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= 015929
         (398 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|3ZUX|A Chain A, Crystal Structure Of A Bacterial Homologue Of The Bile
           Acid Sodium Symporter Asbt
          Length = 332

 Score =  125 bits (313), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 104/310 (33%), Positives = 161/310 (51%), Gaps = 23/310 (7%)

Query: 92  PSAFGWFVQRGPASYSLSLGLIMLAMGLTLELKDLISLFMQRPLSILFGCAAQYTIMPTS 151
           P  F W    GP    L LG+IM  MGLTL+  D   LF + P  ++ G  AQ+ IMP +
Sbjct: 35  PDTFKW---AGPYIPWL-LGIIMFGMGLTLKPSDFDILF-KHPKVVIIGVIAQFAIMPAT 89

Query: 152 GVIVSKFLGLPPALSVGLILLSCCPGGTASNVVTLIARGDVPLSIVMTMCTTLGAVLFTP 211
              +SK L LP  ++VG+IL+ CCPGGTASNV+T +ARG+V LS+ +T  +TL + L TP
Sbjct: 90  AWCLSKLLNLPAEIAVGVILVGCCPGGTASNVMTYLARGNVALSVAVTSVSTLTSPLLTP 149

Query: 212 LLTKILAGTYVPVDAVKLSISTLQSAFPAAVKVVTPFTPLFAVLMSSLLACSVFSENLVR 271
            +  +LAG  + + A  + +S ++        V+ P   +  +++  +L     +E L  
Sbjct: 150 AIFLMLAGEMLEIQAAGMLMSIVK-------MVLLPI--VLGLIVHKVLGSK--TEKLTD 198

Query: 272 LKSSVVGAALTXXXXXXXXXXXXXXGELGVIILSVLLLHFA-GFFVGYLSAAICGFKEPQ 330
               V  AA+                E G++I +V++LH   G+ +G+ +A   G     
Sbjct: 199 ALPLVSVAAIVLIIGAVVGASKGKIMESGLLIFAVVVLHNGIGYLLGFFAAKWTGLPYDA 258

Query: 331 RRAISIEVGMQNS-SLGVVLATAHFTSSMVALPPAMSAVIMNIMGSTLGFFW-----RYI 384
           ++A++IEVGMQNS     + A     + +VA+P A+ +V  NI GS L  +W     ++ 
Sbjct: 259 QKALTIEVGMQNSGLAAALAAAHFAAAPVVAVPGALFSVWHNISGSLLATYWAAKAGKHK 318

Query: 385 DPSDSKTSPK 394
            P D   S  
Sbjct: 319 KPLDRAGSEN 328


>pdb|3ZUY|A Chain A, Crystal Structure Of A Bacterial Homologue Of The Bile
           Acid Sodium Symporter Asbt
          Length = 323

 Score =  124 bits (310), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 88/253 (34%), Positives = 137/253 (54%), Gaps = 17/253 (6%)

Query: 92  PSAFGWFVQRGPASYSLSLGLIMLAMGLTLELKDLISLFMQRPLSILFGCAAQYTIMPTS 151
           P  F W    GP    L LG+IM  MGLTL+  D   LF + P  ++ G  AQ+ IMP +
Sbjct: 30  PDTFKW---AGPYIPWL-LGIIMFGMGLTLKPSDFDILF-KHPKVVIIGVIAQFAIMPAT 84

Query: 152 GVIVSKFLGLPPALSVGLILLSCCPGGTASNVVTLIARGDVPLSIVMTMCTTLGAVLFTP 211
             ++SK L LP  ++VG+IL+ CCPGGTASNV+T +ARG+V LS+ +T  +TL + L TP
Sbjct: 85  AWLLSKLLNLPAEIAVGVILVGCCPGGTASNVMTYLARGNVALSVAVTSVSTLISPLLTP 144

Query: 212 LLTKILAGTYVPVDAVKLSISTLQSAFPAAVKVVTPFTPLFAVLMSSLLACSVFSENLVR 271
            +  +LAG  + + A  + +S ++        V+ P   +  +++  +L     +E L  
Sbjct: 145 AIFLMLAGEMLEIQAAGMLMSIVK-------MVLLPI--VLGLIVHKVLGSK--TEKLTD 193

Query: 272 LKSSVVGAALTXXXXXXXXXXXXXXGELGVIILSVLLLHFA-GFFVGYLSAAICGFKEPQ 330
               V  AA+                E G++I +V++LH   G+ +G+ +A   G     
Sbjct: 194 ALPLVSVAAIVLIIGAVVGASKGKIMESGLLIFAVVVLHNGIGYLLGFFAAKWTGLPYDA 253

Query: 331 RRAISIEVGMQNS 343
           ++ ++IEVGMQNS
Sbjct: 254 QKTLTIEVGMQNS 266


>pdb|1LDF|A Chain A, Crystal Structure Of The E. Coli Glycerol Facilitator
           (Glpf) Mutation W48f, F200t
          Length = 281

 Score = 29.6 bits (65), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 3/63 (4%)

Query: 112 LIMLAMGLTLELKDLISLFMQRPLSILFGCAAQYTIMPTSGVIVSKFLGLPPALSVGLIL 171
           LI   +G    LK   + F Q  +S++FG      I  T+GV  +    L PA+++ L L
Sbjct: 21  LIFFGVGCVAALKVAGASFGQWEISVIFGLGVAMAIYLTAGVSGAH---LNPAVTIALWL 77

Query: 172 LSC 174
            +C
Sbjct: 78  FAC 80


  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
   0.323    0.137    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,732,681
Number of Sequences: 62578
Number of extensions: 338520
Number of successful extensions: 659
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 651
Number of HSP's gapped (non-prelim): 5
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)