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= 013599
         (439 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 = 55.5 bits (132), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 72/389 (18%), Positives = 160/389 (41%), Gaps = 18/389 (4%)

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 XXXXXYKM-QLGLIGTAITLSFSWWVLIFGMFGYVACG---GCPRTWTGFSMEAFSDLWE 273
                +   +LG +G  +  +  +W+++  +  Y+         + +  F      +L  
Sbjct: 180 FVYGKFGAPELGGVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKELIR 239

Query: 274 FVKLSVASGVMLCLENWYYRVLILMTGNLQNAKIAVDALSICMSINGWELMIPLSFFAGT 333
             +L       L  E   + V+ L+   L +  +A  A  + ++ +    M P+S  A  
Sbjct: 240 LFRLGFPVAAALFFEVTLFAVVALLVAPLGSTVVA--AHQVALNFSSLVFMFPMSIGAAV 297

Query: 334 GVRVSNELGAGNGKGARFATIVSVVTSIAIGVXXXXXXXXXHNELALIFSSSEAILQVVS 393
            +RV ++LG  + KGA  A  V ++T +A              ++AL+++ ++ ++ +  
Sbjct: 298 SIRVGHKLGEQDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVALAM 357

Query: 394 KMSILLAFTILLNSVQPVLSDSCFCYVNL 422
           ++ +  A    +++VQ V + S   Y ++
Sbjct: 358 QLLLFAAIYQCMDAVQVVAAGSLRGYKDM 386


>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 = 35.0 bits (79), Expect = 0.091,   Method: Compositional matrix adjust.
 Identities = 45/185 (24%), Positives = 75/185 (40%), Gaps = 23/185 (12%)

Query: 245 FGMFGYVACGGCPRTWTGFSMEAFSDLWEFVKLSVASGVMLCLENWYYRVLILMTGNLQN 304
           F  FG  A  G P  W       F  +W   K+    G+   LE   +  ++ +      
Sbjct: 223 FRPFGLTAKFGKP-DWA-----VFKQIW---KIGAPIGLSYFLEASAFSFIVFLIAPFGE 273

Query: 305 AKIAVDALSICMSINGWELMIPLSFFAGTGVRVSNELGAGNGKGARFATIVSVVTSIAIG 364
             +A   + I  S++G   MIP S  +   VR+   LG      AR+ + VS+V+   + 
Sbjct: 274 DYVAAQQVGI--SLSGILYMIPQSVGSAGTVRIGFSLGRREFSRARYISGVSLVSGWVLA 331

Query: 365 VXXXXXXXXXHNELALIFSSSEAILQVVSKMSILLAFTILLNS--VQPVLSDSCFCYVNL 422
           V          + LA +++   A+L + S        T+LL +   QP  +D   C  + 
Sbjct: 332 VITVLSLVLFRSPLASMYNDDPAVLSIAS--------TVLLFAGLFQP--ADFTQCIASY 381

Query: 423 FLKGW 427
            L+G+
Sbjct: 382 ALRGY 386


  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    0.442 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,000,757
Number of Sequences: 62578
Number of extensions: 382157
Number of successful extensions: 823
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): 6
length of query: 439
length of database: 14,973,337
effective HSP length: 102
effective length of query: 337
effective length of database: 8,590,381
effective search space: 2894958397
effective search space used: 2894958397
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)