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= 030696
         (173 letters)

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

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



>pdb|3TDV|A Chain A, Structure Of The Gdp Complex Of Wild-Type Aminoglycoside
           2'- Phosphotransferase-Iiia
 pdb|3TDV|B Chain B, Structure Of The Gdp Complex Of Wild-Type Aminoglycoside
           2'- Phosphotransferase-Iiia
          Length = 306

 Score = 30.4 bits (67), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 4   TLRMASSIVLPIYPSYSPKLNHGSI 28
           TLR  S +  P+Y  Y+P+L HG +
Sbjct: 173 TLRFQSYMTHPVYTRYTPRLIHGDL 197


>pdb|3TDW|A Chain A, The Gdp Complex Of The Aminoglycoside
           2'-Phosphotransfere-Iiia F108l Mutant
          Length = 306

 Score = 30.4 bits (67), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 4   TLRMASSIVLPIYPSYSPKLNHGSI 28
           TLR  S +  P+Y  Y+P+L HG +
Sbjct: 173 TLRFQSYMTHPVYTRYTPRLIHGDL 197


>pdb|1JOC|A Chain A, Eea1 Homodimer Of C-Terminal Fyve Domain Bound To Inositol
           1,3-Diphosphate
 pdb|1JOC|B Chain B, Eea1 Homodimer Of C-Terminal Fyve Domain Bound To Inositol
           1,3-Diphosphate
          Length = 125

 Score = 26.9 bits (58), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 13/31 (41%), Positives = 15/31 (48%)

Query: 142 QGIIVKVRCLGCGGTGNIMCAECGGRGHCGP 172
           +G  V VR   C   GNI CAEC  +    P
Sbjct: 77  KGFSVTVRRHHCRQCGNIFCAECSAKNALTP 107


  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
   0.320    0.138    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,904,997
Number of Sequences: 62578
Number of extensions: 173322
Number of successful extensions: 417
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 408
Number of HSP's gapped (non-prelim): 13
length of query: 173
length of database: 14,973,337
effective HSP length: 92
effective length of query: 81
effective length of database: 9,216,161
effective search space: 746509041
effective search space used: 746509041
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: 48 (23.1 bits)