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= 012113
         (470 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 = 98.6 bits (244), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 103/445 (23%), Positives = 189/445 (42%), Gaps = 17/445 (3%)

Query: 35  ELKRQMQLAGPLVLVSFLQYSFQMISVMFVGHLGDLSLSSASMATSFAGVTGFSYMLGMG 94
           E    ++LA P+++ S  Q     +  +  G +  + +++ S+A S   +    + +G+ 
Sbjct: 10  EASNLIKLATPVLIASVAQTGMGFVDTIMAGGVSAIDMAAVSIAASI-WLPSILFGVGLL 68

Query: 95  SAVETFCGQAFGAKQYRMMGVHMLRAMLVLSLSSIPIAVLWACTGKIFTTLHQDPEISFH 154
            A+     Q  GA +   +   + + +++  L S+PI  +   T  I   +  +  ++  
Sbjct: 69  MALVPVVAQLNGAGRQHKIPFEVHQGLILALLVSVPIIAVLFQTQFIIRFMDVEEAMATK 128

Query: 155 AGIYARWLIPSILPYGLLQCQHRFLQTQNNILPLMLTTGISTLVHVLSCWTLIFG-FG-- 211
              Y   +I ++  Y L Q    F    +   P M+   I  L+++   W  ++G FG  
Sbjct: 129 TVGYMHAVIFAVPAYLLFQALRSFTDGMSLTKPAMVIGFIGLLLNIPLNWIFVYGKFGAP 188

Query: 212 -FGNKGAALSNAISYWTNVIILAIYIKFSPKCE--KTWTGFSKEALENLRSFLGLGIPSA 268
             G  G  ++ AI YW  +++L  YI  S +    K +  F K   + L     LG P A
Sbjct: 189 ELGGVGCGVATAIVYWIMLLLLLFYIVTSKRLAHVKVFETFHKPQPKELIRLFRLGFPVA 248

Query: 269 LMVCLEFSSYEFLVLMSGLLPNPKLETSVMSISLNTISVVFRIPFGFGSAVSTRVSNELG 328
             +  E + +  + L+    P      +   ++LN  S+VF  P   G+AVS RV ++LG
Sbjct: 249 AALFFEVTLFAVVALLVA--PLGSTVVAAHQVALNFSSLVFMFPMSIGAAVSIRVGHKLG 306

Query: 329 AGKPYAARLAVQIVIILALTEGVLLSSIAVAARGIWGYVYSNDIEVIRYMASIMPVLALS 388
                 A +A  + ++  L    + + + V  R     +Y+ +  V+     ++   A+ 
Sbjct: 307 EQDTKGAAIAANVGLMTGLATACITALLTVLFREQIALLYTENQVVVALAMQLLLFAAIY 366

Query: 389 NFMDGIQGVLSGVARGCGWQKLGAYVNLGAYYLIGLPCAVYLAFVF-----QFGAKGLWM 443
             MD +Q V +G  RG        +    +Y+++GLP    L           GAKG W+
Sbjct: 367 QCMDAVQVVAAGSLRGYKDMTAIFHRTFISYWVLGLPTGYILGMTNWLTEQPLGAKGFWL 426

Query: 444 GIICGSGLQAFVLLVITLRTNWEQE 468
           G I G    A   L++  R  W Q+
Sbjct: 427 GFIIGLSAAA---LMLGQRLYWLQK 448


>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 = 58.9 bits (141), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 97/438 (22%), Positives = 183/438 (41%), Gaps = 26/438 (5%)

Query: 35  ELKRQMQLAGPLVLVSFLQYSFQMISVMFVGHLGDLSLSSASMATSFAGVTGFSYMLGMG 94
           E++    LA P++L    Q     +  +  G  G   L++ ++ +S A  T +   +G+ 
Sbjct: 12  EIRLLTALALPMLLAQVAQVGIGFVDTVMAGGAGKEDLAAVALGSS-AFATVYITFMGIM 70

Query: 95  SAVETFCGQAFGAKQYRMMGVHMLRAMLV-LSLSSIPIAVLWACTGKIFTTLHQDPEISF 153
           +A+     Q +GA +    G    + +   L L    + ++WA        L     +  
Sbjct: 71  AALNPMIAQLYGAGKTGEAGETGRQGIWFGLILGIFGMILMWAAITPFRNWLTLSDYVE- 129

