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= 008270
         (571 letters)

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

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



>pdb|4FAJ|A Chain A, Structure And Mode Of Peptide Binding Of Pheromone
           Receptor Prgz
          Length = 564

 Score = 33.9 bits (76), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 11/79 (13%)

Query: 496 RNTDVRKALNCAIEQHMVIKR--------SLGALP---LYVPKNEKLWNCENLYGNPNQY 544
           +N +VRKA+N AI++  ++K+        S+G +P    + P N+K +  E L     + 
Sbjct: 334 QNKNVRKAINYAIDRESLVKKLLDNGSVASVGVVPKEMAFNPVNKKDFANEKLVEFNKKQ 393

Query: 545 PKEVWDRIQKFLTSSSGRS 563
            +E WD+ +K +  S   S
Sbjct: 394 AEEYWDKAKKEIDLSKNTS 412


>pdb|3LM8|A Chain A, Crystal Structure Of Thiamine Pyrophosphokinase From
           Bacillus Subtilis, Northeast Structural Genomics
           Consortium Target Sr677
 pdb|3LM8|B Chain B, Crystal Structure Of Thiamine Pyrophosphokinase From
           Bacillus Subtilis, Northeast Structural Genomics
           Consortium Target Sr677
 pdb|3LM8|C Chain C, Crystal Structure Of Thiamine Pyrophosphokinase From
           Bacillus Subtilis, Northeast Structural Genomics
           Consortium Target Sr677
 pdb|3LM8|D Chain D, Crystal Structure Of Thiamine Pyrophosphokinase From
           Bacillus Subtilis, Northeast Structural Genomics
           Consortium Target Sr677
          Length = 222

 Score = 30.8 bits (68), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 5/88 (5%)

Query: 46  DPHTIAQNISSALVKMNYCGPVSISAYGDTNRIPASVQHALSSTGIALNHVPAGVKDASD 105
           D HT+   +    V +   G + + A+GD + I    +  +     AL HV    KD +D
Sbjct: 23  DEHTLWIGVDKGTVTLLDAGIIPVEAFGDFDSITEQERRRIEKAAPAL-HVYQAEKDQTD 81

Query: 106 KKILVDMLFWAVDN-PAPSNYLLISGDR 132
             + +D   WA++  P       I+G R
Sbjct: 82  LDLALD---WALEKQPDIIQIFGITGGR 106


  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
   0.314    0.130    0.397 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,770,887
Number of Sequences: 62578
Number of extensions: 615922
Number of successful extensions: 757
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 757
Number of HSP's gapped (non-prelim): 2
length of query: 571
length of database: 14,973,337
effective HSP length: 104
effective length of query: 467
effective length of database: 8,465,225
effective search space: 3953260075
effective search space used: 3953260075
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (25.4 bits)