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= 0531.0013.p
         (290 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

lin2267 [K] COG2207 AraC-type DNA-binding domain-containing prot...    75   1e-13
BH0989 [K] COG2207 AraC-type DNA-binding domain-containing proteins    74   3e-13
SPy1587 [T] COG4753 Response regulator containing CheY-like rece...    68   2e-11
BS_yesS [K] COG2207 AraC-type DNA-binding domain-containing prot...    67   3e-11
VC1260 [K] COG2207 AraC-type DNA-binding domain-containing proteins    67   4e-11

>lin2267 [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 292

 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 36/94 (38%), Positives = 53/94 (56%)

Query: 193 AYLRNHYTEPLTNVSLADALHFHYNYLARCMKRVYGLTPMEYLTDYRLEQAKLLLLKTEI 252
           +Y+  HY EP++   +AD   F   Y  +  KR  G+T + +L DYRL +AK +LL    
Sbjct: 193 SYVEKHYQEPVSLQEVADYTGFSTYYFTKFFKRNTGMTFVTFLNDYRLNKAKWMLLNEAF 252

Query: 253 PIAGVAERTGFESTAYFSRRFASKVGISPLRFRK 286
           P+  VAE  GF S   F   F   +G++PL++RK
Sbjct: 253 PVTEVAELAGFSSVKTFHHAFKRAMGVAPLKYRK 286


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

 Score = 73.6 bits (179), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 63/124 (50%), Gaps = 4/124 (3%)

Query: 164 IFEDMLRMLDLGQQDAGGSPGAEIAERTEAYLRNHYTEPLTNVSLADALHFHYNYLARCM 223
           IF DML    +  ++        + E+   Y+ +HY EP+T   LAD         +   
Sbjct: 150 IFHDML----ICARNRLNRESQLVIEQVVEYIHHHYMEPMTVKKLADMSGMGVKPFSYLF 205

Query: 224 KRVYGLTPMEYLTDYRLEQAKLLLLKTEIPIAGVAERTGFESTAYFSRRFASKVGISPLR 283
           K+  G+ P++YL  YRL++AK LL+ +   IA +AE  G+    YFSR F   +G SP  
Sbjct: 206 KKYIGMFPIDYLIQYRLKRAKNLLVSSNSSIADIAESIGYLDALYFSRLFKKHIGCSPTA 265

Query: 284 FRKR 287
           FR +
Sbjct: 266 FRAQ 269


>SPy1587 [T] COG4753 Response regulator containing CheY-like receiver domain
           and AraC-type DNA-binding domain
          Length = 494

 Score = 68.2 bits (165), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 41/128 (32%), Positives = 67/128 (52%), Gaps = 5/128 (3%)

Query: 164 IFEDMLRMLDLGQQDAGGSPG---AEIAERTEAYLRNHYTEPLTNVSLADALHFHYNYLA 220
           I  ++ ++LD+  Q+   SP    +++   T   +R  Y + LT  ++AD LH +  YL 
Sbjct: 358 ILRELKKVLDVTNQN--NSPEKRYSDLVSETIDCIRKEYHQELTLKAIADRLHVNGVYLG 415

Query: 221 RCMKRVYGLTPMEYLTDYRLEQAKLLLLKTEIPIAGVAERTGFESTAYFSRRFASKVGIS 280
           +C K     +  +YL   R+++A+ LLL T   I  +A  TG+ +  YF + F    G+S
Sbjct: 416 QCFKNETERSFTQYLNHVRIQKAQQLLLYTNQSINEIAYETGYNTNHYFIKMFKKLNGLS 475

Query: 281 PLRFRKRY 288
           P  FR RY
Sbjct: 476 PKEFRDRY 483


>BS_yesS [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 761

 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/103 (35%), Positives = 59/103 (57%), Gaps = 1/103 (0%)

Query: 186 EIAERTEAYLRNHYTEPLTNVSLADALHFHYNYLARCMKRVYGLTPMEYLTDYRLEQAKL 245
           ++AER  A +   Y   ++  S ADAL  +   L++  K+V G+  ++Y+T  R+E+AK 
Sbjct: 656 QLAERVIAMIHEQYMADISLESCADALGMNSYTLSKAFKQVTGINFIDYVTQIRIEKAKE 715

Query: 246 LLLKTEIPIAGVAERTGFESTAYFSRRFASKVGISPLRFRKRY 288
           LL+ T   I  V+E  G+    YF+R F  +VG+ P  FR+ Y
Sbjct: 716 LLVNTNKKIHDVSEEVGYRHN-YFNRIFKKQVGMPPGVFRQMY 757


>VC1260 [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 299

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 39/142 (27%), Positives = 69/142 (48%), Gaps = 12/142 (8%)

Query: 159 WQQQRIFEDMLRMLDLGQQD------------AGGSPGAEIAERTEAYLRNHYTEPLTNV 206
           +Q  R+ E +L M D  Q                 S   +  +  + Y+  HY + +   
Sbjct: 153 YQSLRVIESLLVMADDAQAQRLSVAPYVMTALTSNSDTHKKIQLAKQYVEQHYAQAIKIT 212

Query: 207 SLADALHFHYNYLARCMKRVYGLTPMEYLTDYRLEQAKLLLLKTEIPIAGVAERTGFEST 266
            L   LH   +   R  ++ YG++  E+L  +R+ +A  LL  + +PIA +AERTGF + 
Sbjct: 213 DLCHQLHLSESSAYRLFEKHYGMSFSEHLKQFRIGKACELLASSALPIALIAERTGFGNL 272

Query: 267 AYFSRRFASKVGISPLRFRKRY 288
           + F+R+F +   ++P  FR+R+
Sbjct: 273 SNFNRQFKTLKTMTPREFRQRF 294


  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
   0.322    0.138    0.431 

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: 22,113,560
Number of extensions: 902176
Number of successful extensions: 2090
Number of sequences better than 1.0e-05: 64
Number of HSP's gapped: 2091
Number of HSP's successfully gapped: 64
Length of query: 290
Length of database: 38,378,431
Length adjustment: 105
Effective length of query: 185
Effective length of database: 26,268,361
Effective search space: 4859646785
Effective search space used: 4859646785
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: 115 (48.9 bits)