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= 0043.0012.p
         (143 letters)

Database: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

P96673.2 YDEP_BACSU Uncharacterized HTH-type transcriptional reg...   148   2e-34
P37486.1 YYBR_BACSU Uncharacterized HTH-type transcriptional reg...   142   1e-32
A7ZAR1.1 A7ZAR1_BACA2 YybR                                            140   4e-32
C0ZA00.1 C0ZA00_BREBN Putative uncharacterized protein ydeP           136   5e-31
A3I669.1 A3I669_9BACI Putative uncharacterized protein                135   1e-30

>P96673.2 YDEP_BACSU Uncharacterized HTH-type transcriptional regulator ydeP
          Length = 128

 Score =  148 bits (373), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 71/115 (61%), Positives = 86/115 (74%), Gaps = 2/115 (1%)

Query: 4   QRSRGAANSKDSQES--LQSTLDLIGGKWKGVLLYHLISGTKRFNEIRRLCPEITQRMLT 61
            R  G   S D  E   +++TLD+IGGKWKG+LLYHLI G KRFNE R+L P+ITQRMLT
Sbjct: 3   NRKLGIDYSSDDFEGCPVETTLDIIGGKWKGILLYHLIDGKKRFNEFRKLYPKITQRMLT 62

Query: 62  LQLRDLERSGLVHRKVYPQAPRKVEYSLTEWGRGLEAAILSIKSWGEAYREEFGK 116
           LQLR+LER G++HR+VY Q P KVEYSLTE+GR LE  IL +K WGE Y++   K
Sbjct: 63  LQLRELERDGVIHREVYKQVPPKVEYSLTEFGRTLEPVILHMKDWGEKYKDRIDK 117


>P37486.1 YYBR_BACSU Uncharacterized HTH-type transcriptional regulator yybR
          Length = 125

 Score =  142 bits (357), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 63/94 (67%), Positives = 77/94 (81%)

Query: 19  LQSTLDLIGGKWKGVLLYHLISGTKRFNEIRRLCPEITQRMLTLQLRDLERSGLVHRKVY 78
           ++ TLD+IGGKWKG+L YH+I G KRFNE RR+CP ITQRMLTLQLR+LE  G+VHR+VY
Sbjct: 16  VEFTLDVIGGKWKGILFYHMIDGKKRFNEFRRICPSITQRMLTLQLRELEADGIVHREVY 75

Query: 79  PQAPRKVEYSLTEWGRGLEAAILSIKSWGEAYRE 112
            Q P KVEYSLTE+GR LE  +L +K WGE+ R+
Sbjct: 76  HQVPPKVEYSLTEFGRTLEPIVLQMKEWGESNRD 109


>A7ZAR1.1 A7ZAR1_BACA2 YybR
          Length = 123

 Score =  140 bits (352), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 63/94 (67%), Positives = 76/94 (80%)

Query: 19  LQSTLDLIGGKWKGVLLYHLISGTKRFNEIRRLCPEITQRMLTLQLRDLERSGLVHRKVY 78
           ++ TL +IGGKWKG+L YH+I G KRFNE RR+CP ITQRMLTLQLR+LE  G+VHR+VY
Sbjct: 12  VELTLSVIGGKWKGILFYHMIGGKKRFNEFRRICPSITQRMLTLQLRELEADGIVHREVY 71

Query: 79  PQAPRKVEYSLTEWGRGLEAAILSIKSWGEAYRE 112
            Q P KVEYSLTE+GR LE  +L +K WG+A RE
Sbjct: 72  QQVPPKVEYSLTEFGRSLEPIVLQMKKWGDANRE 105


>C0ZA00.1 C0ZA00_BREBN Putative uncharacterized protein ydeP
          Length = 125

 Score =  136 bits (343), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 62/108 (57%), Positives = 86/108 (79%), Gaps = 1/108 (0%)

Query: 19  LQSTLDLIGGKWKGVLLYHLISGTKRFNEIRRLCPEITQRMLTLQLRDLERSGLVHRKVY 78
           +++TLD+IGGKWKG++LY L++GTKRFNE RRL P ITQ MLTLQLR+LER G++HR++Y
Sbjct: 19  VETTLDVIGGKWKGIILYQLLNGTKRFNEFRRLNPGITQFMLTLQLRELERDGIIHREIY 78

Query: 79  PQAPRKVEYSLTEWGRGLEAAILSIKSWGEAYREEFGKAHPQLPGYQA 126
            + P +VEYSLT+ GR LE  I+S+K WGE+Y+    + +P + G Q+
Sbjct: 79  KEVPPRVEYSLTDLGRTLEPVIMSMKVWGESYKARLNE-NPTIQGEQS 125


>A3I669.1 A3I669_9BACI Putative uncharacterized protein
          Length = 116

 Score =  135 bits (339), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 60/92 (65%), Positives = 78/92 (84%)

Query: 19  LQSTLDLIGGKWKGVLLYHLISGTKRFNEIRRLCPEITQRMLTLQLRDLERSGLVHRKVY 78
           +++TL +IGGKWKGV+LYHL+SGTKRFNE RRL P+ITQRMLTLQLR+LE+ G++HR+++
Sbjct: 21  VEATLAVIGGKWKGVILYHLMSGTKRFNEFRRLMPDITQRMLTLQLRELEKDGIIHREIF 80

Query: 79  PQAPRKVEYSLTEWGRGLEAAILSIKSWGEAY 110
            + P KVEYSLTE+GR LE  I  ++ WGE Y
Sbjct: 81  KEVPPKVEYSLTEFGRTLEPIIKLMRDWGEQY 112


  Database: pfamseq
    Posted date:  Aug 5, 2010  3:22 PM
  Number of letters in database: 3,060,696,203
  Number of sequences in database:  9,421,015
  
Lambda     K      H
   0.316    0.133    0.402 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 9421015
Number of Hits to DB: 875,909,944
Number of extensions: 33728656
Number of successful extensions: 91983
Number of sequences better than 1.0e-05: 2534
Number of HSP's gapped: 91562
Number of HSP's successfully gapped: 2535
Length of query: 143
Length of database: 3,060,696,203
Length adjustment: 106
Effective length of query: 37
Effective length of database: 2,062,068,613
Effective search space: 76296538681
Effective search space used: 76296538681
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: 126 (53.1 bits)