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= 0591.0027.p
         (413 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

lin0980 [GEPR] COG0477 Permeases of the major facilitator superf...    55   2e-07
BS_mdr [GEPR] COG0477 Permeases of the major facilitator superfa...    51   3e-06
MTH104 [GEPR] COG0477 Permeases of the major facilitator superfa...    51   4e-06
MTH1049 [K] COG0085 DNA-directed RNA polymerase, beta subunit/14...    51   4e-06
BS_yfhI [G] COG2814 Arabinose efflux permease                          51   4e-06

>lin0980 [GEPR] COG0477 Permeases of the major facilitator superfamily
          Length = 491

 Score = 55.1 bits (131), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 28/102 (27%), Positives = 46/102 (45%)

Query: 87  LSDKLGRKRVMXXXXXXXXXXXXXXXXXXXFPALIVFRCIQGAVAATFSPVALTYAGEVF 146
           LSD  GRK +                       LI+FR IQG  A    P  +T   +V+
Sbjct: 65  LSDLYGRKNIFVIATIIFIIGSSLCGFAQNMEQLIIFRAIQGIGAGGILPSTMTIIADVY 124

Query: 147 PTHRRVSAIGMISAGFLMAGILGQVWASYLNERLGWHAVFLL 188
           P  +R   +G + + + +AG+ G +   +L ++L WH +F +
Sbjct: 125 PFEKRAKVLGFMGSAWGIAGVFGPLVGGFLVDQLSWHWIFFI 166


>BS_mdr [GEPR] COG0477 Permeases of the major facilitator superfamily
          Length = 426

 Score = 51.2 bits (121), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 30/103 (29%), Positives = 44/103 (42%)

Query: 86  PLSDKLGRKRVMXXXXXXXXXXXXXXXXXXXFPALIVFRCIQGAVAATFSPVALTYAGEV 145
            LSD  GRKR                        LI+FR IQG       P+A T   ++
Sbjct: 69  KLSDMYGRKRFSCLDLFFSLIGSALCGIAQTMNQLIIFRAIQGIGGGALLPIAFTIIFDL 128

Query: 146 FPTHRRVSAIGMISAGFLMAGILGQVWASYLNERLGWHAVFLL 188
           FP  +R    GM  A F ++ +LG +  + + + + WH VF +
Sbjct: 129 FPPEKRGKMSGMFGAVFGLSSVLGPLLGAIITDSISWHWVFYI 171


>MTH104 [GEPR] COG0477 Permeases of the major facilitator superfamily
          Length = 268

 Score = 50.8 bits (120), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 6/168 (3%), Positives = 22/168 (13%), Gaps = 4/168 (2%)

Query: 23  IHSNYRMISILLFFPALFILSALYITV--PLIPVFAGEFHISLEQXXXXXXXXXXXXXXX 80
              +  +               +       +    +      +                 
Sbjct: 2   NRVDLSIFIPDSLTAETG-DLKIKTYKVVLIARAASIFGVKRIVIYHDDADGEARFIRDI 60

Query: 81  XXXXXPLSDKLGRKRVMXXXXXXXXXXXXXXXXXXXFPALIVFRCIQGAVAATFSPVALT 140
                       +   +                       +     QG          L 
Sbjct: 61  LTYMDTPQYLRRKVFPIMRELKHVGILPPLRTPHHPTGKPVTGEYRQGLTVKRVKKGTLV 120

Query: 141 YAGEVFPTHRRVSAIGMISAGFLMAGILGQVWASYLNERLGWHAVFLL 188
             G       R          F +  +  ++           +  + +
Sbjct: 121 DIGADKLALCREKLTVNRIMSFRVVRLGKEILIEPDEPE-DRYWGYEV 167


>MTH1049 [K] COG0085 DNA-directed RNA polymerase, beta subunit/140 kD
           subunit
          Length = 268

 Score = 50.8 bits (120), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 6/168 (3%), Positives = 22/168 (13%), Gaps = 4/168 (2%)

Query: 23  IHSNYRMISILLFFPALFILSALYITV--PLIPVFAGEFHISLEQXXXXXXXXXXXXXXX 80
              +  +               +       +    +      +                 
Sbjct: 2   NRVDLSIFIPDSLTAETG-DLKIKTYKVVLIARAASIFGVKRIVIYHDDADGEARFIRDI 60

Query: 81  XXXXXPLSDKLGRKRVMXXXXXXXXXXXXXXXXXXXFPALIVFRCIQGAVAATFSPVALT 140
                       +   +                       +     QG          L 
Sbjct: 61  LTYMDTPQYLRRKVFPIMRELKHVGILPPLRTPHHPTGKPVTGEYRQGLTVKRVKKGTLV 120

Query: 141 YAGEVFPTHRRVSAIGMISAGFLMAGILGQVWASYLNERLGWHAVFLL 188
             G       R          F +  +  ++           +  + +
Sbjct: 121 DIGADKLALCREKLTVNRIMSFRVVRLGKEILIEPDEPE-DRYWGYEV 167


>BS_yfhI [G] COG2814 Arabinose efflux permease
          Length = 397

 Score = 50.8 bits (120), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 34/147 (23%), Positives = 60/147 (40%)

Query: 46  YITVPLIPVFAGEFHISLEQXXXXXXXXXXXXXXXXXXXXPLSDKLGRKRVMXXXXXXXX 105
           Y  + ++   A +FHI +                       +S KL RK V+        
Sbjct: 27  YAVMGILTSIANDFHIQVSSAGLLVTAYAASVCLTGPLVTIISVKLPRKPVLLGLMAIFI 86

Query: 106 XXXXXXXXXXXFPALIVFRCIQGAVAATFSPVALTYAGEVFPTHRRVSAIGMISAGFLMA 165
                      F  L + R +  ++   F  +A+ +A E+ P  +R +A   ++ G  +A
Sbjct: 87  LSNLMSALAPNFAVLAISRILSASIHGAFFAIAMVFASEMVPPEKRAAAAASMNGGLTVA 146

Query: 166 GILGQVWASYLNERLGWHAVFLLLAAV 192
            +LG  + SYL + L W AVF ++ A+
Sbjct: 147 LMLGVPFGSYLGDVLNWRAVFSIITAL 173


  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
   0.331    0.142    0.447 

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: 24,473,840
Number of extensions: 812996
Number of successful extensions: 2863
Number of sequences better than 1.0e-05: 15
Number of HSP's gapped: 2891
Number of HSP's successfully gapped: 15
Length of query: 413
Length of database: 38,378,431
Length adjustment: 109
Effective length of query: 304
Effective length of database: 25,807,025
Effective search space: 7845335600
Effective search space used: 7845335600
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 117 (49.7 bits)