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= 012948
         (452 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 = 70.5 bits (171), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 68/312 (21%), Positives = 138/312 (44%), Gaps = 11/312 (3%)

Query: 43  EEAKNQVVFSLPMILANVFYYAIPLVSVMSAGHLGQLELAGATLANS-WATVTGFAFMIG 101
           +EA N +  + P+++A+V    +  V  + AG +  +++A  ++A S W  +    F +G
Sbjct: 9   KEASNLIKLATPVLIASVAQTGMGFVDTIMAGGVSAIDMAAVSIAASIW--LPSILFGVG 66

Query: 102 LSGALETLCGQGFGAKHYRMLGIYLQAXXXXXXXXXXXXXXXXXYTEPILILLHQDPSIS 161
           L  AL  +  Q  GA     +   +                    T+ I+  +  + +++
Sbjct: 67  LLMALVPVVAQLNGAGRQHKIPFEVHQGLILALLVSVPIIAVLFQTQFIIRFMDVEEAMA 126

Query: 162 KQAALYMKYLIPGLVAYGVIQNILRFLQTQSIVIPLIFFSALPMAIHFGIAYAFVY---- 217
            +   YM  +I  + AY + Q +  F    S+  P +    + + ++  + + FVY    
Sbjct: 127 TKTVGYMHAVIFAVPAYLLFQALRSFTDGMSLTKPAMVIGFIGLLLNIPLNWIFVYGKFG 186

Query: 218 LTSLGFKGASLAASVSLWISMLMLVTYVLCAKKFEH--TWEGFSFESFSFILTILKLALP 275
              LG  G  +A ++  WI +L+L+ Y++ +K+  H   +E F       ++ + +L  P
Sbjct: 187 APELGGVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKELIRLFRLGFP 246

Query: 276 SAAMVCLEYWAFEILVFLAGLMPNSELTTSLIAMCVNTESVAYMITYGLSAAASTRVSNE 335
            AA +  E   F ++  L   + ++ +    +A+  N  S+ +M    + AA S RV ++
Sbjct: 247 VAAALFFEVTLFAVVALLVAPLGSTVVAAHQVAL--NFSSLVFMFPMSIGAAVSIRVGHK 304

Query: 336 LGAGNPDQAKNA 347
           LG  +   A  A
Sbjct: 305 LGEQDTKGAAIA 316


>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 = 46.2 bits (108), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 78/324 (24%), Positives = 124/324 (38%), Gaps = 36/324 (11%)

Query: 42  LEEAKNQVVFSLPMILANVFYYAIPLVSVMSAGHLGQLELAGATLANSWATVTGFAFMIG 101
           L+E +     +LPM+LA V    I  V  + AG  G+ +LA   L +S A  T +   +G
Sbjct: 10  LKEIRLLTALALPMLLAQVAQVGIGFVDTVMAGGAGKEDLAAVALGSS-AFATVYITFMG 68

Query: 102 LSGALETLCGQGFGAKHYR--------------MLGIYLQAXXXXXXXXXXXXXXXXXYT 147
           +  AL  +  Q +GA                  +LGI+                    Y 
Sbjct: 69  IMAALNPMIAQLYGAGKTGEAGETGRQGIWFGLILGIFGMILMWAAITPFRNWLTLSDYV 128

Query: 148 EPILILLHQDPSISKQAALYMKYLIPGLVAYGVIQNILRFLQTQSIVIPLIFFSALPMAI 207
           E  +       S++  AA+  +     L AY    N  R       +I L+ F+A  + +
Sbjct: 129 EGTMAQYMLFTSLAMPAAMVHR----ALHAYASSLNRPR-------LIMLVSFAAFVLNV 177

Query: 208 HFGIAYAFVY----LTSLGFKGASLAASVSLWISMLMLVTYVLCAKKFE--HTWEGFSFE 261
              + Y FVY    + +LG  G  +A     W S L L  Y+   K F        F   
Sbjct: 178 P--LNYIFVYGKFGMPALGGAGCGVATMAVFWFSALALWIYIAKEKFFRPFGLTAKFGKP 235

Query: 262 SFSFILTILKLALPSAAMVCLEYWAFEILVFLAGLMPNSELTTSLIAMCVNTESVAYMIT 321
            ++    I K+  P      LE  AF  +VFL  + P  E   +   + ++   + YMI 
Sbjct: 236 DWAVFKQIWKIGAPIGLSYFLEASAFSFIVFL--IAPFGEDYVAAQQVGISLSGILYMIP 293

Query: 322 YGLSAAASTRVSNELGAGNPDQAK 345
             + +A + R+   LG     +A+
Sbjct: 294 QSVGSAGTVRIGFSLGRREFSRAR 317


  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
   0.324    0.135    0.407 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,950,793
Number of Sequences: 62578
Number of extensions: 369174
Number of successful extensions: 928
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: 924
Number of HSP's gapped (non-prelim): 5
length of query: 452
length of database: 14,973,337
effective HSP length: 102
effective length of query: 350
effective length of database: 8,590,381
effective search space: 3006633350
effective search space used: 3006633350
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)