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= psy13000
         (65 letters)

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

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



>pdb|4ABM|A Chain A, Crystal Structure Of Chmp4b Hairpin
 pdb|4ABM|B Chain B, Crystal Structure Of Chmp4b Hairpin
 pdb|4ABM|C Chain C, Crystal Structure Of Chmp4b Hairpin
 pdb|4ABM|D Chain D, Crystal Structure Of Chmp4b Hairpin
          Length = 79

 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 29/45 (64%), Positives = 36/45 (80%)

Query: 15 GPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNGTKNKR 59
          G    EAIQ+LR+TE+ML KKQEFLEKKI +E+  A+ +GTKNKR
Sbjct: 1  GAMEQEAIQRLRDTEEMLSKKQEFLEKKIEQELTAAKKHGTKNKR 45


>pdb|3CEG|A Chain A, Crystal Structure Of The Ubc Domain Of Baculoviral Iap
           Repeat- Containing Protein 6
 pdb|3CEG|B Chain B, Crystal Structure Of The Ubc Domain Of Baculoviral Iap
           Repeat- Containing Protein 6
          Length = 323

 Score = 26.6 bits (57), Expect = 3.4,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 2/65 (3%)

Query: 1   MSFFKNIFGKTEEK-GPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNGTKNKR 59
           +S      G+ EEK  P T   +Q L   + +++  + +  +  G E +    +GT++ R
Sbjct: 170 LSILNTWHGRPEEKWNPQTSSFLQVLVSVQSLILVAEPYFNEP-GYERSRGTPSGTQSSR 228

Query: 60  EFDHN 64
           E+D N
Sbjct: 229 EYDGN 233


  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
   0.311    0.131    0.354 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,935,502
Number of Sequences: 62578
Number of extensions: 61037
Number of successful extensions: 182
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 180
Number of HSP's gapped (non-prelim): 7
length of query: 65
length of database: 14,973,337
effective HSP length: 36
effective length of query: 29
effective length of database: 12,720,529
effective search space: 368895341
effective search space used: 368895341
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 45 (21.9 bits)