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= 042512
         (513 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 = 83.6 bits (205), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 83/367 (22%), Positives = 153/367 (41%), Gaps = 15/367 (4%)

Query: 106 GLAMGMETICGQAFGAARYKXXXXXXXXXXXXXXXSSIPIAFLWLNMKTILLFCGQEQDI 165
           GL M +  +  Q  GA R                  S+PI  +    + I+ F   E+ +
Sbjct: 66  GLLMALVPVVAQLNGAGRQHKIPFEVHQGLILALLVSVPIIAVLFQTQFIIRFMDVEEAM 125

Query: 166 AHEAQIYLLYSLPDLIALSFLHPLRIYLRTQSITLPLTFCATFAIILHIPINYLLV---- 221
           A +   Y+   +  + A      LR +    S+T P        ++L+IP+N++ V    
Sbjct: 126 ATKTVGYMHAVIFAVPAYLLFQALRSFTDGMSLTKPAMVIGFIGLLLNIPLNWIFVYGKF 185

Query: 222 SVLNLGLKGIALSSVWTNFNLVISLILYIMISG--VHEKTWGGISLECFKEWRSLLNLAI 279
               LG  G  +++    + +++ L+ YI+ S    H K +        KE   L  L  
Sbjct: 186 GAPELGGVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKELIRLFRLGF 245

Query: 280 PSCISVCLEWWWYEIMILLCGLLLNPQATVASMGILIQTTSLIYIFPSSLSFGVSTRVGN 339
           P   ++  E   + ++ LL   L      VA+  + +  +SL+++FP S+   VS RVG+
Sbjct: 246 PVAAALFFEVTLFAVVALLVAPL--GSTVVAAHQVALNFSSLVFMFPMSIGAAVSIRVGH 303

Query: 340 ELGANCPKKAKLAAIIGLLSSFMLGFTALVFTAIVRNIWASMFTQDAEIIALTSMVLPII 399
           +LG    K A +AA +GL++         + T + R   A ++T++  ++AL   +L   
Sbjct: 304 KLGEQDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVALAMQLLLFA 363

Query: 400 GLCELGNCPQTTGCGVLRGTARPKLGANINLGCFYLVGMPVAV------WLSFYSGFDFE 453
            + +  +  Q    G LRG        +     ++++G+P         WL+       +
Sbjct: 364 AIYQCMDAVQVVAAGSLRGYKDMTAIFHRTFISYWVLGLPTGYILGMTNWLT-EQPLGAK 422

Query: 454 GLWCGLL 460
           G W G +
Sbjct: 423 GFWLGFI 429


>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 = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 68/323 (21%), Positives = 145/323 (44%), Gaps = 22/323 (6%)

Query: 172 YLLYS---LPDLIALSFLHPLRIYLRTQSITLPLTFCATFAIILHIPINYLLV----SVL 224
           Y+L++   +P  +    LH     L    + + ++F A    +L++P+NY+ V     + 
Sbjct: 135 YMLFTSLAMPAAMVHRALHAYASSLNRPRLIMLVSFAA---FVLNVPLNYIFVYGKFGMP 191

Query: 225 NLGLKGIALSSVWTNFNLVISLILYIMISGVHEKTWG--GISLECFK-EW---RSLLNLA 278
            LG  G  ++++   +   ++L +YI      EK +   G++ +  K +W   + +  + 
Sbjct: 192 ALGGAGCGVATMAVFWFSALALWIYI----AKEKFFRPFGLTAKFGKPDWAVFKQIWKIG 247

Query: 279 IPSCISVCLEWWWYEIMILLCGLLLNPQATVASMGILIQTTSLIYIFPSSLSFGVSTRVG 338
            P  +S  LE   +  ++ L       +  VA+  + I  + ++Y+ P S+    + R+G
Sbjct: 248 APIGLSYFLEASAFSFIVFLIAPF--GEDYVAAQQVGISLSGILYMIPQSVGSAGTVRIG 305

Query: 339 NELGANCPKKAKLAAIIGLLSSFMLGFTALVFTAIVRNIWASMFTQDAEIIALTSMVLPI 398
             LG     +A+  + + L+S ++L    ++   + R+  ASM+  D  ++++ S VL  
Sbjct: 306 FSLGRREFSRARYISGVSLVSGWVLAVITVLSLVLFRSPLASMYNDDPAVLSIASTVLLF 365

Query: 399 IGLCELGNCPQTTGCGVLRGTARPKLGANINLGCFYLVGMPVAVWLSFYSGFDFEGLWCG 458
            GL +  +  Q      LRG    K+   I+   F+  G+     L++       G W  
Sbjct: 366 AGLFQPADFTQCIASYALRGYKVTKVPMFIHAAAFWGCGLLPGYLLAYRFDMGIYGFWTA 425

Query: 459 LLAAQGSCVVTMLFVVARTDWDL 481
           L+A+     V +++ + +   +L
Sbjct: 426 LIASLTIAAVALVWCLEKYSMEL 448


  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    0.138    0.431 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,206,901
Number of Sequences: 62578
Number of extensions: 417059
Number of successful extensions: 789
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 783
Number of HSP's gapped (non-prelim): 4
length of query: 513
length of database: 14,973,337
effective HSP length: 103
effective length of query: 410
effective length of database: 8,527,803
effective search space: 3496399230
effective search space used: 3496399230
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: 54 (25.4 bits)