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= 0105.0007.p
         (233 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

mll0736 [K] COG2207 AraC-type DNA-binding domain-containing prot...    76   5e-14
BS_ydeC [K] COG2207 AraC-type DNA-binding domain-containing prot...    64   2e-10
SMb20055 [K] COG4977 Transcriptional regulator containing an ami...    64   2e-10
AGl2735 [K] COG4977 Transcriptional regulator containing an amid...    64   2e-10
celD [K] COG2207 AraC-type DNA-binding domain-containing proteins      63   3e-10

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

 Score = 75.9 bits (185), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 35/87 (40%), Positives = 56/87 (64%)

Query: 146 VDIESMAAIALQSRYHFIRSFKQLTQFTPYQYVLRLRINEAGKRLRLSEESVTDISFSLG 205
           V + ++A     S YHF+R F+Q+   TPYQ++L+ R++ A  +LRLS+++V+ I+F  G
Sbjct: 187 VSLSTLADETATSPYHFLRIFRQVAGMTPYQFLLKTRLHRAAVQLRLSDDAVSAIAFDAG 246

Query: 206 FSSVTQFYRTFLRLKGMTPTQYRKRTS 232
           F+ ++ F R F R+ G TP  YR   S
Sbjct: 247 FNDLSTFNRRFRRVMGETPGDYRASRS 273


>BS_ydeC [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 291

 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/102 (32%), Positives = 58/102 (56%)

Query: 131 MTRVLDYLHSCYMTAVDIESMAAIALQSRYHFIRSFKQLTQFTPYQYVLRLRINEAGKRL 190
           M ++L+++H  Y+  + +E +A     SR    R FK++   TP +YV+  RI ++   L
Sbjct: 190 MKQMLNWIHLHYVEKITLEDIAKAGQLSRSECCRYFKRMLNKTPLRYVMDYRIQKSLLLL 249

Query: 191 RLSEESVTDISFSLGFSSVTQFYRTFLRLKGMTPTQYRKRTS 232
           +  E +VT++S+ +GF+S + F   F +   MTP  Y+K  S
Sbjct: 250 QHPESNVTEVSYQVGFNSTSYFISKFQQAMNMTPLSYKKMNS 291


>SMb20055 [K] COG4977 Transcriptional regulator containing an amidase domain
           and an AraC-type DNA-binding HTH domain
          Length = 329

 Score = 63.9 bits (154), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 31/107 (28%), Positives = 54/107 (50%)

Query: 127 SDPHMTRVLDYLHSCYMTAVDIESMAAIALQSRYHFIRSFKQLTQFTPYQYVLRLRINEA 186
            D  + +V  +L +    AV +  MA +       F+R FK  T   P +Y   LR+ +A
Sbjct: 219 GDEAILKVQHWLQTREARAVSVAEMAKVVAMEDRTFLRRFKAATGMKPIEYAQHLRVGKA 278

Query: 187 GKRLRLSEESVTDISFSLGFSSVTQFYRTFLRLKGMTPTQYRKRTSI 233
            + L  ++ SV  I++S+G+     F + F R+ G++P  YR R ++
Sbjct: 279 RELLEFTKRSVEQIAWSVGYEDAAAFRKLFHRIVGLSPGDYRHRFAV 325


>AGl2735 [K] COG4977 Transcriptional regulator containing an amidase domain
           and an AraC-type DNA-binding HTH domain
          Length = 137

 Score = 63.9 bits (154), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 0/106 (0%), Positives = 0/106 (0%)

Query: 127 SDPHMTRVLDYLHSCYMTAVDIESMAAIALQSRYHFIRSFKQLTQFTPYQYVLRLRINEA 186
                                                                       
Sbjct: 214                                                              273

Query: 187 GKRLRLSEESVTDISFSLGFSSVTQFYRTFLRLKGMTPTQYRKRTS 232
                                                         
Sbjct: 274                                                319


>celD [K] COG2207 AraC-type DNA-binding domain-containing proteins
          Length = 280

 Score = 63.2 bits (152), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 32/83 (38%), Positives = 53/83 (63%)

Query: 148 IESMAAIALQSRYHFIRSFKQLTQFTPYQYVLRLRINEAGKRLRLSEESVTDISFSLGFS 207
           +E+M A++ +S+ +  R+ ++    TP Q +  +RIN A K+L ++  SVTDI+F  G+S
Sbjct: 192 LENMVALSAKSQEYLTRATQRYYGKTPMQIINEIRINFAKKQLEMTNYSVTDIAFEAGYS 251

Query: 208 SVTQFYRTFLRLKGMTPTQYRKR 230
           S + F +TF +L   TP  YRK+
Sbjct: 252 SPSLFIKTFKKLTSFTPKSYRKK 274


  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
   0.324    0.137    0.398 

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: 15,253,796
Number of extensions: 530753
Number of successful extensions: 1940
Number of sequences better than 1.0e-05: 83
Number of HSP's gapped: 1932
Number of HSP's successfully gapped: 83
Length of query: 233
Length of database: 38,378,431
Length adjustment: 103
Effective length of query: 130
Effective length of database: 26,499,029
Effective search space: 3444873770
Effective search space used: 3444873770
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: 40 (21.6 bits)
S2: 114 (48.5 bits)