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= 0307.0077.p
         (121 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF 
           2,715,099 sequences; 757,237,578 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|NP_623730.1| predicted Transcriptional regulator [Thermoanae...    58   6e-08
ref|NP_979949.1| helix-turn-helix domain protein [Bacillus cereu...    53   3e-06
gb|AAN64201.1| Orf9 [Photorhabdus luminescens]                         52   3e-06

>ref|NP_623730.1| predicted Transcriptional regulator [Thermoanaerobacter
          tengcongensis]
 gb|AAM25334.1| predicted Transcriptional regulator [Thermoanaerobacter
          tengcongensis]
          Length = 123

 Score = 58.2 bits (139), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 32/99 (32%), Positives = 52/99 (52%), Gaps = 1/99 (1%)

Query: 1  MQSIYERIEYLIKQKGITKKKFCEQLNISTGNMGDWKRGKSTPGTHKLIEIGAFFQVSLD 60
          M S+ ERI Y  K+  +T     +   +S GN+ D +  KS P ++ LI++     VS+D
Sbjct: 1  MNSVGERIRYARKKNNLTIPALSKLTGLSPGNLSDLENNKSMPSSNALIKLKNALNVSID 60

Query: 61 WLILGKKTPEMVREGSEDYFFGQLRQLNCQSDELKPEEQ 99
          WL+ G + P  V+E  E Y   +   L  ++ +  PEE+
Sbjct: 61 WLLTG-EMPSEVKEEEEKYSVDKSEDLLLKAIKELPEER 98


>ref|NP_979949.1| helix-turn-helix domain protein [Bacillus cereus ATCC 10987]
 gb|AAS42557.1| helix-turn-helix domain protein [Bacillus cereus ATCC 10987]
          Length = 262

 Score = 52.8 bits (125), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 29/78 (37%), Positives = 47/78 (60%), Gaps = 2/78 (2%)

Query: 6  ERIEYLIKQKGITKKKFCEQLNISTGNMGDWKRGKSTPGTHKLIEIGAFFQVSLDWLILG 65
          E++  L K+KG++++   E+LN +   +  W+ G+  P T KLI IG  F+VSLD+L+  
Sbjct: 5  EKLFKLRKEKGLSQEALAEKLNTTRQAVSKWENGQGFPETEKLIMIGNVFEVSLDYLL-- 62

Query: 66 KKTPEMVREGSEDYFFGQ 83
          K+T E   E  + Y+  Q
Sbjct: 63 KETAEQSNENVDGYYVSQ 80


>gb|AAN64201.1| Orf9 [Photorhabdus luminescens]
          Length = 130

 Score = 52.4 bits (124), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 31/100 (31%), Positives = 53/100 (53%), Gaps = 9/100 (9%)

Query: 13  KQKGITKKKFCEQLNISTGNMGDWKRGKSTPGTHKLIEIGAFFQVSLDWLILGKK---TP 69
           K + +T+ K  + L+I    +G W++GK+ P    +I++    +VS+D L+LG K    P
Sbjct: 25  KSRQLTQLKLADLLDIQPRMVGRWEQGKAKPQFDYIIKLAQILEVSIDHLLLGDKGSAAP 84

Query: 70  EMVREGSEDYFFGQLRQLNCQSDELKPEEQNFIKEYFEFT 109
           E       D    +L++L  Q+D LKPE+Q  I  + +  
Sbjct: 85  EF------DIKNKRLKELCKQADALKPEDQEVICHFLDMA 118


  Database: All non-redundant GenBank CDS
  translations+PDB+SwissProt+PIR+PRF
    Posted date:  Mar 24, 2004  1:53 AM
  Number of letters in database: 757,237,578
  Number of sequences in database:  2,715,099
  
Lambda     K      H
   0.316    0.135    0.395 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 2715099
Number of Hits to DB: 195,863,009
Number of extensions: 7755624
Number of successful extensions: 17592
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 17609
Number of HSP's successfully gapped: 3
Length of query: 121
Length of database: 757,237,578
Length adjustment: 85
Effective length of query: 36
Effective length of database: 526,454,163
Effective search space: 18952349868
Effective search space used: 18952349868
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 120 (50.8 bits)