BLASTP 2.2.21 [Jun-14-2009]

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= 0003.0053.p         (91 letters)

Database: COGmodified 
           192,987 sequences; 59,019,183 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SMb20215 [K] COG4977 Transcriptional regulator containing an ami...    99   2e-21
CC2960 Non COG                                                         92   3e-19
Rv1931c_2 [K] COG2207 AraC-type DNA-binding domain-containing pr...    67   8e-12
MT1981_2 [K] COG2207 AraC-type DNA-binding domain-containing pro...    67   9e-12
PA1850 [K] COG4977 Transcriptional regulator containing an amida...    60   2e-09

>SMb20215 [K] COG4977 Transcriptional regulator containing an amidase domain
           and an AraC-type DNA-binding HTH domain Sme
           Sinorhizobium meliloti
          Length = 326

 Score = 99.0 bits (245), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 50/87 (57%), Positives = 66/87 (75%)

Query: 1   VTVDTLAEVACLSRRKFDRSFAAETGQTPARAIEQMRAEAARLRIEQSQDSLESIARATG 60
           ++V+ LA+ A LS R+F R+F AETGQ+PA+A+E +R EAARL +EQ + S++ IA  TG
Sbjct: 234 LSVEELADAAGLSARQFSRAFRAETGQSPAKAVETLRVEAARLMMEQGRHSMDVIAEETG 293

Query: 61  FGDAERMRRACLRLFGQPPQAMRRLAR 87
           F  A+RMRRA LR  GQPPQ +RR AR
Sbjct: 294 FAIADRMRRAFLRTLGQPPQTIRRNAR 320


>CC2960 Non COG
          Length = 312

 Score = 92.0 bits (227), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 47/84 (55%), Positives = 61/84 (72%)

Query: 1   VTVDTLAEVACLSRRKFDRSFAAETGQTPARAIEQMRAEAARLRIEQSQDSLESIARATG 60
           ++V+ LA+ A +S R F R FA ETG TPA+AIE++R EAAR  ++     +E +A  TG
Sbjct: 225 LSVEQLADRAAMSPRNFARLFAQETGVTPAKAIERLRVEAARALLDSQPLQVEDVALETG 284

Query: 61  FGDAERMRRACLRLFGQPPQAMRR 84
           FGD ERMRRA +R FGQPPQA+RR
Sbjct: 285 FGDPERMRRAFIRAFGQPPQALRR 308


>Rv1931c_2 [K] COG2207 AraC-type DNA-binding domain-containing proteins Mtu
          Mycobacterium tuberculosis H37Rv
          Length = 88

 Score = 67.4 bits (163), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 34/82 (41%), Positives = 52/82 (63%)

Query: 3  VDTLAEVACLSRRKFDRSFAAETGQTPARAIEQMRAEAARLRIEQSQDSLESIARATGFG 62
          +  LA+ A +S R F R F+ E G+ P R +E++R EAAR ++E++ D++ +IA   GFG
Sbjct: 4  IGELAQRAAMSPRHFTRVFSDEVGEAPGRYVERIRTEAARRQLEETHDTVVAIAARCGFG 63

Query: 63 DAERMRRACLRLFGQPPQAMRR 84
           AE MRR+ +R  G  P   R+
Sbjct: 64 TAETMRRSFIRRVGISPDQYRK 85


>MT1981_2 [K] COG2207 AraC-type DNA-binding domain-containing proteins MtC
          Mycobacterium tuberculosis CDC1551
          Length = 85

 Score = 67.0 bits (162), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 34/82 (41%), Positives = 52/82 (63%)

Query: 3  VDTLAEVACLSRRKFDRSFAAETGQTPARAIEQMRAEAARLRIEQSQDSLESIARATGFG 62
          +  LA+ A +S R F R F+ E G+ P R +E++R EAAR ++E++ D++ +IA   GFG
Sbjct: 1  IGELAQRAAMSPRHFTRVFSDEVGEAPGRYVERIRTEAARRQLEETHDTVVAIAARCGFG 60

Query: 63 DAERMRRACLRLFGQPPQAMRR 84
           AE MRR+ +R  G  P   R+
Sbjct: 61 TAETMRRSFIRRVGISPDQYRK 82


>PA1850 [K] COG4977 Transcriptional regulator containing an amidase domain
           and an AraC-type DNA-binding HTH domain Pae Pseudomonas
           aeruginosa
          Length = 334

 Score = 59.7 bits (143), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 47/80 (58%)

Query: 1   VTVDTLAEVACLSRRKFDRSFAAETGQTPARAIEQMRAEAARLRIEQSQDSLESIARATG 60
           ++++ LA+ AC+S R   R F  E G  P R +E++R EAAR  ++ +Q S+ +++R  G
Sbjct: 245 LSLEALADQACMSPRTLSRVFLQELGVAPGRYVERVRLEAARALLQDAQASIATVSRLCG 304

Query: 61  FGDAERMRRACLRLFGQPPQ 80
           FG  E +RR   +     PQ
Sbjct: 305 FGHPENLRRTFHKHLSVSPQ 324