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= 013168
         (448 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 = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 88/435 (20%), Positives = 164/435 (37%), Gaps = 71/435 (16%)

Query: 41  IAAPMVAVTLSQYLLQVVSMMMVGHLGQLALSSTAMAIS--LASVTGFSVLLGMASALET 98
           +A P++  +++Q  +  V  +M G +  + +++ ++A S  L S+  F V  G+  AL  
Sbjct: 17  LATPVLIASVAQTGMGFVDTIMAGGVSAIDMAAVSIAASIWLPSIL-FGV--GLLMALVP 73

Query: 99  LCGQAYGAQQYQRIGTQTYTAIFCLFLVCFPLSFLWIYAGKLLVLIGQDPQISHEVGKFM 158
           +  Q  GA +  +I  + +  +    LV  P+  +      ++  +  +  ++ +   +M
Sbjct: 74  VVAQLNGAGRQHKIPFEVHQGLILALLVSVPIIAVLFQTQFIIRFMDVEEAMATKTVGYM 133

Query: 159 IWLLPALFAYATMQPLIRYFQSQSLIIPMFLSSCAALCLHIPICWSLVYKSXXXXXXXXX 218
             ++ A+ AY   Q L  +    SL  P  +     L L+IP+ W  VY           
Sbjct: 134 HAVIFAVPAYLLFQALRSFTDGMSLTKPAMVIGFIGLLLNIPLNWIFVYGKFGAPELGGV 193

Query: 219 XXXXSN----WLNVTFLAIYMKFSTACAESRV------PISMELFQGIGEFFHFAIPSAV 268
               +     W+ +  L  Y+  S   A  +V      P   EL +     F    P A 
Sbjct: 194 GCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKELIR----LFRLGFPVAA 249

Query: 269 MICLEWWSFELLILMSGLLPNPQLETSVLSVCLNTIQTLYAIPYGLGAAV---------- 318
            +  E   F ++ L+    P      +   V LN    ++  P  +GAAV          
Sbjct: 250 ALFFEVTLFAVVALLVA--PLGSTVVAAHQVALNFSSLVFMFPMSIGAAVSIRVGHKLGE 307

Query: 319 -------------------------------RRVFGYVFSNEKQVVDYVTTMAPLVCLSV 347
                                          R     +++  + VV     +     +  
Sbjct: 308 QDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVALAMQLLLFAAIYQ 367

Query: 348 IMDSLQGVFSGVARGCGWQNIAAFVN--LGAFYLCGIPTAAILGF--WLK---FRGRGLW 400
            MD++Q V +G  R  G++++ A  +    ++++ G+PT  ILG   WL       +G W
Sbjct: 368 CMDAVQVVAAGSLR--GYKDMTAIFHRTFISYWVLGLPTGYILGMTNWLTEQPLGAKGFW 425

Query: 401 IGIQAGAFTQTLLLG 415
           +G   G     L+LG
Sbjct: 426 LGFIIGLSAAALMLG 440


>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 = 40.4 bits (93), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 43/182 (23%), Positives = 80/182 (43%), Gaps = 2/182 (1%)

Query: 27  TWGVLSGEVKKQGYIAAPMVAVTLSQYLLQVVSMMMVGHLGQLALSSTAMAISLASVTGF 86
           ++ V   E++    +A PM+   ++Q  +  V  +M G  G+  L++ A+  S A  T +
Sbjct: 5   SFSVFLKEIRLLTALALPMLLAQVAQVGIGFVDTVMAGGAGKEDLAAVALGSS-AFATVY 63

Query: 87  SVLLGMASALETLCGQAYGAQQYQRIGTQTYTAI-FCLFLVCFPLSFLWIYAGKLLVLIG 145
              +G+ +AL  +  Q YGA +    G      I F L L  F +  +W         + 
Sbjct: 64  ITFMGIMAALNPMIAQLYGAGKTGEAGETGRQGIWFGLILGIFGMILMWAAITPFRNWLT 123

Query: 146 QDPQISHEVGKFMIWLLPALFAYATMQPLIRYFQSQSLIIPMFLSSCAALCLHIPICWSL 205
               +   + ++M++   A+ A    + L  Y  S +    + L S AA  L++P+ +  
Sbjct: 124 LSDYVEGTMAQYMLFTSLAMPAAMVHRALHAYASSLNRPRLIMLVSFAAFVLNVPLNYIF 183

Query: 206 VY 207
           VY
Sbjct: 184 VY 185


  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
   0.326    0.137    0.427 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,462,911
Number of Sequences: 62578
Number of extensions: 415707
Number of successful extensions: 1000
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 995
Number of HSP's gapped (non-prelim): 5
length of query: 448
length of database: 14,973,337
effective HSP length: 102
effective length of query: 346
effective length of database: 8,590,381
effective search space: 2972271826
effective search space used: 2972271826
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)