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= 023252
         (285 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 = 59.7 bits (143), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 54/224 (24%), Positives = 101/224 (45%), Gaps = 8/224 (3%)

Query: 5   KLGSNGAALAVGLSYWFNVLLLGFYIKYSSECEKTRA--SFSIDVFSSIKEFIRFSVPSA 62
           +LG  G  +A  + YW  +LLL FYI  S      +   +F       +    R   P A
Sbjct: 189 ELGGVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKELIRLFRLGFPVA 248

Query: 63  VMVCFEWWSYEVLILLSGLLPNPKLEASVFSLCFTITYLHYFIPYGFGSTVSTRVSNELG 122
             + FE   + V+ LL   L +  + A   +L F  + L +  P   G+ VS RV ++LG
Sbjct: 249 AALFFEVTLFAVVALLVAPLGSTVVAAHQVALNF--SSLVFMFPMSIGAAVSIRVGHKLG 306

Query: 123 AGNPKAAKMAVCAIIILAAAEMVTVSIVLLFCRHILGYALSSSENIVHRLADMVPFICLS 182
             + K A +A    ++   A     +++ +  R  +    + ++ +V     ++ F  + 
Sbjct: 307 EQDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVALAMQLLLFAAIY 366

Query: 183 IIMDSLQAVLSGVARGSGWQKIGAFVNLG--AYYLVGIPIAAVL 224
             MD++Q V +G  R  G++ + A  +    +Y+++G+P   +L
Sbjct: 367 QCMDAVQVVAAGSLR--GYKDMTAIFHRTFISYWVLGLPTGYIL 408


>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 = 29.6 bits (65), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 46/228 (20%), Positives = 90/228 (39%), Gaps = 6/228 (2%)

Query: 6   LGSNGAALAVGLSYWFNVLLLGFYI---KYSSECEKTRASFSIDVFSSIKEFIRFSVPSA 62
           LG  G  +A    +WF+ L L  YI   K+      T A F    ++  K+  +   P  
Sbjct: 193 LGGAGCGVATMAVFWFSALALWIYIAKEKFFRPFGLT-AKFGKPDWAVFKQIWKIGAPIG 251

Query: 63  VMVCFEWWSYEVLILLSGLLPNPKLEASVFSLCFTITYLHYFIPYGFGSTVSTRVSNELG 122
           +    E  ++  ++ L  + P  +   +   +  +++ + Y IP   GS  + R+   LG
Sbjct: 252 LSYFLEASAFSFIVFL--IAPFGEDYVAAQQVGISLSGILYMIPQSVGSAGTVRIGFSLG 309

Query: 123 AGNPKAAKMAVCAIIILAAAEMVTVSIVLLFCRHILGYALSSSENIVHRLADMVPFICLS 182
                 A+      ++      V   + L+  R  L    +    ++   + ++ F  L 
Sbjct: 310 RREFSRARYISGVSLVSGWVLAVITVLSLVLFRSPLASMYNDDPAVLSIASTVLLFAGLF 369

Query: 183 IIMDSLQAVLSGVARGSGWQKIGAFVNLGAYYLVGIPIAAVLAFVFQL 230
              D  Q + S   RG    K+  F++  A++  G+    +LA+ F +
Sbjct: 370 QPADFTQCIASYALRGYKVTKVPMFIHAAAFWGCGLLPGYLLAYRFDM 417


  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    0.139    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,329,985
Number of Sequences: 62578
Number of extensions: 267872
Number of successful extensions: 728
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 726
Number of HSP's gapped (non-prelim): 4
length of query: 285
length of database: 14,973,337
effective HSP length: 98
effective length of query: 187
effective length of database: 8,840,693
effective search space: 1653209591
effective search space used: 1653209591
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: 51 (24.3 bits)