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= 0417.0005.p
         (254 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...    65   7e-11
SP0661 [T] COG4753 Response regulator containing CheY-like recei...    65   1e-10
BH0483 [K] COG2207 AraC-type DNA-binding domain-containing proteins    63   5e-10
BH1123 [T] COG4753 Response regulator containing CheY-like recei...    60   3e-09
mll0782 [K] COG2207 AraC-type DNA-binding domain-containing prot...    60   4e-09

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

 Score = 65.5 bits (158), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 39/133 (29%), Positives = 73/133 (54%), Gaps = 8/133 (6%)

Query: 122 ESSIDYLLRTLFNKLWESYFHDDITPQYYKLLKLRTVIQNNPGEYWTVSKMADSLGISPG 181
           +S I +++RTL  + W +      T +   +L  R  + ++  E  T+  +A  +G+SP 
Sbjct: 395 KSEILHIVRTL--QEWRT------TDEQSLMLLARDYVHDHFREPLTLDDLAKHIGLSPY 446

Query: 182 YLQNIYKKTFGISCMDDVINSRIRMAKEYLIHNAQSIAEVASRCGYQNVEHFCRQFKKLT 241
           Y+  ++K+ F ++  + V   R+  AK+ L    +S+ E+    GY++  +F R FKKLT
Sbjct: 447 YVSKLFKERFDLTFSEYVTQLRVEHAKQLLSLTQKSLKEITYEIGYKDPNYFSRVFKKLT 506

Query: 242 GYTPRNFQKHIKG 254
           G +P +++K I G
Sbjct: 507 GKSPSDYRKSING 519


>SP0661 [T] COG4753 Response regulator containing CheY-like receiver domain
           and AraC-type DNA-binding domain
          Length = 245

 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 28/84 (33%), Positives = 52/84 (61%)

Query: 167 WTVSKMADSLGISPGYLQNIYKKTFGISCMDDVINSRIRMAKEYLIHNAQSIAEVASRCG 226
           +++  +A  LG SP YL ++ KK  G+   D ++  R++ AK  L+     I E+A + G
Sbjct: 158 FSLKSLASDLGFSPTYLSSLIKKELGLPFQDYLVRERVKQAKLLLLTTDLKIYEIAEKVG 217

Query: 227 YQNVEHFCRQFKKLTGYTPRNFQK 250
           ++++ +F ++FK++ G TPR F+K
Sbjct: 218 FEDMNYFTQRFKQIAGVTPRQFKK 241


>BH0483 [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 769

 Score = 62.8 bits (151), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 32/93 (34%), Positives = 54/93 (58%)

Query: 158 VIQNNPGEYWTVSKMADSLGISPGYLQNIYKKTFGISCMDDVINSRIRMAKEYLIHNAQS 217
           +IQN      T+  +A+ L  +P YL +I++K   IS  + + + R+ MAK++L+  +  
Sbjct: 673 IIQNEFDMELTLESIAERLHYNPNYLSSIFRKETNISFSEYLSSYRLAMAKKWLLETSMP 732

Query: 218 IAEVASRCGYQNVEHFCRQFKKLTGYTPRNFQK 250
           I E+A R  Y N ++F R FKK  G TP  +++
Sbjct: 733 IREIAERLCYGNSQNFIRSFKKKEGMTPGKYRQ 765


>BH1123 [T] COG4753 Response regulator containing CheY-like receiver domain
           and AraC-type DNA-binding domain
          Length = 526

 Score = 60.1 bits (144), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 35/90 (38%), Positives = 48/90 (53%)

Query: 159 IQNNPGEYWTVSKMADSLGISPGYLQNIYKKTFGISCMDDVINSRIRMAKEYLIHNAQSI 218
           I+ +  E  T+  +AD L IS  YL  I+KK  G S  + V   R+  AK+ +      I
Sbjct: 433 IEKHLAENITLQDIADELYISRNYLGQIFKKVVGESFKNYVTRLRMEKAKKMIQEGNFLI 492

Query: 219 AEVASRCGYQNVEHFCRQFKKLTGYTPRNF 248
            EV+ + GY N  +F   FKK TGYTPR+ 
Sbjct: 493 YEVSEKVGYVNPAYFTTMFKKYTGYTPRDL 522


>mll0782 [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 329

 Score = 59.7 bits (143), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 29/98 (29%), Positives = 47/98 (47%)

Query: 157 TVIQNNPGEYWTVSKMADSLGISPGYLQNIYKKTFGISCMDDVINSRIRMAKEYLIHNAQ 216
             +  +PG  WT+  +A   G S       +    G      +   R+++A+E L  N  
Sbjct: 224 AAMHRDPGHNWTLESLASLAGQSRSIFAERFSAVLGEGAARYLARLRMQLARELLGQNGL 283

Query: 217 SIAEVASRCGYQNVEHFCRQFKKLTGYTPRNFQKHIKG 254
           S+AEVA+R GY +   F R FK++T  +P   ++ I G
Sbjct: 284 SVAEVAARLGYDSEASFARAFKRITNVSPGVVRRTIPG 321


  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    0.139    0.447 

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: 20,380,498
Number of extensions: 820520
Number of successful extensions: 2028
Number of sequences better than 1.0e-05: 52
Number of HSP's gapped: 2043
Number of HSP's successfully gapped: 52
Length of query: 254
Length of database: 38,378,431
Length adjustment: 104
Effective length of query: 150
Effective length of database: 26,383,695
Effective search space: 3957554250
Effective search space used: 3957554250
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 114 (48.5 bits)