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= psy10679
         (62 letters)

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

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



>pdb|2ECE|A Chain A, X-Ray Structure Of Hypothetical Selenium-Binding Protein
           From Sulfolobus Tokodaii, St0059
          Length = 462

 Score = 41.2 bits (95), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/51 (41%), Positives = 31/51 (60%), Gaps = 6/51 (11%)

Query: 8   LVKINVNTEQGGLTLDEDFIVDLGLEPNGPALAHEIRYPGGDCTSDIWLVP 58
           +VK+N N   GGL +D++F VD G      A +H++R  GGD +SD +  P
Sbjct: 418 MVKLNANP-SGGLEIDKEFFVDFG-----EARSHQVRLSGGDASSDSYCYP 462


>pdb|1CII|A Chain A, Colicin Ia
          Length = 602

 Score = 25.4 bits (54), Expect = 8.3,   Method: Composition-based stats.
 Identities = 13/49 (26%), Positives = 23/49 (46%)

Query: 12  NVNTEQGGLTLDEDFIVDLGLEPNGPALAHEIRYPGGDCTSDIWLVPND 60
           ++NT +  LT  E  +      P+G  +    ++PG   T+D  +V  D
Sbjct: 241 SLNTARNALTRAEQQLTQQKNTPDGKTIVSPEKFPGRSSTNDSIVVSGD 289


  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
   0.315    0.140    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,264,756
Number of Sequences: 62578
Number of extensions: 82170
Number of successful extensions: 72
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 69
Number of HSP's gapped (non-prelim): 2
length of query: 62
length of database: 14,973,337
effective HSP length: 33
effective length of query: 29
effective length of database: 12,908,263
effective search space: 374339627
effective search space used: 374339627
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)