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= 0320.0001.p
         (255 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BH3842 [T] COG4753 Response regulator containing CheY-like recei...    70   4e-12
CAC1451 [K] COG2207 AraC-type DNA-binding domain-containing prot...    69   1e-11
lin0157 [K] COG2207 AraC-type DNA-binding domain-containing prot...    66   6e-11
BH3679 [T] COG4753 Response regulator containing CheY-like recei...    65   8e-11
all2613 [K] COG2207 AraC-type DNA-binding domain-containing prot...    64   2e-10

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

 Score = 70.1 bits (170), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 32/84 (38%), Positives = 56/84 (66%)

Query: 168 VSLQELARRLALSPVQLTRRFREAFQVTPSDYLRAIRLKKARSLLAESTLTLAQIAERCG 227
           ++L +LA+ + LSP  +++ F+E F +T S+Y+  +R++ A+ LL+ +  +L +I    G
Sbjct: 432 LTLDDLAKHIGLSPYYVSKLFKERFDLTFSEYVTQLRVEHAKQLLSLTQKSLKEITYEIG 491

Query: 228 YENGFYLSRVFTKAMGVSPSEYRR 251
           Y++  Y SRVF K  G SPS+YR+
Sbjct: 492 YKDPNYFSRVFKKLTGKSPSDYRK 515


>CAC1451 [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 295

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 51/84 (60%)

Query: 168 VSLQELARRLALSPVQLTRRFREAFQVTPSDYLRAIRLKKARSLLAESTLTLAQIAERCG 227
           ++L ELA  +  S     R F++    T +DY+  IRL K+ + L ++ L + +IA +CG
Sbjct: 202 LTLNELADCVNFSTHHFCRTFKQMTGKTTTDYINGIRLYKSTNYLKQTDLNITEIAIKCG 261

Query: 228 YENGFYLSRVFTKAMGVSPSEYRR 251
           ++N  Y SR+F K   ++P++YR+
Sbjct: 262 FDNNNYFSRLFKKHYDMTPTKYRK 285


>lin0157 [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 277

 Score = 65.9 bits (159), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 32/86 (37%), Positives = 50/86 (58%)

Query: 168 VSLQELARRLALSPVQLTRRFREAFQVTPSDYLRAIRLKKARSLLAESTLTLAQIAERCG 227
           VSL  L++ + +SP  +++ F+E    +P +YL  IRL +A  LL    +T+ Q A   G
Sbjct: 191 VSLSTLSQTMYISPAYISKVFKEETGESPINYLIKIRLTRAEELLKNKDVTVKQAANMVG 250

Query: 228 YENGFYLSRVFTKAMGVSPSEYRRRS 253
           Y + +Y S++F K  G  PSE  R+S
Sbjct: 251 YNDAYYFSKLFKKYYGFPPSENWRKS 276


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

 Score = 65.5 bits (158), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 28/84 (33%), Positives = 54/84 (64%)

Query: 168 VSLQELARRLALSPVQLTRRFREAFQVTPSDYLRAIRLKKARSLLAESTLTLAQIAERCG 227
           + L+++A+ + L+P  L+  F+E   +T S+YL   RL+ A+ LL  +   ++ IAE+CG
Sbjct: 171 IGLKDVAKSVHLNPSYLSALFKEKTNMTFSEYLTRKRLQHAKHLLVSTDRPISDIAEKCG 230

Query: 228 YENGFYLSRVFTKAMGVSPSEYRR 251
           Y+   Y  ++F +  G++P++YR+
Sbjct: 231 YQTAKYFIKIFKEHEGMTPTQYRK 254


>all2613 [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 326

 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 31/84 (36%), Positives = 52/84 (61%)

Query: 169 SLQELARRLALSPVQLTRRFREAFQVTPSDYLRAIRLKKARSLLAESTLTLAQIAERCGY 228
           +L EL+RR+ ++  +L + FR+ F  T   YL   R+++A+ +L E  LT+AQ+A   GY
Sbjct: 243 TLLELSRRITVNERKLKQGFRQIFGTTVFGYLHDHRMEQAKQMLTEQKLTVAQVAHAVGY 302

Query: 229 ENGFYLSRVFTKAMGVSPSEYRRR 252
            +  + +  F K  GV+PS YR++
Sbjct: 303 SHLSHFAAAFRKKFGVNPSAYRQK 326


  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    0.136    0.411 

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: 16,562,013
Number of extensions: 547433
Number of successful extensions: 10768
Number of sequences better than 1.0e-05: 90
Number of HSP's gapped: 10784
Number of HSP's successfully gapped: 90
Length of query: 255
Length of database: 38,378,431
Length adjustment: 104
Effective length of query: 151
Effective length of database: 26,383,695
Effective search space: 3983937945
Effective search space used: 3983937945
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: 40 (21.5 bits)
S2: 114 (48.5 bits)