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= 043987
         (152 letters)

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

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



>pdb|2YLL|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
           Molecular Insights Into N-Glycan Recognition And
           Hydrolysis
          Length = 454

 Score = 26.2 bits (56), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 12/23 (52%), Positives = 15/23 (65%)

Query: 43  SSSSVAEKGHFVIYTTDQRRYVL 65
           SS  +AEKGH ++ T D   YVL
Sbjct: 290 SSKLLAEKGHQILNTNDAWYYVL 312


>pdb|2YL6|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
           Molecular Insights Into N-Glycan Recognition And
           Hydrolysis
          Length = 434

 Score = 26.2 bits (56), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 12/23 (52%), Positives = 15/23 (65%)

Query: 43  SSSSVAEKGHFVIYTTDQRRYVL 65
           SS  +AEKGH ++ T D   YVL
Sbjct: 270 SSKLLAEKGHQILNTNDAWYYVL 292


>pdb|2YL8|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
           Molecular Insights Into N-Glycan Recognition And
           Hydrolysis
          Length = 434

 Score = 26.2 bits (56), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 12/23 (52%), Positives = 15/23 (65%)

Query: 43  SSSSVAEKGHFVIYTTDQRRYVL 65
           SS  +AEKGH ++ T D   YVL
Sbjct: 270 SSKLLAEKGHQILNTNDAWYYVL 292


>pdb|1OLT|A Chain A, Coproporphyrinogen Iii Oxidase (Hemn) From Escherichia
           Coli Is A Radical Sam Enzyme
          Length = 457

 Score = 25.8 bits (55), Expect = 9.7,   Method: Composition-based stats.
 Identities = 13/40 (32%), Positives = 21/40 (52%)

Query: 68  TYLNSSIFLELLKLSEEEYGLKSDGPITLPCDAVFMDLVV 107
           TYLN +    L+KL  E +   +D  I++  D   ++L V
Sbjct: 116 TYLNKAQISRLMKLLRENFQFNADAEISIEVDPREIELDV 155


  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
   0.319    0.133    0.376 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,974,319
Number of Sequences: 62578
Number of extensions: 143014
Number of successful extensions: 246
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 242
Number of HSP's gapped (non-prelim): 5
length of query: 152
length of database: 14,973,337
effective HSP length: 90
effective length of query: 62
effective length of database: 9,341,317
effective search space: 579161654
effective search space used: 579161654
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)