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= 0001.0391.p         (77 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

RSc0505 Non COG                                                       105   4e-23
NMB1420 [KL] COG2901 Factor for inversion stimulation Fis, trans...    89   2e-18
NMA1632 [KL] COG2901 Factor for inversion stimulation Fis, trans...    89   2e-18
PA4853 [KL] COG2901 Factor for inversion stimulation Fis, transc...    82   2e-16
VC0290 [KL] COG2901 Factor for inversion stimulation Fis, transc...    74   6e-14

>RSc0505 Non COG
          Length = 77

 Score =  105 bits (261), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 59/77 (76%)

Query: 1  MSKESIEDVVKKSLEKYFRDLGEQLPTNVYDMVLSTVEKPVFETVMARAEGNQSQAAEIL 60
          MS+  IE  ++ SL+ Y+RDL  + P+NVYDMVL  +E+P+ ETVM  A  NQS AA+ L
Sbjct: 1  MSRNPIERCIRDSLDTYYRDLDGENPSNVYDMVLQAIERPLLETVMEWASNNQSLAADYL 60

Query: 61 GINRNTLRKKLQQHGLL 77
          GINRNTLRKKLQQHGLL
Sbjct: 61 GINRNTLRKKLQQHGLL 77


>NMB1420 [KL] COG2901 Factor for inversion stimulation Fis,
          transcriptional activator Nme Neisseria meningitidis
          MC58
          Length = 79

 Score = 89.4 bits (220), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 41/72 (56%), Positives = 53/72 (73%)

Query: 6  IEDVVKKSLEKYFRDLGEQLPTNVYDMVLSTVEKPVFETVMARAEGNQSQAAEILGINRN 65
          I   ++++LE+YF+DL    P  VYDMVL  VEKP+   VM +  GNQS+A+ +LG+NRN
Sbjct: 8  ISQCIRQNLEQYFKDLNGTEPCGVYDMVLHQVEKPLLVCVMEQCGGNQSKASVMLGLNRN 67

Query: 66 TLRKKLQQHGLL 77
          TLRKKL QHGLL
Sbjct: 68 TLRKKLIQHGLL 79


>NMA1632 [KL] COG2901 Factor for inversion stimulation Fis,
          transcriptional activator NmA Neisseria meningitidis
          Z2491
          Length = 79

 Score = 89.4 bits (220), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 41/72 (56%), Positives = 53/72 (73%)

Query: 6  IEDVVKKSLEKYFRDLGEQLPTNVYDMVLSTVEKPVFETVMARAEGNQSQAAEILGINRN 65
          I   ++++LE+YF+DL    P  VYDMVL  VEKP+   VM +  GNQS+A+ +LG+NRN
Sbjct: 8  ISQCIRQNLEQYFKDLNGTEPCGVYDMVLHQVEKPLLVCVMEQCGGNQSKASVMLGLNRN 67

Query: 66 TLRKKLQQHGLL 77
          TLRKKL QHGLL
Sbjct: 68 TLRKKLIQHGLL 79


>PA4853 [KL] COG2901 Factor for inversion stimulation Fis, transcriptional
           activator Pae Pseudomonas aeruginosa
          Length = 107

 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/74 (52%), Positives = 55/74 (74%)

Query: 4   ESIEDVVKKSLEKYFRDLGEQLPTNVYDMVLSTVEKPVFETVMARAEGNQSQAAEILGIN 63
           +++ D V+K+L  YF  L  Q  T+VY+MVL  VE P+ ETVM   +GNQ++A+E+LG+N
Sbjct: 34  QTLRDSVEKALHNYFAHLEGQPVTDVYNMVLCEVEAPLLETVMNHVKGNQTKASELLGLN 93

Query: 64  RNTLRKKLQQHGLL 77
           R TLRKKL+Q+ LL
Sbjct: 94  RGTLRKKLKQYDLL 107


>VC0290 [KL] COG2901 Factor for inversion stimulation Fis,
          transcriptional activator Vch Vibrio cholerae
          Length = 98

 Score = 74.3 bits (181), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 33/76 (43%), Positives = 55/76 (72%)

Query: 1  MSKESIEDVVKKSLEKYFRDLGEQLPTNVYDMVLSTVEKPVFETVMARAEGNQSQAAEIL 60
          ++++ + D VK SL+ Y   L  Q  T +Y++VL+ VE+P+ +T+M    GNQ++AA ++
Sbjct: 22 ITQKPLRDSVKASLKNYLAQLNGQEVTELYELVLAEVEQPLLDTIMQYTRGNQTRAATMM 81

Query: 61 GINRNTLRKKLQQHGL 76
          GINR TLRKKL+++G+
Sbjct: 82 GINRGTLRKKLKKYGM 97