ Y  R R+ RA  LL  TD SI  I   VGYSS S+F +
Sbjct: 258 VGMSEFHFSRLFKKATGLSPSRYFIRQRVARAQLLLQETDTSIIEIGMSVGYSSPSHFAQ 317

Query: 61  VFQKLTGQTPGSFRSG 76
           VF++ TG  P  +R G
Sbjct: 318 VFRRETGLPPSHYRRG 333


>BH3842 [T] COG4753 Response regulator containing CheY-like receiver domain
           and AraC-type DNA-binding domain
          Length = 530

 Score = 64.7 bits (156), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 29/80 (36%), Positives = 51/80 (63%)

Query: 1   MGLSKFHLLRTFSKYVGLTPNEYLNRTRIERAIELLTATDLSIEAIASQVGYSSGSYFIK 60
           +GLS +++ + F +   LT +EY+ + R+E A +LL+ T  S++ I  ++GY   +YF +
Sbjct: 441 IGLSPYYVSKLFKERFDLTFSEYVTQLRVEHAKQLLSLTQKSLKEITYEIGYKDPNYFSR 500

Query: 61  VFQKLTGQTPGSFRSGSGSL 80
           VF+KLTG++P  +R     L
Sbjct: 501 VFKKLTGKSPSDYRKSINGL 520


>BH3679 [T] COG4753 Response regulator containing CheY-like receiver domain
           and AraC-type DNA-binding domain
          Length = 257

 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 40/66 (60%)

Query: 12  FSKYVGLTPNEYLNRTRIERAIELLTATDLSIEAIASQVGYSSGSYFIKVFQKLTGQTPG 71
           F +   +T +EYL R R++ A  LL +TD  I  IA + GY +  YFIK+F++  G TP 
Sbjct: 191 FKEKTNMTFSEYLTRKRLQHAKHLLVSTDRPISDIAEKCGYQTAKYFIKIFKEHEGMTPT 250

Query: 72  SFRSGS 77
            +R G+
Sbjct: 251 QYRKGT 256


>BH0989 [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 278

 Score = 60.1 bits (144), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 31/79 (39%), Positives = 49/79 (62%), Gaps = 2/79 (2%)

Query: 1   MGLSKFHLLRTFSKYVGLTPNEYLNRTRIERAIELLTATDLSIEAIASQVGYSSGSYFIK 60
           MG+  F  L  F KY+G+ P +YL + R++RA  LL +++ SI  IA  +GY    YF +
Sbjct: 196 MGVKPFSYL--FKKYIGMFPIDYLIQYRLKRAKNLLVSSNSSIADIAESIGYLDALYFSR 253

Query: 61  VFQKLTGQTPGSFRSGSGS 79
           +F+K  G +P +FR+  G+
Sbjct: 254 LFKKHIGCSPTAFRAQMGN 272


>mll0736 [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 288

 Score = 59.7 bits (143), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 27/72 (37%), Positives = 46/72 (63%)

Query: 4   SKFHLLRTFSKYVGLTPNEYLNRTRIERAIELLTATDLSIEAIASQVGYSSGSYFIKVFQ 63
           S +H LR F +  G+TP ++L +TR+ RA   L  +D ++ AIA   G++  S F + F+
Sbjct: 199 SPYHFLRIFRQVAGMTPYQFLLKTRLHRAAVQLRLSDDAVSAIAFDAGFNDLSTFNRRFR 258

Query: 64  KLTGQTPGSFRS 75
           ++ G+TPG +R+
Sbjct: 259 RVMGETPGDYRA 270


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.321    0.136    0.379 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 6,081,637
Number of extensions: 182627
Number of successful extensions: 1439
Number of sequences better than 1.0e-05: 77
Number of HSP's gapped: 1442
Number of HSP's successfully gapped: 77
Length of query: 87
Length of database: 38,378,431
Length adjustment: 57
Effective length of query: 30
Effective length of database: 31,804,393
Effective search space: 954131790
Effective search space used: 954131790
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: 109 (46.6 bits)