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= 016063
         (396 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 = 46.2 bits (108), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 41/178 (23%), Positives = 78/178 (43%), Gaps = 5/178 (2%)

Query: 133 WWLIVILQLLYIFITK---SDGAWSGFSWLAFADLWAFVKLSLASAVMLCLEFWYLMLLV 189
           +W++++L L YI  +K       +  F      +L    +L    A  L  E     ++ 
Sbjct: 203 YWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKELIRLFRLGFPVAAALFFEVTLFAVVA 262

Query: 190 VITGRLPNALIAVDAISVCMNIQGWDAMIAIGFNAAISVRVSNELGAGNARAAKFSVLVV 249
           ++   L + ++A  A  V +N      M  +   AA+S+RV ++LG  + + A  +  V 
Sbjct: 263 LLVAPLGSTVVA--AHQVALNFSSLVFMFPMSIGAAVSIRVGHKLGEQDTKGAAIAANVG 320

Query: 250 SITAVTIGVCCTILVLATRYNFPFLFTNSEAVAAETTKLSILLAITVLMNCLQPVLSG 307
            +T +       +L +  R     L+T ++ V A   +L +  AI   M+ +Q V +G
Sbjct: 321 LMTGLATACITALLTVLFREQIALLYTENQVVVALAMQLLLFAAIYQCMDAVQVVAAG 378


  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
   0.327    0.136    0.436 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,208,094
Number of Sequences: 62578
Number of extensions: 278279
Number of successful extensions: 674
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 671
Number of HSP's gapped (non-prelim): 4
length of query: 396
length of database: 14,973,337
effective HSP length: 101
effective length of query: 295
effective length of database: 8,652,959
effective search space: 2552622905
effective search space used: 2552622905
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: 52 (24.6 bits)