Query: 154 HAGIYARWLIPSIL--PYGLL-QCQHRFLQTQNNILPLMLTTGISTLVHVLSCWTLIFG- 209
             G  A++++ + L  P  ++ +  H +  + N    +ML +  + +++V   +  ++G 
Sbjct: 130 --GTMAQYMLFTSLAMPAAMVHRALHAYASSLNRPRLIMLVSFAAFVLNVPLNYIFVYGK 187

Query: 210 FG---FGNKGAALSNAISYWTNVIILAIYI---KFSPKCEKTWTGFSKEALENLRSFLGL 263
           FG    G  G  ++    +W + + L IYI   KF      T   F K      +    +
Sbjct: 188 FGMPALGGAGCGVATMAVFWFSALALWIYIAKEKFFRPFGLT-AKFGKPDWAVFKQIWKI 246

Query: 264 GIPSALMVCLEFSSYEFLVLMSGLLPNPKLETSVMSISLNTISVVFRIPFGFGSAVSTRV 323
           G P  L   LE S++ F+V +        +    + ISL+ I  ++ IP   GSA + R+
Sbjct: 247 GAPIGLSYFLEASAFSFIVFLIAPFGEDYVAAQQVGISLSGI--LYMIPQSVGSAGTVRI 304

Query: 324 SNELGAGKPYAARLAVQIVIILALTEGVLLSSIAVAA----RGIWGYVYSNDIEVIRYMA 379
              LG  +   AR    +    +L  G +L+ I V +    R     +Y++D  V+   +
Sbjct: 305 GFSLGRREFSRARYISGV----SLVSGWVLAVITVLSLVLFRSPLASMYNDDPAVLSIAS 360

Query: 380 SIMPVLALSNFMDGIQGVLSGVARGCGWQKLGAYVNLGAYYLIGLPCAVYLAFVFQFGAK 439
           +++    L    D  Q + S   RG    K+  +++  A++  GL     LA+ F  G  
Sbjct: 361 TVLLFAGLFQPADFTQCIASYALRGYKVTKVPMFIHAAAFWGCGLLPGYLLAYRFDMGIY 420

Query: 440 GLWMGIICGSGLQAFVLL 457
           G W  +I    + A  L+
Sbjct: 421 GFWTALIASLTIAAVALV 438


>pdb|4GXP|A Chain A, Chimeric Family 1 Beta-Glucosidase Made With
           Non-Contiguous Schema
 pdb|4GXP|B Chain B, Chimeric Family 1 Beta-Glucosidase Made With
           Non-Contiguous Schema
 pdb|4GXP|C Chain C, Chimeric Family 1 Beta-Glucosidase Made With
           Non-Contiguous Schema
          Length = 467

 Score = 36.6 bits (83), Expect = 0.034,   Method: Compositional matrix adjust.
 Identities = 36/134 (26%), Positives = 55/134 (41%), Gaps = 11/134 (8%)

Query: 125 SLSSIPIAVLWACTGKI----FTTLHQDPEISFHAGIYA-RWLI--PSILPYGLLQCQHR 177
           + S  P  V    TG +    +    +D EI    G+ A R+ I  P ILP G  +   +
Sbjct: 44  TFSHTPGNVKNGDTGDVACDHYNRWKEDIEIIEKLGVKAYRFSISWPRILPEGTGRVNQK 103

Query: 178 FLQTQNNILPLMLTTGISTLVHVLSCWTLIFGFGFGNKGAALSNAISYWTNVIILAIYIK 237
            L   N I+  +L  GI+  V +   W L F      KG  L+  I+ W       ++  
Sbjct: 104 GLDFYNRIIDTLLEKGITPFVTIFH-WDLPFALQL--KGGLLNREIADWFAEYSRVLFEN 160

Query: 238 FSPKCEKTWTGFSK 251
           F  +  K W  F++
Sbjct: 161 FGDRV-KNWITFNE 173


  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    0.429 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,295,882
Number of Sequences: 62578
Number of extensions: 473654
Number of successful extensions: 931
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 922
Number of HSP's gapped (non-prelim): 9
length of query: 470
length of database: 14,973,337
effective HSP length: 102
effective length of query: 368
effective length of database: 8,590,381
effective search space: 3161260208
effective search space used: 3161260208
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)