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= 046061
         (505 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 = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 87/415 (20%), Positives = 173/415 (41%), Gaps = 26/415 (6%)

Query: 62  IVVSIFNYMLSFVTLMFTGHLGALELAGASIA-SVGIQGLAYGIMLGMASAVQTVCGQAY 120
           ++ S+    + FV  +  G + A+++A  SIA S+ +  + +G+  G+  A+  V  Q  
Sbjct: 22  LIASVAQTGMGFVDTIMAGGVSAIDMAAVSIAASIWLPSILFGV--GLLMALVPVVAQLN 79

Query: 121 GAKKYSAMGLICQRAIVLHLGAAVILTFLYWYSSPILRAIGQSDTIAEQGQVFARGLIPQ 180
           GA +   +     + ++L L  +V +  + + +  I+R +   + +A +   +   +I  
Sbjct: 80  GAGRQHKIPFEVHQGLILALLVSVPIIAVLFQTQFIIRFMDVEEAMATKTVGYMHAVIFA 139

Query: 181 LYAFAISCPMQRFLQAQNIVNPLAYMSVGVFLLHILLTWIVVF----VLDYXXXXXXXXX 236
           + A+ +   ++ F    ++  P   +     LL+I L WI V+      +          
Sbjct: 140 VPAYLLFQALRSFTDGMSLTKPAMVIGFIGLLLNIPLNWIFVYGKFGAPELGGVGCGVAT 199

Query: 237 XXXXXXXVIINGLYIVLSPSCKDTWTGLSIKAFRGIWP-----YFKLTVASAVMLCLEIW 291
                  +++   YIV S            + F    P      F+L    A  L  E+ 
Sbjct: 200 AIVYWIMLLLLLFYIVTSKRLAHVKV---FETFHKPQPKELIRLFRLGFPVAAALFFEV- 255

Query: 292 YNQGLVLISGLLTNP--TISLDSISICLNYLNWDMQFMLGLSTAASIRVSNELGAAHPRV 349
               L  +  LL  P  +  + +  + LN+ +    F + +  A SIRV ++LG    + 
Sbjct: 256 ---TLFAVVALLVAPLGSTVVAAHQVALNFSSLVFMFPMSIGAAVSIRVGHKLGEQDTKG 312

Query: 350 AKFSVIVVNATGILISIVFCAIVLIFRVGLSKLFTSDSEVIEAVSNLTPLLAISVFLNGI 409
           A  +  V   TG+  + +   + ++FR  ++ L+T +  V+     L    AI   ++ +
Sbjct: 313 AAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVALAMQLLLFAAIYQCMDAV 372

Query: 410 QPILSGVAIGSGWQAVVAYVNLATYYIIGLPIGCILGF-----KTILGVAGIWWG 459
           Q + +G   G      + +    +Y+++GLP G ILG      +  LG  G W G
Sbjct: 373 QVVAAGSLRGYKDMTAIFHRTFISYWVLGLPTGYILGMTNWLTEQPLGAKGFWLG 427


>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 = 32.7 bits (73), Expect = 0.47,   Method: Compositional matrix adjust.
 Identities = 26/128 (20%), Positives = 59/128 (46%)

Query: 330 LSTAASIRVSNELGAAHPRVAKFSVIVVNATGILISIVFCAIVLIFRVGLSKLFTSDSEV 389
           + +A ++R+   LG      A++   V   +G +++++    +++FR  L+ ++  D  V
Sbjct: 296 VGSAGTVRIGFSLGRREFSRARYISGVSLVSGWVLAVITVLSLVLFRSPLASMYNDDPAV 355

Query: 390 IEAVSNLTPLLAISVFLNGIQPILSGVAIGSGWQAVVAYVNLATYYIIGLPIGCILGFKT 449
           +   S +     +    +  Q I S    G     V  +++ A ++  GL  G +L ++ 
Sbjct: 356 LSIASTVLLFAGLFQPADFTQCIASYALRGYKVTKVPMFIHAAAFWGCGLLPGYLLAYRF 415

Query: 450 ILGVAGIW 457
            +G+ G W
Sbjct: 416 DMGIYGFW 423


>pdb|3FR7|A Chain A, Ketol-Acid Reductoisomerase (Kari) In Complex With Mg2+
 pdb|3FR7|B Chain B, Ketol-Acid Reductoisomerase (Kari) In Complex With Mg2+
 pdb|3FR8|A Chain A, Rice Ketolacid Reductoisomerase In Complex With Mg2+-Nadph
 pdb|3FR8|B Chain B, Rice Ketolacid Reductoisomerase In Complex With Mg2+-Nadph
          Length = 525

 Score = 30.0 bits (66), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 18/66 (27%), Positives = 31/66 (46%), Gaps = 10/66 (15%)

Query: 335 SIRVSNELGAAHPRVAKFSVIVVNATGILISIVFCAIVLIFRVGLSKLFTSDSEVIEAVS 394
           S R  N+LG  HP  A          G+ ++++   I ++ + G S     +  VIE+V 
Sbjct: 379 STRPENDLGPLHPFTA----------GVYVALMMAQIEVLRKKGHSYSEIINESVIESVD 428

Query: 395 NLTPLL 400
           +L P +
Sbjct: 429 SLNPFM 434


  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
   0.327    0.140    0.433 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,077,200
Number of Sequences: 62578
Number of extensions: 410952
Number of successful extensions: 887
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: 883
Number of HSP's gapped (non-prelim): 5
length of query: 505
length of database: 14,973,337
effective HSP length: 103
effective length of query: 402
effective length of database: 8,527,803
effective search space: 3428176806
effective search space used: 3428176806
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)