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= 0254.0033.p
         (384 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SA1323 [TK] COG0745 Response regulators consisting of a CheY-lik...    75   1e-13
lin2062 [TK] COG0745 Response regulators consisting of a CheY-li...    75   3e-13
CC0294 [TK] COG0745 Response regulators consisting of a CheY-lik...    73   9e-13
BMEI1984 [TK] COG0745 Response regulators consisting of a CheY-l...    70   8e-12
BS_resD [TK] COG0745 Response regulators consisting of a CheY-li...    69   2e-11

>SA1323 [TK] COG0745 Response regulators consisting of a CheY-like receiver
           domain and a winged-helix DNA-binding domain
          Length = 241

 Score = 75.5 bits (184), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 41/97 (42%), Positives = 58/97 (59%), Gaps = 4/97 (4%)

Query: 2   HLELNNSEYKVMADGITITLLPKEFALLQFLYRNVGRTFSREQLLDHVWPLEYPVE-RTV 60
           HLE++N  ++V+AD   + L PKE+ LL +L +   + F REQLL  VW  E+  + RTV
Sbjct: 140 HLEIDNDAHRVLADNQEVNLTPKEYELLIYLAKTPNKVFDREQLLKEVWHYEFYGDLRTV 199

Query: 61  DDHIYRLRKKLHVLSGLD---IKTVRGFGYSLAVPGT 94
           D H+ RLR+KL+ +S      I+TV G GY   V   
Sbjct: 200 DTHVKRLREKLNRVSSEAAHMIQTVWGVGYKFEVKSN 236


>lin2062 [TK] COG0745 Response regulators consisting of a CheY-like receiver
           domain and a winged-helix DNA-binding domain
          Length = 238

 Score = 74.7 bits (182), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 41/95 (43%), Positives = 58/95 (61%), Gaps = 4/95 (4%)

Query: 2   HLELNNSEYKVMADGITITLLPKEFALLQFLYRNVGRTFSREQLLDHVWPLEYPVE-RTV 60
           HL+++N  ++V+ DG  I L PKE+ LL +L ++  + F RE LL  VW  E+  + RT+
Sbjct: 142 HLKIDNEAHRVIVDGKEIGLTPKEYDLLYYLAKSPDKVFDRESLLKEVWRYEFFGDLRTI 201

Query: 61  DDHIYRLRKKLHVLS---GLDIKTVRGFGYSLAVP 92
           D H+ RLR+KLH +S      I TV G GY   VP
Sbjct: 202 DTHVKRLREKLHDVSEDAARMIVTVWGLGYKFEVP 236


>CC0294 [TK] COG0745 Response regulators consisting of a CheY-like receiver
           domain and a winged-helix DNA-binding domain
          Length = 230

 Score = 72.8 bits (177), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 44/87 (50%), Positives = 55/87 (63%), Gaps = 2/87 (2%)

Query: 5   LNNSEYKVMADGITITLLPKEFALLQFLYRNVGRTFSREQLLDHVWPLEYPVE-RTVDDH 63
           ++   ++V   G  I L P EF LL +L ++ GR FSREQLLD VW  +  VE RTVD H
Sbjct: 139 IDRVAHRVKRSGKEIHLGPTEFRLLDYLMQHPGRVFSREQLLDAVWGSDVYVEARTVDVH 198

Query: 64  IYRLRKKLHVLSGLD-IKTVRGFGYSL 89
           I RLRK L+  +  D I+TVR  GYSL
Sbjct: 199 IGRLRKALNGTTDADPIRTVRSAGYSL 225


>BMEI1984 [TK] COG0745 Response regulators consisting of a CheY-like receiver
           domain and a winged-helix DNA-binding domain
          Length = 255

 Score = 69.7 bits (169), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 40/88 (45%), Positives = 53/88 (60%), Gaps = 2/88 (2%)

Query: 5   LNNSEYKVMADGITITLLPKEFALLQFLYRNVGRTFSREQLLDHVW-PLEYPVERTVDDH 63
           L+  +++V      + L P EF LL++   + GR FSR QLLD VW P  Y  +RTVD H
Sbjct: 168 LDRQQHRVYRKEKEVHLGPTEFRLLEYFMMSPGRVFSRSQLLDGVWGPDIYVDDRTVDVH 227

Query: 64  IYRLRKKLHVLSGLD-IKTVRGFGYSLA 90
           + RLRK ++V    D I+TVRG GYS  
Sbjct: 228 VGRLRKAINVGRAADSIRTVRGAGYSFG 255


>BS_resD [TK] COG0745 Response regulators consisting of a CheY-like receiver
           domain and a winged-helix DNA-binding domain
          Length = 240

 Score = 68.6 bits (166), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 38/94 (40%), Positives = 56/94 (59%), Gaps = 4/94 (4%)

Query: 2   HLELNNSEYKVMADGITITLLPKEFALLQFLYRNVGRTFSREQLLDHVWPLEYPVE-RTV 60
           HL +++  ++V ADG  ++L PK + LL FL +   + + RE+LL  VW  E+  + RTV
Sbjct: 144 HLSIDHDAHRVTADGTEVSLTPKVYELLYFLAKTPDKVYDREKLLKEVWQYEFFGDLRTV 203

Query: 61  DDHIYRLRKKLHVLS---GLDIKTVRGFGYSLAV 91
           D H+ RLR+KL+ +S      I TV G GY   V
Sbjct: 204 DTHVKRLREKLNKVSPEAAKKIVTVWGVGYKFEV 237


  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
   0.323    0.141    0.412 

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: 29,572,076
Number of extensions: 1290892
Number of successful extensions: 2527
Number of sequences better than 1.0e-05: 76
Number of HSP's gapped: 2539
Number of HSP's successfully gapped: 76
Length of query: 384
Length of database: 38,378,431
Length adjustment: 108
Effective length of query: 276
Effective length of database: 25,922,359
Effective search space: 7154571084
Effective search space used: 7154571084
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 117 (49.7 bits)