BLASTP 2.2.26 [Sep-21-2011]


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= 011609
         (481 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|3MKT|A Chain A, Structure Of A Cation-Bound Multidrug And Toxin Compound
           Extrusion (Mate) Transporter
 pdb|3MKT|B Chain B, Structure Of A Cation-Bound Multidrug And Toxin Compound
           Extrusion (Mate) Transporter
 pdb|3MKU|A Chain A, Structure Of A Cation-Bound Multidrug And Toxin Compound
           Extrusion (Mate) Transporter
 pdb|3MKU|B Chain B, Structure Of A Cation-Bound Multidrug And Toxin Compound
           Extrusion (Mate) Transporter
          Length = 460

 Score = 65.1 bits (157), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 86/429 (20%), Positives = 175/429 (40%), Gaps = 29/429 (6%)

Query: 39  ESKKLWYIVGPAIFSRLASYSMLVITQAFAGHLGDIELAAISIANNV-IVGFDFGLLLGM 97
           E+  L  +  P + + +A   M  +    AG +  I++AA+SIA ++ +    FG+  G+
Sbjct: 10  EASNLIKLATPVLIASVAQTGMGFVDTIMAGGVSAIDMAAVSIAASIWLPSILFGV--GL 67

Query: 98  ASALETLCGQAFGAKRYYMLGVYMQRSWIXXXXXXXXXXXXXXXASPVLKLLGQPDDVAE 157
             AL  +  Q  GA R + +   + +  I                  +++ +   + +A 
Sbjct: 68  LMALVPVVAQLNGAGRQHKIPFEVHQGLILALLVSVPIIAVLFQTQFIIRFMDVEEAMAT 127

Query: 158 LS---GMVSIWMIPLHFSFAFQFPLQRFLQSQLKNMVIAWVSLVALLVHIFVSWLFV--- 211
            +       I+ +P +  F     L+ F            +  + LL++I ++W+FV   
Sbjct: 128 KTVGYMHAVIFAVPAYLLFQ---ALRSFTDGMSLTKPAMVIGFIGLLLNIPLNWIFVYGK 184

Query: 212 -NRMQLGVIGTAATLNFSWWILVFGLFGYVSCG---GCPLTWTGFTLEAFSGLWQFVKLS 267
               +LG +G        +WI++  L  Y+           +  F       L +  +L 
Sbjct: 185 FGAPELGGVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKELIRLFRLG 244

Query: 268 AASGVMLCLENWYYRILISMTGNLQNAEIAVDALSICMTINGWEMMIPLAFFAGTGVRVA 327
                 L  E   + ++  +   L +  +A  A  + +  +    M P++  A   +RV 
Sbjct: 245 FPVAAALFFEVTLFAVVALLVAPLGSTVVA--AHQVALNFSSLVFMFPMSIGAAVSIRVG 302

Query: 328 NELGAGNGKGAKFAXXXXXXXXXXXGLFFWLLIMIYHNELALIFSSSEAVLQAVNKLSIL 387
           ++LG  + KGA  A                LL +++  ++AL+++ ++ V+    +L + 
Sbjct: 303 HKLGEQDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVALAMQLLLF 362

Query: 388 LAFTILLNSVQPI----LSGWQSYVA--YINLGCYYLIGVPLGCLMG---WVFHQ--GVM 436
            A    +++VQ +    L G++   A  +     Y+++G+P G ++G   W+  Q  G  
Sbjct: 363 AAIYQCMDAVQVVAAGSLRGYKDMTAIFHRTFISYWVLGLPTGYILGMTNWLTEQPLGAK 422

Query: 437 GIWAGMIFG 445
           G W G I G
Sbjct: 423 GFWLGFIIG 431


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.326    0.139    0.449 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,821,144
Number of Sequences: 62578
Number of extensions: 464867
Number of successful extensions: 929
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 926
Number of HSP's gapped (non-prelim): 1
length of query: 481
length of database: 14,973,337
effective HSP length: 103
effective length of query: 378
effective length of database: 8,527,803
effective search space: 3223509534
effective search space used: 3223509534
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (25.0 bits)