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= 0341.0029.p
         (117 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CAC0310 [K] COG2002 Regulators of stationary/sporulation gene ex...   112   2e-25
CAC3647 [K] COG2002 Regulators of stationary/sporulation gene ex...   109   1e-24
CAC1941 [K] COG2002 Regulators of stationary/sporulation gene ex...   103   4e-23
BS_abrB [K] COG2002 Regulators of stationary/sporulation gene ex...    91   4e-19
BH0050 [K] COG2002 Regulators of stationary/sporulation gene exp...    87   5e-18

>CAC0310 [K] COG2002 Regulators of stationary/sporulation gene expression
          Length = 81

 Score =  112 bits (279), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 52/77 (67%), Positives = 65/77 (84%)

Query: 34  MKATGIVRKVDELGRIVIPIELRRTMGIDIKDPLEIFVDGEKIILRKYEPTCIFSGSAEN 93
           MK+TG+VR+VDELGRIVIPIELRRT+ I  KD LEI+VDGE+IIL+KYEP CIF G A +
Sbjct: 1   MKSTGVVRRVDELGRIVIPIELRRTLNIAEKDALEIYVDGEQIILKKYEPACIFCGDASD 60

Query: 94  LINFKGKMVSKDVLDEL 110
           +IN++GK + K  L+EL
Sbjct: 61  VINYRGKNICKHCLEEL 77


>CAC3647 [K] COG2002 Regulators of stationary/sporulation gene expression
          Length = 81

 Score =  109 bits (272), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 50/77 (64%), Positives = 65/77 (84%)

Query: 34  MKATGIVRKVDELGRIVIPIELRRTMGIDIKDPLEIFVDGEKIILRKYEPTCIFSGSAEN 93
           MK+TG+VR+VDELGRIVIPIELRRT+ I  KD LEI+VDGE+IIL+KY+P CIF G A +
Sbjct: 1   MKSTGVVRRVDELGRIVIPIELRRTLEIAEKDALEIYVDGEQIILKKYQPACIFCGDARD 60

Query: 94  LINFKGKMVSKDVLDEL 110
           +IN+KGK + +  L++L
Sbjct: 61  VINYKGKNICQSCLNQL 77


>CAC1941 [K] COG2002 Regulators of stationary/sporulation gene expression
          Length = 79

 Score =  103 bits (258), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 60/77 (77%)

Query: 34  MKATGIVRKVDELGRIVIPIELRRTMGIDIKDPLEIFVDGEKIILRKYEPTCIFSGSAEN 93
           MK+TGIVRK+D LGR+VIP ELRRT  I  KD LEI+VDGE+I+L+KY P C+F G A +
Sbjct: 1   MKSTGIVRKLDSLGRVVIPKELRRTFNIAEKDALEIYVDGEQIVLKKYNPACVFCGEASD 60

Query: 94  LINFKGKMVSKDVLDEL 110
           +IN+KGK + K  L EL
Sbjct: 61  VINYKGKKICKKCLKEL 77


>BS_abrB [K] COG2002 Regulators of stationary/sporulation gene expression
          Length = 96

 Score = 90.9 bits (224), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 52/86 (60%), Positives = 66/86 (76%), Gaps = 5/86 (5%)

Query: 34  MKATGIVRKVDELGRIVIPIELRRTMGIDIKDPLEIFVDGEKIILRKYEP--TCIFSG-- 89
           MK+TGIVRKVDELGR+VIPIELRRT+GI  KD LEI+VD EKIIL+KY+P  TC  +G  
Sbjct: 3   MKSTGIVRKVDELGRVVIPIELRRTLGIAEKDALEIYVDDEKIILKKYKPNMTCQVTGEV 62

Query: 90  SAENLINFKGKMV-SKDVLDELIASF 114
           S +NL    GK+V SK+  +++I+  
Sbjct: 63  SDDNLKLAGGKLVLSKEGAEQIISEI 88


>BH0050 [K] COG2002 Regulators of stationary/sporulation gene expression
          Length = 96

 Score = 87.4 bits (215), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 49/86 (56%), Positives = 65/86 (75%), Gaps = 9/86 (10%)

Query: 34  MKATGIVRKVDELGRIVIPIELRRTMGIDIKDPLEIFVDGEKIILRKYEP--TCIFSG-- 89
           MK+TGIVRKVDELGR+VIPIELRRT+ I  KD LEI+VD ++IIL+KY+P  TC  +G  
Sbjct: 1   MKSTGIVRKVDELGRVVIPIELRRTLDIAEKDALEIYVDNDRIILKKYKPNMTCQVTGEV 60

Query: 90  SAENLINFKGKMV-----SKDVLDEL 110
           S +NL   +GK++     +KD+L +L
Sbjct: 61  SDDNLSLAEGKIILSPQGAKDILKDL 86


  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
   0.327    0.146    0.421 

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: 8,565,580
Number of extensions: 344176
Number of successful extensions: 660
Number of sequences better than 1.0e-05: 11
Number of HSP's gapped: 659
Number of HSP's successfully gapped: 11
Length of query: 117
Length of database: 38,378,431
Length adjustment: 84
Effective length of query: 33
Effective length of database: 28,690,375
Effective search space: 946782375
Effective search space used: 946782375
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 109 (46.6 bits)