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= 011863
         (476 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 = 56.6 bits (135), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 82/435 (18%), Positives = 176/435 (40%), Gaps = 38/435 (8%)

Query: 45  RRFWIESKKLWHIVGPTIFSRMASYSMFVITQAFAGHLGDLELAAISIANTV---VVAFN 101
            R+  E+  L  +  P + + +A   M  +    AG +  +++AA+SIA ++    + F 
Sbjct: 5   HRYKKEASNLIKLATPVLIASVAQTGMGFVDTIMAGGVSAIDMAAVSIAASIWLPSILFG 64

Query: 102 FGLLLGMASALETLCGQAFGGKKYYMLGVYMQRSWIVLFICCVLLLPLYVFASPVLKLLG 161
            GLL+    AL  +  Q  G  + + +   + +  I+  +  V ++ +      +++ + 
Sbjct: 65  VGLLM----ALVPVVAQLNGAGRQHKIPFEVHQGLILALLVSVPIIAVLFQTQFIIRFMD 120

Query: 162 QPDDVAELS-GVVSLWLLPVHFSFAFQFPLQRFLQSQLKT---MVIXXXXXXXXXXXXXX 217
             + +A  + G +   +  V     FQ  L+ F      T   MVI              
Sbjct: 121 VEEAMATKTVGYMHAVIFAVPAYLLFQ-ALRSFTDGMSLTKPAMVIGFIGLLLNIPLNWI 179

Query: 218 XXXXXY-KMQLGLIGTAITLSFSWWVLIFGMFGYVACG---GCPRTWTGFSMEAFSDLWE 273
                +   +LG +G  +  +  +W+++  +  Y+         + +  F      +L  
Sbjct: 180 FVYGKFGAPELGGVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKELIR 239

Query: 274 FVKLSVASGVMLCLENWYYRVLILMTGNLQNAKIAVDALS-----------------IWV 316
             +L       L  E   + V+ L+   L +  +A   ++                 + +
Sbjct: 240 LFRLGFPVAAALFFEVTLFAVVALLVAPLGSTVVAAHQVALNFSSLVFMFPMSIGAAVSI 299

Query: 317 RVSNELGAGNGKGARFATIVSVVTSIAIGVXXXXXXXXXHNELALIFSSSEAILQVVSKM 376
           RV ++LG  + KGA  A  V ++T +A              ++AL+++ ++ ++ +  ++
Sbjct: 300 RVGHKLGEQDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVALAMQL 359

Query: 377 SILLAFTILLNSVQPVLSGVAVGSGWQSIVAYINLGCYYLIGVPLGILLG---WVFHQ-- 431
            +  A    +++VQ V +G   G    + + +     Y+++G+P G +LG   W+  Q  
Sbjct: 360 LLFAAIYQCMDAVQVVAAGSLRGYKDMTAIFHRTFISYWVLGLPTGYILGMTNWLTEQPL 419

Query: 432 GVMGIWAGMIFGGTA 446
           G  G W G I G +A
Sbjct: 420 GAKGFWLGFIIGLSA 434


>pdb|4HUK|A Chain A, Mate Transporter Norm-ng In Complex With Tpp And Monobody
 pdb|4HUL|A Chain A, Mate Transporter Norm-ng In Complex With Cs+ And Monobody
 pdb|4HUM|A Chain A, Mate Transporter Norm-ng In Complex With Ethidium And
           Monobody
 pdb|4HUN|A Chain A, Mate Transporter Norm-ng In Complex With R6g And Monobody
          Length = 459

 Score = 36.6 bits (83), Expect = 0.035,   Method: Compositional matrix adjust.
 Identities = 28/126 (22%), Positives = 53/126 (42%)

Query: 316 VRVSNELGAGNGKGARFATIVSVVTSIAIGVXXXXXXXXXHNELALIFSSSEAILQVVSK 375
           VR+   LG      AR+ + VS+V+   + V          + LA +++   A+L + S 
Sbjct: 302 VRIGFSLGRREFSRARYISGVSLVSGWVLAVITVLSLVLFRSPLASMYNDDPAVLSIAST 361

Query: 376 MSILLAFTILLNSVQPVLSGVAVGSGWQSIVAYINLGCYYLIGVPLGILLGWVFHQGVMG 435
           + +        +  Q + S    G     +  +I+   ++  G+  G LL + F  G+ G
Sbjct: 362 VLLFAGLFQPADFTQCIASYALRGYKVTKVPMFIHAAAFWGCGLLPGYLLAYRFDMGIYG 421

Query: 436 IWAGMI 441
            W  +I
Sbjct: 422 FWTALI 427


  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    0.140    0.437 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,899,248
Number of Sequences: 62578
Number of extensions: 426876
Number of successful extensions: 825
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 817
Number of HSP's gapped (non-prelim): 8
length of query: 476
length of database: 14,973,337
effective HSP length: 102
effective length of query: 374
effective length of database: 8,590,381
effective search space: 3212802494
effective search space used: 3212802494
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)