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= 009588
         (531 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 = 62.8 bits (151), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 88/418 (21%), Positives = 172/418 (41%), Gaps = 37/418 (8%)

Query: 53  SISEIITESKSLFNLAFPIALTALIIYSRSILSMLFLGHLGDLELAGGSLAIAFANITGY 112
           S+     E+ +L  LA P+ + ++       +  +  G +  +++A  S+A   A+I   
Sbjct: 3   SVHRYKKEASNLIKLATPVLIASVAQTGMGFVDTIMAGGVSAIDMAAVSIA---ASIWLP 59

Query: 113 SVLSGLALGME--PLCSQAFGAQRPKLLSLTLQRSVXXXXXXXXXXXXXXXNMSKILLYL 170
           S+L G+ L M   P+ +Q  GA R   +   + + +                   I+ ++
Sbjct: 60  SILFGVGLLMALVPVVAQLNGAGRQHKIPFEVHQGLILALLVSVPIIAVLFQTQFIIRFM 119

Query: 171 HQDPNITRIAHSYL---LFCLPDLLTNSFVHPIRIYLRAQGITHPLTLASLAGTIIHLPI 227
             +  +      Y+   +F +P  L       +R +     +T P  +    G ++++P+
Sbjct: 120 DVEEAMATKTVGYMHAVIFAVPAYL---LFQALRSFTDGMSLTKPAMVIGFIGLLLNIPL 176

Query: 228 NFLLVTHLRXXXXXXXXXXXXSNLCV----LFSLVVYIWASGLHE-----PTWTKPTREC 278
           N++ V                +   V    L  L+ YI  S          T+ KP  + 
Sbjct: 177 NWIFVYGKFGAPELGGVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKE 236

Query: 279 LTGWKPLLKLAAPSCVSVCLEWWWYEIMIVLCGLLVDP--KSTVASMGILIQTTSLIYVF 336
           L     L +L  P   ++  E      +  +  LLV P   + VA+  + +  +SL+++F
Sbjct: 237 LI---RLFRLGFPVAAALFFE----VTLFAVVALLVAPLGSTVVAAHQVALNFSSLVFMF 289

Query: 337 PSSLGFAVSTRVGNELGANRPERAKLSAVVAVF----VAAIMGLSATVFASGMRDRWGRL 392
           P S+G AVS RVG++LG    + A ++A V +      A I  L   +F    R++   L
Sbjct: 290 PMSIGAAVSIRVGHKLGEQDTKGAAIAANVGLMTGLATACITALLTVLF----REQIALL 345

Query: 393 FTNDKEIIRLTSAALPILGLCELGNCPQTVGCGVLRGSARPSIAANVNLSAFYLAGMP 450
           +T ++ ++ L    L    + +  +  Q V  G LRG    +   +    ++++ G+P
Sbjct: 346 YTENQVVVALAMQLLLFAAIYQCMDAVQVVAAGSLRGYKDMTAIFHRTFISYWVLGLP 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 = 54.7 bits (130), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 87/419 (20%), Positives = 166/419 (39%), Gaps = 40/419 (9%)

Query: 53  SISEIITESKSLFNLAFPIALTALIIYSRSILSMLFLGHLGDLELAGGSL-AIAFANITG 111
           S S  + E + L  LA P+ L  +       +  +  G  G  +LA  +L + AFA +  
Sbjct: 5   SFSVFLKEIRLLTALALPMLLAQVAQVGIGFVDTVMAGGAGKEDLAAVALGSSAFATV-- 62

Query: 112 YSVLSGLALGMEPLCSQAFGAQRPKLLSLTLQRSVXXXXXXXXXXXXXX-XNMSKILLYL 170
           Y    G+   + P+ +Q +GA +      T ++ +                 ++    +L
Sbjct: 63  YITFMGIMAALNPMIAQLYGAGKTGEAGETGRQGIWFGLILGIFGMILMWAAITPFRNWL 122

Query: 171 HQDPNITRIAHSYLLF---CLPDLLTNSFVHPIRIYLRAQGITHP--LTLASLAGTIIHL 225
                +      Y+LF    +P  + +  +H       A  +  P  + L S A  ++++
Sbjct: 123 TLSDYVEGTMAQYMLFTSLAMPAAMVHRALHA-----YASSLNRPRLIMLVSFAAFVLNV 177

Query: 226 PINFLLVTHLRXXXXXXXXXXXXSNLCVLF----SLVVYIWASGLHEP-----TWTKPTR 276
           P+N++ V                + + V +    +L +YI       P      + KP  
Sbjct: 178 PLNYIFVYGKFGMPALGGAGCGVATMAVFWFSALALWIYIAKEKFFRPFGLTAKFGKPDW 237

Query: 277 ECLTGWKPLLKLAAPSCVSVCLEWWWYEIMIVLCGLLVDP--KSTVASMGILIQTTSLIY 334
                 K + K+ AP  +S  LE   +  ++     L+ P  +  VA+  + I  + ++Y
Sbjct: 238 AVF---KQIWKIGAPIGLSYFLEASAFSFIV----FLIAPFGEDYVAAQQVGISLSGILY 290

Query: 335 VFPSSLGFAVSTRVGNELGANRPERAK----LSAVVAVFVAAIMGLSATVFASGMRDRWG 390
           + P S+G A + R+G  LG     RA+    +S V    +A I  LS  +F    R    
Sbjct: 291 MIPQSVGSAGTVRIGFSLGRREFSRARYISGVSLVSGWVLAVITVLSLVLF----RSPLA 346

Query: 391 RLFTNDKEIIRLTSAALPILGLCELGNCPQTVGCGVLRGSARPSIAANVNLSAFYLAGM 449
            ++ +D  ++ + S  L   GL +  +  Q +    LRG     +   ++ +AF+  G+
Sbjct: 347 SMYNDDPAVLSIASTVLLFAGLFQPADFTQCIASYALRGYKVTKVPMFIHAAAFWGCGL 405


  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    0.137    0.421 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,551,241
Number of Sequences: 62578
Number of extensions: 433459
Number of successful extensions: 799
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: 796
Number of HSP's gapped (non-prelim): 4
length of query: 531
length of database: 14,973,337
effective HSP length: 103
effective length of query: 428
effective length of database: 8,527,803
effective search space: 3649899684
effective search space used: 3649899684
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 54 (25.4 bits)