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= 0349.0012.p
         (123 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B3K6Z1.1 B3K6Z1_9BACI Regulatory protein MarR                         159   9e-38
B1DMI3.1 B1DMI3_9BACL Transcriptional regulator, MarR family          134   3e-30
A6CHD1.1 A6CHD1_9BACI YpoP                                             77   5e-13
A4J1C0.1 A4J1C0_DESRM Transcriptional regulator, MarR family           72   2e-11
Q4K9R4.1 Q4K9R4_PSEF5 Transcriptional regulator, MarR family           67   3e-10

>B3K6Z1.1 B3K6Z1_9BACI Regulatory protein MarR
          Length = 143

 Score =  159 bits (401), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 75/116 (64%), Positives = 94/116 (81%)

Query: 1   MDSNLAPTLTDAQLTVLELLQERDAMKPSDLAPHLATSPAAVTMLLDRMEKHGLIVRERD 60
           M++ LAPTLT++QL VLE+L E+  MKPSD  P+LATSPAAVTMLLDRMEK+ LI RERD
Sbjct: 21  MEAGLAPTLTESQLMVLEVLAEQKRMKPSDFIPYLATSPAAVTMLLDRMEKNELIQRERD 80

Query: 61  AADRRIVWVSITETGKRETERGLQIRSDFFAEALDPISSHNQQLLLYLMGKMVVAP 116
           A DRRIVWV+I+  G+ E  RGLQ+R ++ +  L+ ISSHNQQLL+YL+GK+  AP
Sbjct: 81  ANDRRIVWVTISYKGREEYTRGLQVREEYLSRILNRISSHNQQLLVYLLGKISTAP 136


>B1DMI3.1 B1DMI3_9BACL Transcriptional regulator, MarR family
          Length = 134

 Score =  134 bits (336), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 66/115 (57%), Positives = 87/115 (75%), Gaps = 1/115 (0%)

Query: 1   MDSNLAPTLTDAQLTVLELLQERDAMKPSDLAPHLATSPAAVTMLLDRMEKHGLIVRERD 60
           ++  LAP LT+ QL VL++L   + MKPS+L  +LAT+PAA+T LLDRME++ LIVR RD
Sbjct: 21  LEEGLAP-LTEGQLNVLDILLRHEPMKPSELLQYLATTPAAITTLLDRMERNELIVRTRD 79

Query: 61  AADRRIVWVSITETGKRETERGLQIRSDFFAEALDPISSHNQQLLLYLMGKMVVA 115
             DRRIVWVS++E GK E +RG  +RS    ++LD ISSHNQQLL+YL+GK+  A
Sbjct: 80  NQDRRIVWVSVSEKGKSEAQRGAGVRSKLIGDSLDRISSHNQQLLVYLLGKVANA 134


>A6CHD1.1 A6CHD1_9BACI YpoP
          Length = 121

 Score = 77.0 bits (188), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 36/104 (34%), Positives = 63/104 (60%)

Query: 9   LTDAQLTVLELLQERDAMKPSDLAPHLATSPAAVTMLLDRMEKHGLIVRERDAADRRIVW 68
           L+  +L VL+ L E   MK SDL+  +  S + VT + D + + G I R+R + DRR+V 
Sbjct: 14  LSSGELLVLKYLSEHGEMKASDLSKKMEVSASHVTSVTDSLTEKGYITRQRSSVDRRVVE 73

Query: 69  VSITETGKRETERGLQIRSDFFAEALDPISSHNQQLLLYLMGKM 112
           +++TE GK   ++ ++I+S++F E  +  S+   + L+YL  K+
Sbjct: 74  LTLTEKGKEILDKCMRIKSEYFQEKFNTFSNDEIEQLIYLFTKL 117


>A4J1C0.1 A4J1C0_DESRM Transcriptional regulator, MarR family
          Length = 150

 Score = 71.6 bits (174), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/110 (38%), Positives = 60/110 (54%), Gaps = 1/110 (0%)

Query: 3   SNLAPTLTDAQLTVLELLQERDAMKPSDLAPHLATSPAAVTMLLDRMEKHGLIVRERDAA 62
           S LA  LT  Q  VL+LLQ  +    +++A  +   P+A+T +LDRM ++G I+RER+  
Sbjct: 29  SKLAEGLTPPQFFVLKLLQT-NGRTVTEIAELMNVQPSAITAILDRMYRNGFIIRERNET 87

Query: 63  DRRIVWVSITETGKRETERGLQIRSDFFAEALDPISSHNQQLLLYLMGKM 112
           DRR+V V ITE GK    +  Q R D     L  +   +   LL +  KM
Sbjct: 88  DRRVVLVQITEKGKEAFVKSQQKRQDVMLHFLSYLEKEDLDALLAIYEKM 137


>Q4K9R4.1 Q4K9R4_PSEF5 Transcriptional regulator, MarR family
          Length = 160

 Score = 67.4 bits (163), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/116 (32%), Positives = 69/116 (59%), Gaps = 1/116 (0%)

Query: 1   MDSNLAP-TLTDAQLTVLELLQERDAMKPSDLAPHLATSPAAVTMLLDRMEKHGLIVRER 59
           +D+++ P  +T AQ  VL ++ +     P++L  HL+    ++T +LDR+E+ G + R+R
Sbjct: 29  IDTHMEPHGITAAQFKVLIIMAQFGVDTPAELCRHLSLDSGSMTRMLDRLEQKGFLARQR 88

Query: 60  DAADRRIVWVSITETGKRETERGLQIRSDFFAEALDPISSHNQQLLLYLMGKMVVA 115
              DRR V +++TE G++ T+R  QI +D   E    IS    + L Y++ K+++A
Sbjct: 89  SEGDRRQVQLTLTEQGQQLTDRLPQIGADAMNELAGAISPDELKTLEYILKKILLA 144


  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
   0.317    0.131    0.367 

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: 669,757,023
Number of extensions: 23094435
Number of successful extensions: 77116
Number of sequences better than 1.0e-05: 497
Number of HSP's gapped: 77489
Number of HSP's successfully gapped: 497
Length of query: 123
Length of database: 3,060,696,203
Length adjustment: 89
Effective length of query: 34
Effective length of database: 2,222,225,868
Effective search space: 75555679512
Effective search space used: 75555679512
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 (21.7 bits)
S2: 125 (52.8 bits)