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= 0001.1366.p
         (302 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310857|ref|YP_003774949.1| drug/metabolite transporter (DM...   476   e-135
gi|300314029|ref|YP_003778121.1| permease [Herbaspirillum serope...    55   6e-09

>gi|300310857|ref|YP_003774949.1| drug/metabolite transporter (DMT)
           superfamily permease [Herbaspirillum seropedicae SmR1]
          Length = 298

 Score =  476 bits (1224), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 262/294 (89%), Positives = 278/294 (94%)

Query: 5   LSYKSLCFPLGAVLIWAGNTVISKMSAGVIAPEDISFYRWVLAALLMSPFLARSTWAARA 64
           + YK L FPLGAVLIWAGNTVISKMSA VIAPEDISFYRWVLAALLMSPFLAR TWAARA
Sbjct: 1   MHYKHLWFPLGAVLIWAGNTVISKMSASVIAPEDISFYRWVLAALLMSPFLARQTWAARA 60

Query: 65  QIRPHLGKILVLALLGMVLYQSLAYFAAATASATSMGIISSLMPLMTLVLSIKLLAEPPT 124
           QIRPHLGKI+VLALLGMVL+QSLAYFAAATASATSMGII+SLMPL+TLVLSIKLL+EPPT
Sbjct: 61  QIRPHLGKIVVLALLGMVLFQSLAYFAAATASATSMGIIASLMPLLTLVLSIKLLSEPPT 120

Query: 125 VGTLAGGILSLFGLAVLIGRGHPLALFEQGVVAGDLLMLAATVAYGLYGVMLRRWALPLR 184
           VGTL GGILSL GLAVLIGRGHPLALFEQGVV GDLLML AT+AYGLYGVMLRRWALPLR
Sbjct: 121 VGTLGGGILSLLGLAVLIGRGHPLALFEQGVVTGDLLMLLATIAYGLYGVMLRRWALPLR 180

Query: 185 TWQLLYLQVLMATVLLFPGFLLGHHSPITRANLPILLYAGIGASIISQFLWMRGVVHLGA 244
           TWQLLY+QVLMA VLLFPGF+LGHHSP+TR NLPILLYAGI ASIISQFLWMRGV +LGA
Sbjct: 181 TWQLLYMQVLMAVVLLFPGFVLGHHSPVTRENLPILLYAGIAASIISQFLWMRGVAYLGA 240

Query: 245 SRCAIFVNLMPIFTVIIAVLALGESLHGYHALGGSITLVGVMLAQVFKQRLRWR 298
           SRCAIFVNLMP+FTVIIAVLALGE LHGYHA+GG ITL GV++AQVF+QRLRWR
Sbjct: 241 SRCAIFVNLMPVFTVIIAVLALGEQLHGYHAVGGVITLGGVIMAQVFRQRLRWR 294


>gi|300314029|ref|YP_003778121.1| permease [Herbaspirillum
           seropedicae SmR1]
          Length = 310

 Score = 55.1 bits (131), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 68/261 (26%), Positives = 119/261 (45%), Gaps = 21/261 (8%)

Query: 39  ISFYRWVLAALLMSPFLARSTWAARAQIRPHLGKILVLALLGMVLYQSLAYFAAATASAT 98
           ++  RW+       P   +S W            + + + LG  L+        +  +A 
Sbjct: 50  VAMLRWLKKPASEQPLSTQSRW-----------LVFLESFLGNFLFTLCMITGVSMTNAV 98

Query: 99  SMGIISSLMPLMTLVLSIKLLAEPPTV---GTLAGGILSLFGLAVLIGRGHPLALFEQGV 155
           S G+I S +P +  V+S   L E  ++   G +A G + + GL  L   GH  +    G 
Sbjct: 99  SAGVIMSAIPAVVAVMSWIFLKEKISLRVWGAVACGAVGI-GLLSLAKDGHGASAASGGQ 157

Query: 156 VA--GDLLMLAATVAYGLYGVMLRRWALPLRTWQLLYLQVLMATVLLFP-GFLLGHHSPI 212
            A  G+ L+  A +    Y V+ ++    L   ++  +  L   +L+ P G     H   
Sbjct: 158 YAWLGNGLVFCAVLCEAAYAVIGKKLTAVLTPKRISAVINLWGLLLMTPMGVYTALHFDF 217

Query: 213 --TRANLP-ILLYAGIGASIISQFLWMRGVVHLGASRCAIFVNLMPIFTVIIAVLALGES 269
               AN+  +LL+ G+ AS+ + +LWM G+  + A+R  +F  ++P+   ++ VLALGES
Sbjct: 218 GAVPANMWWLLLFYGLAASVWTVWLWMTGLKVVPAARAGVFTVMLPVSAALVGVLALGES 277

Query: 270 LHGYHALGGSITLVGVMLAQV 290
           L    A   +I L G++LA +
Sbjct: 278 LSALQAGAFAIALAGMLLATL 298


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.329    0.141    0.431 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 961,696
Number of extensions: 40175
Number of successful extensions: 233
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 230
Number of HSP's successfully gapped: 5
Length of query: 302
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 217
Effective length of database: 1,217,395
Effective search space: 264174715
Effective search space used: 264174715
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 (21.8 bits)
S2: 130 (54.7 bits)