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= 017047
         (378 letters)

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

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



>pdb|4GQV|A Chain A, Crystal Structure Of Cbs-pair Protein, Cbsx1 From
           Arabidopsis Thaliana
          Length = 166

 Score = 31.6 bits (70), Expect = 0.76,   Method: Compositional matrix adjust.
 Identities = 30/104 (28%), Positives = 45/104 (43%), Gaps = 11/104 (10%)

Query: 55  DPKSGSARSSNLTKPTVSASLKTTNSVP----VTRRKSTGGLPEKSPASTTKQTITADSA 110
           D  SGS R+ N   P V ++ KT N+V      T  K  G L   +P    ++T   D+A
Sbjct: 63  DSISGSGRTENSMFPEVDSTWKTFNAVQKLLSKTNGKLVGDLMTPAPLVVEEKTNLEDAA 122

Query: 111 VGKKTNTVLSEPVRRSLPEIRRSS-LPSVVTKPTSTRASVSQTR 153
                  +L E   R LP +     L  ++T+    RA++   R
Sbjct: 123 ------KILLETKYRRLPVVDSDGKLVGIITRGNVVRAALQIKR 160


>pdb|3G3O|A Chain A, Crystal Structure Of The Cytoplasmic Tunnel Domain In
           Yeast Vtc2p
          Length = 392

 Score = 29.6 bits (65), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 18/59 (30%), Positives = 24/59 (40%)

Query: 55  DPKSGSARSSNLTKPTVSASLKTTNSVPVTRRKSTGGLPEKSPASTTKQTITADSAVGK 113
           DP   +    N      +  L   NS P  R + TG L +K      K+T+  D A GK
Sbjct: 114 DPLINTLYFDNEHFELYNDKLLKLNSAPTLRLRWTGQLSDKPDIFLEKKTLIEDEATGK 172


  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
   0.310    0.126    0.339 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,321,783
Number of Sequences: 62578
Number of extensions: 287514
Number of successful extensions: 633
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 603
Number of HSP's gapped (non-prelim): 42
length of query: 378
length of database: 14,973,337
effective HSP length: 100
effective length of query: 278
effective length of database: 8,715,537
effective search space: 2422919286
effective search space used: 2422919286
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: 52 (24.6 bits)