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= 006141
         (659 letters)

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

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



>pdb|3LLO|A Chain A, Crystal Structure Of The Stas Domain Of Motor Protein
           Prestin (Anion Transporter Slc26a5)
          Length = 143

 Score = 56.2 bits (134), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 56/118 (47%), Gaps = 7/118 (5%)

Query: 504 PKTVMLGNMPGSDIYRDLHHYNEAIRIPGFLILSIEAPINFANTTYLNERILRWIEEYEA 563
           P   +LG +P +D+Y D+  Y E   IPG  I  I API +AN+   +  + R       
Sbjct: 2   PSYTVLGQLPDTDVYIDIDAYEEVKEIPGIKIFQINAPIYYANSDLYSSALKR------- 54

Query: 564 EENLNKQSSLRFVILEMSAVSAIDTSGTSFFKDLRKAMEKKGVELVLVNPLAEVLEKL 621
           +  +N   ++  VIL+ + V+ +D+ G      + K     G+ + L    A+V+  L
Sbjct: 55  KTGVNGSENIHTVILDFTQVNFMDSVGVKTLAGIVKEYGDVGIYVYLAGCSAQVVNDL 112


>pdb|2KLN|A Chain A, Solution Structure Of Stas Domain Of Rv1739c From M.
           Tuberculosis
          Length = 130

 Score = 40.0 bits (92), Expect = 0.004,   Method: Composition-based stats.
 Identities = 30/131 (22%), Positives = 63/131 (48%), Gaps = 15/131 (11%)

Query: 520 DLHHYNEAIRIPGFLILSIEAPINFANTTYLNERILRWIEEYEAEEN---LNKQSSLRFV 576
           D+  Y +A R+PG ++   +AP+ FAN      R L  +++   +     LN +S++   
Sbjct: 3   DIDDYPQAKRVPGLVVYRYDAPLCFANAEDFRRRALTVVDQDPGQVEWFVLNAESNVE-- 60

Query: 577 ILEMSAVSAIDTSGTSFFKDLRKAMEKKGVELVLVNPLAEVLEKLQRSDDSGDFKRPDSL 636
            ++++A+ A+D         LR  + ++G+   +     ++ E L R+    D    D +
Sbjct: 61  -VDLTALDALD--------QLRTELLRRGIVFAMARVKQDLRESL-RAASLLDKIGEDHI 110

Query: 637 YLTVGEAVASL 647
           ++T+  AV + 
Sbjct: 111 FMTLPTAVQAF 121


>pdb|1UJP|A Chain A, Crystal Structure Of Tryptophan Synthase A-Subunit From
           Thermus Thermophilus Hb8
 pdb|1WXJ|A Chain A, Crystal Structure Of Tryptophan Synthase A-Subunit With
           Indole-3- Propanol Phosphate From Thermus Thermophilus
           Hb8
          Length = 271

 Score = 32.0 bits (71), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 3/65 (4%)

Query: 66  LGKKWILAAQYIFPILEWGPNYSFKLFKSDIISGLTIASLAIPQGISYAKLANLPPIVGL 125
           L +K +    Y+ P+L WGP   F LFK    +G+ +  L   +     +LA     +GL
Sbjct: 89  LTEKPLFLMTYLNPVLAWGPERFFGLFKQAGATGVILPDLPPDEDPGLVRLAQ---EIGL 145

Query: 126 YSSFV 130
            + F+
Sbjct: 146 ETVFL 150


>pdb|2VJH|B Chain B, The Structure Of Phycoerythrin From Gloeobacter Violaceus
 pdb|2VJH|D Chain D, The Structure Of Phycoerythrin From Gloeobacter Violaceus
          Length = 177

 Score = 28.9 bits (63), Expect = 9.8,   Method: Composition-based stats.
 Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 3/36 (8%)

Query: 357 GRTFAALKNYQVDGNKEMIAIGVMNIVGSSTSCYIT 392
           G   AALK Y  +GNK + A+   N + S+ SC ++
Sbjct: 21  GAELAALKTYIANGNKRLDAV---NAITSNASCIVS 53


  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
   0.322    0.138    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,925,729
Number of Sequences: 62578
Number of extensions: 695694
Number of successful extensions: 1558
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1555
Number of HSP's gapped (non-prelim): 10
length of query: 659
length of database: 14,973,337
effective HSP length: 105
effective length of query: 554
effective length of database: 8,402,647
effective search space: 4655066438
effective search space used: 4655066438
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)