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= 009192
         (540 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 = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 41/171 (23%), Positives = 74/171 (43%), Gaps = 2/171 (1%)

Query: 264 SDWLRLLKLCGPCCLTTCLEWWCYEILVLLSGRLANAKQAVGVIVIVLNFDCLLYSVMLS 323
            + +RL +L  P       E   + ++ LL   L +    V    + LNF  L++   +S
Sbjct: 235 KELIRLFRLGFPVAAALFFEVTLFAVVALLVAPLGST--VVAAHQVALNFSSLVFMFPMS 292

Query: 324 LATCTSTRVSNELGANRPRLAYRSAYVSLGVALVSGCVGALTMVGARGVWGPLFSHDKGI 383
           +    S RV ++LG    + A  +A V L   L + C+ AL  V  R     L++ ++ +
Sbjct: 293 IGAAVSIRVGHKLGEQDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVV 352

Query: 384 IRGVKKALLLMAVIEALNFPLTVCGGIVRGTARPWLAMHANVGGFYLLALP 434
           +    + LL  A+ + ++    V  G +RG        H     +++L LP
Sbjct: 353 VALAMQLLLFAAIYQCMDAVQVVAAGSLRGYKDMTAIFHRTFISYWVLGLP 403


>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 = 35.8 bits (81), Expect = 0.056,   Method: Compositional matrix adjust.
 Identities = 41/162 (25%), Positives = 70/162 (43%), Gaps = 19/162 (11%)

Query: 262 GVSDWL---RLLKLCGPCCLTTCLEWWCYEILVLLSGRLAN---AKQAVGVIVIVLNFDC 315
           G  DW    ++ K+  P  L+  LE   +  +V L         A Q VG+     +   
Sbjct: 233 GKPDWAVFKQIWKIGAPIGLSYFLEASAFSFIVFLIAPFGEDYVAAQQVGI-----SLSG 287

Query: 316 LLYSVMLSLATCTSTRVSNELGANRPRLAYRSAYVSLGVALVSGCVGA----LTMVGARG 371
           +LY +  S+ +  + R+   LG    R   R+ Y+S GV+LVSG V A    L++V  R 
Sbjct: 288 ILYMIPQSVGSAGTVRIGFSLGR---REFSRARYIS-GVSLVSGWVLAVITVLSLVLFRS 343

Query: 372 VWGPLFSHDKGIIRGVKKALLLMAVIEALNFPLTVCGGIVRG 413
               +++ D  ++      LL   + +  +F   +    +RG
Sbjct: 344 PLASMYNDDPAVLSIASTVLLFAGLFQPADFTQCIASYALRG 385


  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    0.136    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,186,310
Number of Sequences: 62578
Number of extensions: 325819
Number of successful extensions: 916
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: 914
Number of HSP's gapped (non-prelim): 3
length of query: 540
length of database: 14,973,337
effective HSP length: 104
effective length of query: 436
effective length of database: 8,465,225
effective search space: 3690838100
effective search space used: 3690838100
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: 54 (25.4 bits)